=>> Building science/vmd build started at Mon Apr 1 17:40:59 BST 2024 port directory: /usr/ports/science/vmd package name: vmd-1.9.4_1 building for: FreeBSD pkg-builder.dan.net.uk 13.2-RELEASE-p10 FreeBSD 13.2-RELEASE-p10 amd64 maintained by: ports@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 6610 Apr 24 2023 /usr/ports/science/vmd/Makefile Ports top last git commit: c2c35d895e Ports top unclean checkout: yes Port dir last git commit: 8d3e020ed0 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.99.20240122_1 Host OSVERSION: 1400097 Jail OSVERSION: 1302001 Job Id: 03 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1302001 UNAME_v=FreeBSD 13.2-RELEASE-p10 UNAME_r=13.2-RELEASE-p10 BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.99.20240122_1 MASTERMNT=/usr/local/poudriere/data/.m/13-amd64-default-dan/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=screen OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/13-amd64-default-dan/03/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=13-amd64-default-dan SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/13-amd64-default-dan/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.99.20240122_1 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- ports@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- FREEBSDAMD64 OPENGL FLTK TK IMD TCL PTHREADS LIBTACHYON NETCDF NUMPY PYTHON --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON_INCLUDE_DIR=/usr/local/include/python3.9 PYTHON_LIBRARY_DIR=/usr/local/lib/python3.9 NUMPY_INCLUDE_DIR=/usr/local/lib/python3.9/site-packages/numpy/core/include NUMPY_LIBRARY_DIR=/usr/local/lib/python3.9/site-packages TCL_INCLUDE_DIR=/usr/local/include/tcl8.6 TCL_LIBRARY_DIR=/usr/local/lib TK_INCLUDE_DIR=/usr/local/include/tk8.6 TK_LIBRARY_DIR=/usr/local/lib MAKE=gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCACHE_DIR="/root/.ccache" --End CONFIGURE_ENV-- --MAKE_ENV-- EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=freebsd13 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" VMD_ARCH=FREEBSDAMD64 OSREL=13.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.36.3 PERL_VER=5.36 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.36 DOCSDIR="share/doc/vmd" EXAMPLESDIR="share/examples/vmd" DATADIR="share/vmd" WWWDIR="www/vmd" ETCDIR="etc/vmd" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=freebsd13 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/vmd DOCSDIR=/usr/local/share/doc/vmd EXAMPLESDIR=/usr/local/share/examples/vmd WWWDIR=/usr/local/www/vmd ETCDIR=/usr/local/etc/vmd --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### CCACHE_CPP2=1 WITH_SSP_PORTS=yes WITH_SSP=yes #WITH_LTO=yes DISABLE_LICENSES=yes LICENSES_ACCEPTED=AGPLv3 APACHE10 APACHE11 APACHE20 ART10 ARTPERL10 ART20 BSD BSD2CLAUSE BSD3CLAUSE BSD4CLAUSE BSL CC0-1.0 CDDL ClArtistic EPL GFDL GMGPL GPLv1 GPLv2 GPLv3 GPLv3RLE ISCL LGPL20 LGPL21 LGPL3 LPPL10 LPPL11 LPPL12 LPPL13 LPPL13a LPPL13b LPPL13c MIT MPL OpenSSL OFL10 OFL11 OWL PostgreSQL PHP202 PHP30 PHP301 PSFL RUBY ZLIB ZPL21 SVM-Light EULA ALASIR Microsoft-exFAT SIMIAN UDEVGAME unknown MTA COMMERCIAL teamspeak NO_LICENSES_DIALOGS=yes #### #### NO_IGNORE=yes DEFAULT_VERSIONS+=ssl=openssl mysql=8.0 imagemagick=7 samba=4.13 java=18 WITH_SETID_MODE=force PHP_ZTS=enabled OPTIONS_UNSET+=OPENJPEG OPTIONS_UNSET+=GSSAPI_BASE OPTIONS_SET+=ZTS OPTIONS_SET+=GSSAPI_NONE WITH_CCACHE_BUILD=yes CCACHE_DIR=/root/.ccache NO_CCACHE_DEPEND=1 CCACHE_WRAPPER_PATH= /ccache/libexec/ccache #### Misc Poudriere #### .include "/etc/make.conf.ports_env" GID=0 UID=0 DISABLE_MAKE_JOBS=poudriere ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 8192 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The vmd port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> vmd-1.9.4_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.20.9_1.pkg [pkg-builder.dan.net.uk] Installing pkg-1.20.9_1... [pkg-builder.dan.net.uk] Extracting pkg-1.20.9_1: .......... done ===> vmd-1.9.4_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of vmd-1.9.4_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The vmd port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> Fetching all distfiles required by vmd-1.9.4_1 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The vmd port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> Fetching all distfiles required by vmd-1.9.4_1 for building => SHA256 Checksum OK for vmd-1.9.4a57.src.tar.gz. => SHA256 Checksum OK for tachyon-0.99b6.tar.gz. => SHA256 Checksum OK for stride.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> NOTICE: The vmd port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> Fetching all distfiles required by vmd-1.9.4_1 for building ===> Extracting for vmd-1.9.4_1 => SHA256 Checksum OK for vmd-1.9.4a57.src.tar.gz. => SHA256 Checksum OK for tachyon-0.99b6.tar.gz. => SHA256 Checksum OK for stride.tar.gz. /bin/mkdir -p /wrkdirs/usr/ports/science/vmd/work /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride /usr/bin/tar -xzf /portdistfiles/vmd-1.9.4a57.src.tar.gz -C /wrkdirs/usr/ports/science/vmd/work /usr/bin/tar -xzf /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf/surf.tar.Z -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf /usr/bin/tar -xzf /portdistfiles/tachyon-0.99b6.tar.gz -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib /usr/bin/tar -xzf /portdistfiles/stride.tar.gz -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for vmd-1.9.4_1 ===> Applying FreeBSD patches for vmd-1.9.4_1 from /usr/ports/science/vmd/files /usr/bin/sed -i.bak -e "s|-lpython2.5|-lpython3.9|" -e "s|/usr/local|/usr/local|g" -e "s|-fno-for-scope||g" -e "s/\"gcc\"/\"cc\"/;s/\"g++\"/\"c++\"/" /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/configure /usr/bin/sed -i.bak -e "s/.SILENT:/#.SILENT:/" /wrkdirs/usr/ports/science/vmd/work/plugins/Makefile /usr/bin/sed -i.bak "s/.SILENT:/#.SILENT:/" /wrkdirs/usr/ports/science/vmd/work/plugins/*/Makefile /usr/bin/sed -i.bak "s%log2f(\([^ ,]*\))%logf(\1)/(float)M_LN2%g" /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/src/Orbital.C /usr/bin/sed -i.bak -E "s/(SHLD[[:space:]]*=[[:space:]]*)gcc/\1cc/" /wrkdirs/usr/ports/science/vmd/work/plugins/Make-arch /usr/bin/sed -i.bak -E "s/(CC[[:space:]]*=[[:space:]]*)(gcc|cc)/\1cc/" /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride/Makefile /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf/Makefile /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix/Make-arch /wrkdirs/usr/ports/science/vmd/work/plugins/cionize/Makefile.specialbuilds /wrkdirs/usr/ports/science/vmd/work/plugins/cionize/Makefile.mine /wrkdirs/usr/ports/science/vmd/work/plugins/cionize/Makefile.testing /wrkdirs/usr/ports/science/vmd/work/plugins/Make-arch /wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin/f77/Makefile /usr/bin/sed -i.bak -E "s/(CXX[[:space:]]*=[[:space:]]*)g\+\+/\1c++/" /wrkdirs/usr/ports/science/vmd/work/plugins/fmtool/Makefile.specialbuilds /wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans/src/foo/Makefile /wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans/src/foo/nm_gnu.mak /wrkdirs/usr/ports/science/vmd/work/plugins/Make-arch /usr/bin/sed -i.bak -e "s/return *;/return 0;/g" /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf/*.c =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> vmd-1.9.4_1 depends on executable: makedepend - not found ===> Installing existing package /packages/All/makedepend-1.0.9,1.pkg [pkg-builder.dan.net.uk] Installing makedepend-1.0.9,1... [pkg-builder.dan.net.uk] Extracting makedepend-1.0.9,1: .. done ===> vmd-1.9.4_1 depends on executable: makedepend - found ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on package: py39-numpy>=1.16,1<1.26,1 - not found ===> Installing existing package /packages/All/py39-numpy-1.25.0_6,1.pkg [pkg-builder.dan.net.uk] Installing py39-numpy-1.25.0_6,1... [pkg-builder.dan.net.uk] `-- Installing gcc13-13.2.0_4... [pkg-builder.dan.net.uk] | `-- Installing binutils-2.40_5,1... [pkg-builder.dan.net.uk] | | `-- Installing gettext-runtime-0.22.3_1... [pkg-builder.dan.net.uk] | | `-- Installing indexinfo-0.3.1... [pkg-builder.dan.net.uk] | | `-- Extracting indexinfo-0.3.1: . done [pkg-builder.dan.net.uk] | | `-- Extracting gettext-runtime-0.22.3_1: .......... done [pkg-builder.dan.net.uk] | | `-- Installing zstd-1.5.5_1... [pkg-builder.dan.net.uk] | | `-- Installing liblz4-1.9.4_1,1... [pkg-builder.dan.net.uk] | | `-- Extracting liblz4-1.9.4_1,1: .......... done [pkg-builder.dan.net.uk] | | `-- Extracting zstd-1.5.5_1: .......... done [pkg-builder.dan.net.uk] | `-- Extracting binutils-2.40_5,1: .......... done [pkg-builder.dan.net.uk] | `-- Installing gmp-6.3.0... [pkg-builder.dan.net.uk] | `-- Extracting gmp-6.3.0: .......... done [pkg-builder.dan.net.uk] | `-- Installing mpc-1.3.1_1... [pkg-builder.dan.net.uk] | | `-- Installing mpfr-4.2.1,1... [pkg-builder.dan.net.uk] | | `-- Extracting mpfr-4.2.1,1: .......... done [pkg-builder.dan.net.uk] | `-- Extracting mpc-1.3.1_1: ...... done [pkg-builder.dan.net.uk] `-- Extracting gcc13-13.2.0_4: .......... done create symlink for gcc13 create symlink for gcc13 (world) create symlink for g++13 create symlink for g++13 (world) create symlink for cpp13 create symlink for cpp13 (world) [pkg-builder.dan.net.uk] `-- Installing openblas-0.3.25,2... [pkg-builder.dan.net.uk] `-- Extracting openblas-0.3.25,2: .......... done [pkg-builder.dan.net.uk] `-- Installing py39-setuptools-63.1.0_1... [pkg-builder.dan.net.uk] | `-- Installing python39-3.9.18_1... [pkg-builder.dan.net.uk] | | `-- Installing libffi-3.4.4_1... [pkg-builder.dan.net.uk] | | `-- Extracting libffi-3.4.4_1: .......... done [pkg-builder.dan.net.uk] | | `-- Installing mpdecimal-2.5.1... [pkg-builder.dan.net.uk] | | `-- Extracting mpdecimal-2.5.1: .......... done [pkg-builder.dan.net.uk] | | `-- Installing openssl-3.0.13_1,1... [pkg-builder.dan.net.uk] | | `-- Extracting openssl-3.0.13_1,1: .......... done [pkg-builder.dan.net.uk] | | `-- Installing readline-8.2.10... [pkg-builder.dan.net.uk] | | `-- Extracting readline-8.2.10: .......... done [pkg-builder.dan.net.uk] | `-- Extracting python39-3.9.18_1: .......... done [pkg-builder.dan.net.uk] `-- Extracting py39-setuptools-63.1.0_1: .......... done [pkg-builder.dan.net.uk] `-- Installing suitesparse-umfpack-6.3.2... [pkg-builder.dan.net.uk] | `-- Installing suitesparse-amd-3.3.1... [pkg-builder.dan.net.uk] | | `-- Installing suitesparse-config-7.6.1... [pkg-builder.dan.net.uk] | | `-- Extracting suitesparse-config-7.6.1: .......... done [pkg-builder.dan.net.uk] | `-- Extracting suitesparse-amd-3.3.1: .......... done [pkg-builder.dan.net.uk] | `-- Installing suitesparse-camd-3.3.1... [pkg-builder.dan.net.uk] | `-- Extracting suitesparse-camd-3.3.1: .......... done [pkg-builder.dan.net.uk] | `-- Installing suitesparse-ccolamd-3.3.2... [pkg-builder.dan.net.uk] | `-- Extracting suitesparse-ccolamd-3.3.2: .......... done [pkg-builder.dan.net.uk] | `-- Installing suitesparse-cholmod-5.2.0... [pkg-builder.dan.net.uk] | | `-- Installing suitesparse-colamd-3.3.2... [pkg-builder.dan.net.uk] | | `-- Extracting suitesparse-colamd-3.3.2: .......... done [pkg-builder.dan.net.uk] | `-- Extracting suitesparse-cholmod-5.2.0: .......... done [pkg-builder.dan.net.uk] `-- Extracting suitesparse-umfpack-6.3.2: .......... done [pkg-builder.dan.net.uk] Extracting py39-numpy-1.25.0_6,1: .......... done ===== Message from gcc13-13.2.0_4: -- To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc13 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===== Message from python39-3.9.18_1: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py39-gdbm databases/py-gdbm@py39 py39-sqlite3 databases/py-sqlite3@py39 py39-tkinter x11-toolkits/py-tkinter@py39 ===> vmd-1.9.4_1 depends on package: py39-numpy>=1.16,1<1.26,1 - found ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [pkg-builder.dan.net.uk] Installing gmake-4.4.1... [pkg-builder.dan.net.uk] Extracting gmake-4.4.1: .......... done ===> vmd-1.9.4_1 depends on package: gmake>=4.4.1 - found ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on file: /usr/local/bin/python3.9 - found ===> vmd-1.9.4_1 depends on package: xorgproto>=0 - not found ===> Installing existing package /packages/All/xorgproto-2023.2.pkg [pkg-builder.dan.net.uk] Installing xorgproto-2023.2... [pkg-builder.dan.net.uk] Extracting xorgproto-2023.2: .......... done ===> vmd-1.9.4_1 depends on package: xorgproto>=0 - found ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on package: xorgproto>=0 - found ===> vmd-1.9.4_1 depends on file: /usr/local/libdata/pkgconfig/x11.pc - not found ===> Installing existing package /packages/All/libX11-1.8.7_1,1.pkg [pkg-builder.dan.net.uk] Installing libX11-1.8.7_1,1... [pkg-builder.dan.net.uk] `-- Installing libxcb-1.16.1... [pkg-builder.dan.net.uk] | `-- Installing libXau-1.0.9_1... [pkg-builder.dan.net.uk] | `-- Extracting libXau-1.0.9_1: .......... done [pkg-builder.dan.net.uk] | `-- Installing libXdmcp-1.1.5... [pkg-builder.dan.net.uk] | `-- Extracting libXdmcp-1.1.5: ...... done [pkg-builder.dan.net.uk] `-- Extracting libxcb-1.16.1: .......... done [pkg-builder.dan.net.uk] Extracting libX11-1.8.7_1,1: .......... done ===> vmd-1.9.4_1 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on package: perl5>=5.36<5.37 - not found ===> Installing existing package /packages/All/perl5-5.36.3_1.pkg [pkg-builder.dan.net.uk] Installing perl5-5.36.3_1... [pkg-builder.dan.net.uk] Extracting perl5-5.36.3_1: .......... done ===> vmd-1.9.4_1 depends on package: perl5>=5.36<5.37 - found ===> Returning to build of vmd-1.9.4_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> vmd-1.9.4_1 depends on shared library: libexpat.so - not found ===> Installing existing package /packages/All/expat-2.6.1.pkg [pkg-builder.dan.net.uk] Installing expat-2.6.1... [pkg-builder.dan.net.uk] Extracting expat-2.6.1: .......... done ===> vmd-1.9.4_1 depends on shared library: libexpat.so - found (/usr/local/lib/libexpat.so) ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on shared library: libfltk.so - not found ===> Installing existing package /packages/All/fltk-1.3.9_1.pkg [pkg-builder.dan.net.uk] Installing fltk-1.3.9_1... [pkg-builder.dan.net.uk] `-- Installing fontconfig-2.15.0_2,1... [pkg-builder.dan.net.uk] | `-- Installing freetype2-2.13.2... [pkg-builder.dan.net.uk] | `-- Extracting freetype2-2.13.2: .......... done [pkg-builder.dan.net.uk] `-- Extracting fontconfig-2.15.0_2,1: .......... done [pkg-builder.dan.net.uk] `-- Installing jpeg-turbo-3.0.2... [pkg-builder.dan.net.uk] `-- Extracting jpeg-turbo-3.0.2: .......... done [pkg-builder.dan.net.uk] `-- Installing libGLU-9.0.2_2... [pkg-builder.dan.net.uk] | `-- Installing libglvnd-1.7.0... [pkg-builder.dan.net.uk] | | `-- Installing libXext-1.3.6,1... [pkg-builder.dan.net.uk] | | `-- Extracting libXext-1.3.6,1: .......... done [pkg-builder.dan.net.uk] | `-- Extracting libglvnd-1.7.0: .......... done [pkg-builder.dan.net.uk] `-- Extracting libGLU-9.0.2_2: ..... done [pkg-builder.dan.net.uk] `-- Installing libXcursor-1.2.2... [pkg-builder.dan.net.uk] | `-- Installing libXfixes-6.0.0_1... [pkg-builder.dan.net.uk] | `-- Extracting libXfixes-6.0.0_1: ....... done [pkg-builder.dan.net.uk] | `-- Installing libXrender-0.9.10_2... [pkg-builder.dan.net.uk] | `-- Extracting libXrender-0.9.10_2: ....... done [pkg-builder.dan.net.uk] `-- Extracting libXcursor-1.2.2: .......... done [pkg-builder.dan.net.uk] `-- Installing libXft-2.3.7_1... [pkg-builder.dan.net.uk] `-- Extracting libXft-2.3.7_1: .......... done [pkg-builder.dan.net.uk] `-- Installing libXinerama-1.1.4_3,1... [pkg-builder.dan.net.uk] `-- Extracting libXinerama-1.1.4_3,1: .......... done [pkg-builder.dan.net.uk] `-- Installing png-1.6.43... [pkg-builder.dan.net.uk] `-- Extracting png-1.6.43: .......... done [pkg-builder.dan.net.uk] Extracting fltk-1.3.9_1: .......... done ==> Running trigger: fontconfig.ucl Running fc-cache to build fontconfig cache... ===== Message from freetype2-2.13.2: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/index.html, if documentation was installed). ===> vmd-1.9.4_1 depends on shared library: libfltk.so - found (/usr/local/lib/libfltk.so) ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on shared library: libnetcdf.so - not found ===> Installing existing package /packages/All/netcdf-4.9.2_1.pkg [pkg-builder.dan.net.uk] Installing netcdf-4.9.2_1... [pkg-builder.dan.net.uk] `-- Installing curl-8.6.0... [pkg-builder.dan.net.uk] | `-- Installing brotli-1.1.0,1... [pkg-builder.dan.net.uk] | `-- Extracting brotli-1.1.0,1: .......... done [pkg-builder.dan.net.uk] | `-- Installing libidn2-2.3.7... [pkg-builder.dan.net.uk] | | `-- Installing libunistring-1.2... [pkg-builder.dan.net.uk] | | `-- Extracting libunistring-1.2: .......... done [pkg-builder.dan.net.uk] | `-- Extracting libidn2-2.3.7: .......... done [pkg-builder.dan.net.uk] | `-- Installing libnghttp2-1.60.0... [pkg-builder.dan.net.uk] | `-- Extracting libnghttp2-1.60.0: ....... done [pkg-builder.dan.net.uk] | `-- Installing librtmp-2.4.20190330_1... [pkg-builder.dan.net.uk] | `-- Extracting librtmp-2.4.20190330_1: ......... done [pkg-builder.dan.net.uk] | `-- Installing libssh2-1.11.0_1,3... [pkg-builder.dan.net.uk] | `-- Extracting libssh2-1.11.0_1,3: .......... done [pkg-builder.dan.net.uk] `-- Extracting curl-8.6.0: .......... done [pkg-builder.dan.net.uk] `-- Installing hdf5-1.12.2_2,1... [pkg-builder.dan.net.uk] `-- Extracting hdf5-1.12.2_2,1: .......... done [pkg-builder.dan.net.uk] `-- Installing libaec-1.1.2... [pkg-builder.dan.net.uk] `-- Extracting libaec-1.1.2: .......... done [pkg-builder.dan.net.uk] `-- Installing pkgconf-2.1.1,1... [pkg-builder.dan.net.uk] `-- Extracting pkgconf-2.1.1,1: .......... done [pkg-builder.dan.net.uk] Extracting netcdf-4.9.2_1: .......... done ===> vmd-1.9.4_1 depends on shared library: libnetcdf.so - found (/usr/local/lib/libnetcdf.so) ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on shared library: libGL.so - found (/usr/local/lib/libGL.so) ===> vmd-1.9.4_1 depends on shared library: libGLU.so - found (/usr/local/lib/libGLU.so) ===> vmd-1.9.4_1 depends on shared library: libsqlite3.so - not found ===> Installing existing package /packages/All/sqlite3-3.45.1,1.pkg [pkg-builder.dan.net.uk] Installing sqlite3-3.45.1,1... [pkg-builder.dan.net.uk] `-- Installing libedit-3.1.20230828_1,1... [pkg-builder.dan.net.uk] `-- Extracting libedit-3.1.20230828_1,1: .......... done [pkg-builder.dan.net.uk] Extracting sqlite3-3.45.1,1: ......... done ===> vmd-1.9.4_1 depends on shared library: libsqlite3.so - found (/usr/local/lib/libsqlite3.so) ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on shared library: libtk86.so - not found ===> Installing existing package /packages/All/tk86-8.6.14_1.pkg [pkg-builder.dan.net.uk] Installing tk86-8.6.14_1... [pkg-builder.dan.net.uk] `-- Installing libXScrnSaver-1.2.4_1... [pkg-builder.dan.net.uk] `-- Extracting libXScrnSaver-1.2.4_1: .......... done [pkg-builder.dan.net.uk] `-- Installing tcl86-8.6.14_1... [pkg-builder.dan.net.uk] `-- Extracting tcl86-8.6.14_1: .......... done [pkg-builder.dan.net.uk] Extracting tk86-8.6.14_1: .......... done ===> vmd-1.9.4_1 depends on shared library: libtk86.so - found (/usr/local/lib/libtk86.so) ===> Returning to build of vmd-1.9.4_1 ===> vmd-1.9.4_1 depends on shared library: libtcl86.so - found (/usr/local/lib/libtcl86.so) =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for vmd-1.9.4_1 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for vmd-1.9.4_1 /usr/bin/env EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" gmake bsd -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix gmake[1]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix' gmake all \ "ARCH = bsd" \ "CC = cc" \ "CFLAGS += -O3 -fomit-frame-pointer -ffast-math -DBsd " \ "AR = ar" \ "ARFLAGS = r" \ "STRIP = strip" \ "RANLIB = ranlib" \ "LIBS = -L. -ltachyon -lm" gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix' Building Tachyon Parallel Ray Tracing library Copyright 1994-2007, John E. Stone All Rights Reserveed Making architecture directory ../compile/bsd Making library directory ../compile/bsd/libtachyon gmake ../compile ../compile/bsd ../compile/bsd/libtachyon ../compile/bsd/libtachyon.a ../compile/bsd/tachyon gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix' gmake[3]: Nothing to be done for '../compile'. gmake[3]: Nothing to be done for '../compile/bsd'. gmake[3]: Nothing to be done for '../compile/bsd/libtachyon'. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/api.c -o ../compile/bsd/libtachyon/api.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/apigeom.c -o ../compile/bsd/libtachyon/apigeom.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/box.c -o ../compile/bsd/libtachyon/box.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/global.c -o ../compile/bsd/libtachyon/global.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/hash.c -o ../compile/bsd/libtachyon/hash.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/parallel.c -o ../compile/bsd/libtachyon/parallel.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/threads.c -o ../compile/bsd/libtachyon/threads.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/camera.c -o ../compile/bsd/libtachyon/camera.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/render.c -o ../compile/bsd/libtachyon/render.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/trace.c -o ../compile/bsd/libtachyon/trace.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/grid.c -o ../compile/bsd/libtachyon/grid.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/intersect.c -o ../compile/bsd/libtachyon/intersect.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/sphere.c -o ../compile/bsd/libtachyon/sphere.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/plane.c -o ../compile/bsd/libtachyon/plane.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/ring.c -o ../compile/bsd/libtachyon/ring.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/triangle.c -o ../compile/bsd/libtachyon/triangle.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/cylinder.c -o ../compile/bsd/libtachyon/cylinder.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/quadric.c -o ../compile/bsd/libtachyon/quadric.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/extvol.c -o ../compile/bsd/libtachyon/extvol.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/vol.c -o ../compile/bsd/libtachyon/vol.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/ui.c -o ../compile/bsd/libtachyon/ui.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/util.c -o ../compile/bsd/libtachyon/util.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/vector.c -o ../compile/bsd/libtachyon/vector.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/shade.c -o ../compile/bsd/libtachyon/shade.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/texture.c -o ../compile/bsd/libtachyon/texture.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/coordsys.c -o ../compile/bsd/libtachyon/coordsys.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/imap.c -o ../compile/bsd/libtachyon/imap.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/light.c -o ../compile/bsd/libtachyon/light.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/imageio.c -o ../compile/bsd/libtachyon/imageio.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/jpeg.c -o ../compile/bsd/libtachyon/jpeg.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/pngfile.c -o ../compile/bsd/libtachyon/pngfile.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/ppm.c -o ../compile/bsd/libtachyon/ppm.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/psd.c -o ../compile/bsd/libtachyon/psd.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/sgirgb.c -o ../compile/bsd/libtachyon/sgirgb.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/tgafile.c -o ../compile/bsd/libtachyon/tgafile.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -c ../src/winbmp.c -o ../compile/bsd/libtachyon/winbmp.o rm -f ../compile/bsd/libtachyon.a ar r ../compile/bsd/libtachyon.a ../compile/bsd/libtachyon/api.o ../compile/bsd/libtachyon/apigeom.o ../compile/bsd/libtachyon/box.o ../compile/bsd/libtachyon/global.o ../compile/bsd/libtachyon/hash.o ../compile/bsd/libtachyon/parallel.o ../compile/bsd/libtachyon/threads.o ../compile/bsd/libtachyon/camera.o ../compile/bsd/libtachyon/render.o ../compile/bsd/libtachyon/trace.o ../compile/bsd/libtachyon/grid.o ../compile/bsd/libtachyon/intersect.o ../compile/bsd/libtachyon/sphere.o ../compile/bsd/libtachyon/plane.o ../compile/bsd/libtachyon/ring.o ../compile/bsd/libtachyon/triangle.o ../compile/bsd/libtachyon/cylinder.o ../compile/bsd/libtachyon/quadric.o ../compile/bsd/libtachyon/extvol.o ../compile/bsd/libtachyon/vol.o ../compile/bsd/libtachyon/ui.o ../compile/bsd/libtachyon/util.o ../compile/bsd/libtachyon/vector.o ../compile/bsd/libtachyon/shade.o ../compile/bsd/libtachyon/texture.o ../compile/bsd/libtachyon/coordsys.o ../compile/bsd/libtachyon/imap.o ../compile/bsd/libtachyon/light.o ../compile/bsd/libtachyon/imageio.o ../compile/bsd/libtachyon/jpeg.o ../compile/bsd/libtachyon/pngfile.o ../compile/bsd/libtachyon/ppm.o ../compile/bsd/libtachyon/psd.o ../compile/bsd/libtachyon/sgirgb.o ../compile/bsd/libtachyon/tgafile.o ../compile/bsd/libtachyon/winbmp.o ar: warning: creating ../compile/bsd/libtachyon.a ranlib ../compile/bsd/libtachyon.a cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/main.c -o ../compile/bsd/libtachyon/main.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/getargs.c -o ../compile/bsd/libtachyon/getargs.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/parse.c -o ../compile/bsd/libtachyon/parse.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/nffparse.c -o ../compile/bsd/libtachyon/nffparse.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/glwin.c -o ../compile/bsd/libtachyon/glwin.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/spaceball.c -o ../compile/bsd/libtachyon/spaceball.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/trackball.c -o ../compile/bsd/libtachyon/trackball.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/mgfparse.c -o ../compile/bsd/libtachyon/mgfparse.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -c ../demosrc/ac3dparse.c -o ../compile/bsd/libtachyon/ac3dparse.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd -I../src -I../demosrc -o ../compile/bsd/tachyon ../compile/bsd/libtachyon/main.o ../compile/bsd/libtachyon/getargs.o ../compile/bsd/libtachyon/parse.o ../compile/bsd/libtachyon/nffparse.o ../compile/bsd/libtachyon/glwin.o ../compile/bsd/libtachyon/spaceball.o ../compile/bsd/libtachyon/trackball.o ../compile/bsd/libtachyon/mgfparse.o ../compile/bsd/libtachyon/ac3dparse.o -L../compile/bsd -L. -ltachyon -lm strip ../compile/bsd/tachyon gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix' Build Complete gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix' gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/unix' /bin/mv /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/compile/bsd/tachyon /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/tachyon/tachyon_FREEBSDAMD64 /usr/bin/env EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" PLUGINDIR=/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins gmake FREEBSDAMD64 distrib -C /wrkdirs/usr/ports/science/vmd/work/plugins gmake[1]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins' gmake dynlibs staticlibs bins \ "ARCH = FREEBSDAMD64" \ "COPTO = -fPIC -m64 -o " \ "LOPTO = -fPIC -m64 -o " \ "CC = cc" \ "CXX = c++" \ "DEF = -D" \ "CCFLAGS = -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall" \ "CXXFLAGS = -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall" \ "AR = ar" \ "NM = nm -p" \ "RANLIB = touch" \ "SHLD = cc -shared" gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins' cd molfile_plugin; gmake dynlibs && cd .. || exit 1 gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' mkdir -p ../compile/lib_FREEBSDAMD64/molfile Building Molecule File Reader plugins cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/abinitplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/abinitplugin.o src/abinitplugin.c:1492:10: warning: variable 'bc' set but not used [-Wunused-but-set-variable] int i, bc = 0; ^ In file included from src/abinitplugin.c:65: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 2 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/abinitplugin.so ../compile/lib_FREEBSDAMD64/molfile/abinitplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/amiraplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/amiraplugin.o src/amiraplugin.C:119:30: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rc=amira_readvar_int(am, "nVertices", &am->nvertices); ^ src/amiraplugin.C:120:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (!rc) rc=amira_readvar_int(am, "nVertices", &am->ntriangles); ^ src/amiraplugin.C:61:14: warning: unused function 'get_next_noncomment_line' [-Wunused-function] static char *get_next_noncomment_line(char *buf, int bufsz, FILE *f) { ^ src/amiraplugin.C:100:12: warning: unused function 'amira_readvar_float' [-Wunused-function] static int amira_readvar_float(am_t *am, char *varname, float *val) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/amiraplugin.so ../compile/lib_FREEBSDAMD64/molfile/amiraplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/avsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/avsplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/avsplugin.so ../compile/lib_FREEBSDAMD64/molfile/avsplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/babelplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/babelplugin.o In file included from src/babelplugin.c:36: src/readpdb.h:187:13: warning: unused function 'get_pdb_header' [-Wunused-function] static void get_pdb_header(const char *record, char *pdbcode, char *date, ^ src/readpdb.h:207:13: warning: unused function 'get_pdb_conect' [-Wunused-function] static void get_pdb_conect(const char *record, int natoms, int *idxmap, ^ src/readpdb.h:348:12: warning: unused function 'write_raw_pdb_record' [-Wunused-function] static int write_raw_pdb_record(FILE *fd, const char *recordname, ^ In file included from src/babelplugin.c:37: src/vmddir.h:145:12: warning: unused function 'vmd_file_is_executable' [-Wunused-function] static int vmd_file_is_executable(const char * filename) { ^ In file included from src/babelplugin.c:38: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ src/babelplugin.c:319:20: warning: unused function 'openbabel11type_from_name' [-Wunused-function] static const char *openbabel11type_from_name(const char *name) { ^ 7 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/babelplugin.so ../compile/lib_FREEBSDAMD64/molfile/babelplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/basissetplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin.o In file included from src/basissetplugin.c:37: src/qmplugin.h:711:12: warning: unused function 'symmetry_expand' [-Wunused-function] static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, ^ src/qmplugin.h:835:13: warning: unused function 'eatline' [-Wunused-function] static void eatline(FILE * fd, int n) ^ src/qmplugin.h:846:13: warning: unused function 'eatwhitelines' [-Wunused-function] static void eatwhitelines(FILE *file) { ^ src/qmplugin.h:895:12: warning: unused function 'iswhiteline' [-Wunused-function] static int iswhiteline(char *s) { ^ src/qmplugin.h:901:14: warning: unused function 'strtoupper' [-Wunused-function] static char *strtoupper(char *s) { ^ src/qmplugin.h:962:12: warning: unused function 'goto_keyline' [-Wunused-function] static int goto_keyline(FILE *file, ...) { ^ src/qmplugin.h:1006:12: warning: unused function 'have_keyline' [-Wunused-function] static int have_keyline(FILE *file, const char *keystring1, ^ src/qmplugin.h:1077:13: warning: unused function 'thisline' [-Wunused-function] static void thisline(FILE *file) { ^ src/qmplugin.h:1097:13: warning: unused function 'whereami' [-Wunused-function] static void whereami(FILE *file) { ^ src/qmplugin.h:437:18: warning: unused function 'init_qmdata' [-Wunused-function] static qmdata_t* init_qmdata() { ^ src/qmplugin.h:471:27: warning: unused function 'add_wavefunction' [-Wunused-function] static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) { ^ src/qmplugin.h:490:13: warning: unused function 'replace_wavefunction' [-Wunused-function] static void replace_wavefunction(qm_timestep_t *ts, int n) { ^ src/qmplugin.h:507:13: warning: unused function 'del_wavefunction' [-Wunused-function] static void del_wavefunction(qm_timestep_t *ts) { ^ src/qmplugin.h:540:13: warning: unused function 'angular_momentum_expon' [-Wunused-function] static void angular_momentum_expon(int *ang_mom_expon, ^ src/qmplugin.h:585:13: warning: unused function 'print_matrix4' [-Wunused-function] static void print_matrix4(const float mat[16]) { ^ src/qmplugin.h:1028:12: warning: unused function 'fpexpftoc' [-Wunused-function] static int fpexpftoc(char *ftocstr) { ^ 16 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin.so ../compile/lib_FREEBSDAMD64/molfile/basissetplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/bgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin.so ../compile/lib_FREEBSDAMD64/molfile/bgfplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/binposplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/binposplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/binposplugin.so ../compile/lib_FREEBSDAMD64/molfile/binposplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/biomoccaplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin.so ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/brixplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/brixplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/brixplugin.so ../compile/lib_FREEBSDAMD64/molfile/brixplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/carplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/carplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/carplugin.so ../compile/lib_FREEBSDAMD64/molfile/carplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/ccp4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin.o In file included from src/ccp4plugin.C:46: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin.so ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/corplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/corplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/corplugin.so ../compile/lib_FREEBSDAMD64/molfile/corplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/cpmdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin.o src/cpmdplugin.c:84:12: warning: unused function 'read_cpmd_structure' [-Wunused-function] static int read_cpmd_structure(void *mydata, int *optflags, ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin.so ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/crdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/crdplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/crdplugin.so ../compile/lib_FREEBSDAMD64/molfile/crdplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/cubeplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin.o In file included from src/cubeplugin.C:37: src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 2 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin.so ../compile/lib_FREEBSDAMD64/molfile/cubeplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/dcdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin.o In file included from src/dcdplugin.c:46: src/fastio.h:413:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:532:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:459:19: warning: unused function 'fio_readv' [-Wunused-function] static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { ^ src/fastio.h:605:12: warning: unused function 'fio_read_int32' [-Wunused-function] static int fio_read_int32(fio_fd fd, int *i) { ^ src/fastio.h:609:12: warning: unused function 'fio_write_str' [-Wunused-function] static int fio_write_str(fio_fd fd, const char *str) { ^ In file included from src/dcdplugin.c:56: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ 7 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin.so ../compile/lib_FREEBSDAMD64/molfile/dcdplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/dlpolyplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin.o src/dlpolyplugin.c:290:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] if (NULL == fgets(fbuffer, 1024, data->file)) ^ src/dlpolyplugin.c:287:3: note: previous statement is here if (NULL == fgets(fbuffer, 1024, data->file)) ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin.so ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/dsn6plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin.o In file included from src/dsn6plugin.C:58: src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:112:13: warning: unused function 'swap4_aligned' [-Wunused-function] static void swap4_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin.so ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/dxplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dxplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dxplugin.so ../compile/lib_FREEBSDAMD64/molfile/dxplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/edmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/edmplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/edmplugin.so ../compile/lib_FREEBSDAMD64/molfile/edmplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/fs4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin.o In file included from src/fs4plugin.C:42: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ In file included from src/fs4plugin.C:43: src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] static int fort_eat_recmark(FILE *ifp, int recmarklen) { ^ src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] static int fort_get_endian_reclen(int reclen, int word0, int word1, ^ src/fortread.h:133:13: warning: unused function 'strnwscpy' [-Wunused-function] static void strnwscpy(char *target, const char *source, const int len) { ^ 8 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin.so ../compile/lib_FREEBSDAMD64/molfile/fs4plugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/gamessplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin.o In file included from src/gamessplugin.c:155: src/qmplugin.h:895:12: warning: unused function 'iswhiteline' [-Wunused-function] static int iswhiteline(char *s) { ^ src/qmplugin.h:901:14: warning: unused function 'strtoupper' [-Wunused-function] static char *strtoupper(char *s) { ^ src/qmplugin.h:1077:13: warning: unused function 'thisline' [-Wunused-function] static void thisline(FILE *file) { ^ src/qmplugin.h:1097:13: warning: unused function 'whereami' [-Wunused-function] static void whereami(FILE *file) { ^ src/qmplugin.h:585:13: warning: unused function 'print_matrix4' [-Wunused-function] static void print_matrix4(const float mat[16]) { ^ src/qmplugin.h:1028:12: warning: unused function 'fpexpftoc' [-Wunused-function] static int fpexpftoc(char *ftocstr) { ^ In file included from src/gamessplugin.c:157: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] static float get_pte_mass(const int idx) ^ src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] static float get_pte_vdw_radius(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ src/gamessplugin.c:997:13: warning: unused function 'print_input_data' [-Wunused-function] static void print_input_data(qmdata_t *data) { ^ 11 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin.so ../compile/lib_FREEBSDAMD64/molfile/gamessplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/graspplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/graspplugin.o In file included from src/graspplugin.C:35: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/graspplugin.so ../compile/lib_FREEBSDAMD64/molfile/graspplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/grdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/grdplugin.o In file included from src/grdplugin.C:46: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/grdplugin.so ../compile/lib_FREEBSDAMD64/molfile/grdplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/gridplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gridplugin.o In file included from src/gridplugin.C:54: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ In file included from src/gridplugin.C:55: src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] static int fort_eat_recmark(FILE *ifp, int recmarklen) { ^ src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] static int fort_get_endian_reclen(int reclen, int word0, int word1, ^ src/fortread.h:133:13: warning: unused function 'strnwscpy' [-Wunused-function] static void strnwscpy(char *target, const char *source, const int len) { ^ 8 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gridplugin.so ../compile/lib_FREEBSDAMD64/molfile/gridplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/gromacsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin.o In file included from src/gromacsplugin.C:25: In file included from src/Gromacs.h:48: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin.so ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/jsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/jsplugin.o In file included from src/jsplugin.c:85: src/fastio.h:413:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:532:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:459:19: warning: unused function 'fio_readv' [-Wunused-function] static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { ^ In file included from src/jsplugin.c:95: In file included from src/hash.h:37: src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { ^ src/hash.c:280:24: warning: unused function 'hash_stats' [-Wunused-function] VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { ^ In file included from src/jsplugin.c:96: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/jsplugin.c:1228:12: warning: unused function 'read_js_timestep_index_offsets' [-Wunused-function] static int read_js_timestep_index_offsets(void *v, int natoms, ^ 9 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/jsplugin.so ../compile/lib_FREEBSDAMD64/molfile/jsplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/lammpsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin.o src/lammpsplugin.c:1459:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] if (fabsf(ts->A > SMALL)) pbcx = 1; ^ src/lammpsplugin.c:1455:3: note: previous statement is here if ((fabsf(ts->alpha - 90.0f) > SMALL) || ^ src/lammpsplugin.c:1459:9: warning: using floating point absolute value function 'fabsf' when argument is of integer type [-Wabsolute-value] if (fabsf(ts->A > SMALL)) pbcx = 1; ^ src/lammpsplugin.c:1459:9: note: use function 'abs' instead if (fabsf(ts->A > SMALL)) pbcx = 1; ^~~~~ abs src/lammpsplugin.c:1460:9: warning: using floating point absolute value function 'fabsf' when argument is of integer type [-Wabsolute-value] if (fabsf(ts->B > SMALL)) pbcy = 1; ^ src/lammpsplugin.c:1460:9: note: use function 'abs' instead if (fabsf(ts->B > SMALL)) pbcy = 1; ^~~~~ abs src/lammpsplugin.c:1461:9: warning: using floating point absolute value function 'fabsf' when argument is of integer type [-Wabsolute-value] if (fabsf(ts->C > SMALL)) pbcz = 1; ^ src/lammpsplugin.c:1461:9: note: use function 'abs' instead if (fabsf(ts->C > SMALL)) pbcz = 1; ^~~~~ abs In file included from src/lammpsplugin.c:63: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ In file included from src/lammpsplugin.c:69: In file included from src/hash.h:37: src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { ^ src/hash.c:223:21: warning: unused function 'hash_entries' [-Wunused-function] VMDEXTERNSTATIC int hash_entries(hash_t *tptr) { ^ src/hash.c:280:24: warning: unused function 'hash_stats' [-Wunused-function] VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { ^ In file included from src/lammpsplugin.c:70: In file included from src/inthash.h:40: src/inthash.c:182:21: warning: unused function 'inthash_delete' [-Wunused-function] VMDEXTERNSTATIC int inthash_delete(inthash_t *tptr, int key) { ^ src/inthash.c:277:24: warning: unused function 'inthash_stats' [-Wunused-function] VMDEXTERNSTATIC char * inthash_stats(inthash_t *tptr) { ^ 11 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin.so ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/mapplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mapplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mapplugin.so ../compile/lib_FREEBSDAMD64/molfile/mapplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/mdfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin.o In file included from src/mdfplugin.C:40: In file included from src/hash.h:37: src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { ^ src/hash.c:223:21: warning: unused function 'hash_entries' [-Wunused-function] VMDEXTERNSTATIC int hash_entries(hash_t *tptr) { ^ src/hash.c:280:24: warning: unused function 'hash_stats' [-Wunused-function] VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { ^ 3 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin.so ../compile/lib_FREEBSDAMD64/molfile/mdfplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/mol2plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin.so ../compile/lib_FREEBSDAMD64/molfile/mol2plugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/moldenplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin.o src/moldenplugin.c:591:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable] molfile_qm_hessian_t *hessian_data; ^ In file included from src/moldenplugin.c:43: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] static float get_pte_mass(const int idx) ^ src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] static float get_pte_vdw_radius(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ In file included from src/moldenplugin.c:44: src/qmplugin.h:711:12: warning: unused function 'symmetry_expand' [-Wunused-function] static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, ^ src/qmplugin.h:1006:12: warning: unused function 'have_keyline' [-Wunused-function] static int have_keyline(FILE *file, const char *keystring1, ^ src/qmplugin.h:1077:13: warning: unused function 'thisline' [-Wunused-function] static void thisline(FILE *file) { ^ src/qmplugin.h:1097:13: warning: unused function 'whereami' [-Wunused-function] static void whereami(FILE *file) { ^ src/qmplugin.h:490:13: warning: unused function 'replace_wavefunction' [-Wunused-function] static void replace_wavefunction(qm_timestep_t *ts, int n) { ^ src/qmplugin.h:507:13: warning: unused function 'del_wavefunction' [-Wunused-function] static void del_wavefunction(qm_timestep_t *ts) { ^ src/qmplugin.h:585:13: warning: unused function 'print_matrix4' [-Wunused-function] static void print_matrix4(const float mat[16]) { ^ 12 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin.so ../compile/lib_FREEBSDAMD64/molfile/moldenplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/molemeshplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/molemeshplugin.o src/molemeshplugin.C:207:34: warning: overlapping comparisons always evaluate to true [-Wtautological-overlap-compare] } else if ( (facetType != 4 || facetType != 5) && facetType >= 6 ) { ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/molemeshplugin.so ../compile/lib_FREEBSDAMD64/molfile/molemeshplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/msmsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin.so ../compile/lib_FREEBSDAMD64/molfile/msmsplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/namdbinplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin.o src/namdbinplugin.c:98:10: warning: variable 'numatoms' set but not used [-Wunused-but-set-variable] int i, numatoms; ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin.so ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/offplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/offplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/offplugin.so ../compile/lib_FREEBSDAMD64/molfile/offplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/parm7plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin.so ../compile/lib_FREEBSDAMD64/molfile/parm7plugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/parmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parmplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parmplugin.so ../compile/lib_FREEBSDAMD64/molfile/parmplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/pbeqplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin.o In file included from src/pbeqplugin.C:48: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin.so ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/pdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin.o In file included from src/pdbplugin.c:27: src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin.so ../compile/lib_FREEBSDAMD64/molfile/pdbplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/pdbxplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbxplugin.o In file included from src/pdbxplugin.C:30: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ In file included from src/pdbxplugin.C:44: In file included from src/inthash.h:40: src/inthash.c:182:21: warning: unused function 'inthash_delete' [-Wunused-function] VMDEXTERNSTATIC int inthash_delete(inthash_t *tptr, int key) { ^ src/inthash.c:222:21: warning: unused function 'inthash_entries' [-Wunused-function] VMDEXTERNSTATIC int inthash_entries(inthash_t *tptr) { ^ src/inthash.c:277:24: warning: unused function 'inthash_stats' [-Wunused-function] VMDEXTERNSTATIC char * inthash_stats(inthash_t *tptr) { ^ src/pdbxplugin.C:1890:20: warning: unused function 'isAtomSite' [-Wunused-function] static inline bool isAtomSite(char * str) { ^ src/pdbxplugin.C:439:14: warning: unused function 'stringToFloat' [-Wunused-function] static float stringToFloat(char * str) { ^ src/pdbxplugin.C:1601:13: warning: unused function 'parse_pdbx_ihm_restraints_data' [-Wunused-function] static bool parse_pdbx_ihm_restraints_data(pdbxParser* parser) { ^ 8 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbxplugin.so ../compile/lib_FREEBSDAMD64/molfile/pdbxplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/phiplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/phiplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/phiplugin.so ../compile/lib_FREEBSDAMD64/molfile/phiplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/pltplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pltplugin.o In file included from src/pltplugin.C:37: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pltplugin.so ../compile/lib_FREEBSDAMD64/molfile/pltplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/plyplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/plyplugin.o In file included from src/plyplugin.C:25: src/ply.c:41:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "invalid", ^ src/ply.c:42:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:9: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:18: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:46: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:56: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:67: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:46:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "invalid", ^ src/ply.c:47:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:9: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:18: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:34: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:44: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:52: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:61: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:146:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile = (PlyFile *) myalloc (sizeof (PlyFile)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :187:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:157:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile->elems = (PlyElement **) myalloc (sizeof (PlyElement *) * nelems); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :189:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:159:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem = (PlyElement *) myalloc (sizeof (PlyElement)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :191:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:199:19: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] name = (char *) myalloc (sizeof (char) * (strlen (filename) + 5)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :193:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:193:15: warning: unused variable 'elem' [-Wunused-variable] PlyElement *elem; ^ src/ply.c:191:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:259:34: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *) * nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :195:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:260:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char) * nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :197:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:263:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :199:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:300:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :201:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:301:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :203:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:314:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem_prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :205:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:338:16: warning: unused variable 'prop' [-Wunused-variable] PlyProperty *prop; ^ src/ply.c:336:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:462:7: warning: unused variable 'i' [-Wunused-variable] int i,j,k; ^ src/ply.c:627:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile = (PlyFile *) myalloc (sizeof (PlyFile)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :207:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:640:43: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (!words || !equal_strings (words[0], "ply")) ^ src/ply.c:647:34: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings (words[0], "format")) { ^ src/ply.c:650:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings (words[1], "ascii")) ^ src/ply.c:652:41: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[1], "binary_big_endian")) ^ src/ply.c:654:41: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[1], "binary_little_endian")) ^ src/ply.c:661:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "element")) ^ src/ply.c:663:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "property")) ^ src/ply.c:665:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "comment")) ^ src/ply.c:667:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "obj_info")) ^ src/ply.c:669:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "end_header")) ^ src/ply.c:683:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :209:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:691:21: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elist = (char **) myalloc (sizeof (char *) * plyfile->num_elem_types); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :211:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:616:7: warning: variable 'found_format' set but not used [-Wunused-but-set-variable] int found_format = 0; ^ src/ply.c:732:19: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] name = (char *) myalloc (sizeof (char) * (strlen (filename) + 5)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :213:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:793:32: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop_list = (PlyProperty **) myalloc (sizeof (PlyProperty *) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :215:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:795:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :217:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1065:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other = (PlyOtherProp *) myalloc (sizeof (PlyOtherProp)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :219:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1076:35: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other->props = (PlyProperty **) myalloc (sizeof(PlyProperty) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :221:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1083:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :223:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1174:46: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile->other_elems = (PlyOtherElems *) myalloc (sizeof (PlyOtherElems)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :225:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1176:45: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other_elems->other_list = (OtherElem *) myalloc (sizeof (OtherElem)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :227:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1307:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:1442:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other_data = (char *) myalloc (elem->other_size); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :229:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1492:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] item_ptr = (char *) myalloc (sizeof (char) * item_size * list_count); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :231:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1413:7: warning: unused variable 'i' [-Wunused-variable] int i,j,k; ^ src/ply.c:1419:9: warning: unused variable 'fp' [-Wunused-variable] FILE *fp = plyfile->fp; ^ src/ply.c:1574:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other_data = (char *) myalloc (elem->other_size); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :233:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1615:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] item_ptr = (char *) myalloc (sizeof (char) * item_size * list_count); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :235:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1637:22: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] str = (char *) myalloc (len); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :237:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1548:7: warning: unused variable 'i' [-Wunused-variable] int i,j,k; ^ src/ply.c:1709:21: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] words = (char **) myalloc (sizeof (char *) * max_words); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :239:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1700:9: warning: unused variable 'j' [-Wunused-variable] int i,j; ^ src/ply.c:1700:7: warning: unused variable 'i' [-Wunused-variable] int i,j; ^ src/ply.c:2255:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem = (PlyElement *) myalloc (sizeof (PlyElement)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :241:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2262:38: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile->elems = (PlyElement **) myalloc (sizeof (PlyElement *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :243:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2320:26: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :245:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2322:32: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings (words[1], "list")) { /* list */ ^ src/ply.c:2328:37: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[1], "string")) { /* string */ ^ src/ply.c:2345:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :247:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2313:7: warning: unused variable 'prop_type' [-Wunused-variable] int prop_type; ^ src/ply.c:2314:7: warning: unused variable 'count_type' [-Wunused-variable] int count_type; ^ src/ply.c:2515:21: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elist = (char **) myalloc (sizeof (char *) * ply->num_elem_types); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :249:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2537:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] ply->comments = (char **) myalloc (sizeof (char *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :251:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2577:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] ply->obj_info = (char **) myalloc (sizeof (char *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :253:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2764:16: warning: unused variable 'prop' [-Wunused-variable] PlyProperty *prop; ^ src/ply.c:2762:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:2801:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :255:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2802:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :257:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2815:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem_prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :259:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2849:19: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] myalloc (sizeof (PlyProperty *) * other->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :261:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2850:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char) * other->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :263:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2865:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :265:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2923:17: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] AVERAGE_RULE, "avg", ^ src/ply.c:2923:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] AVERAGE_RULE, "avg", ^~~~~~~~~~~~~~~~~~~ { } src/ply.h:115:23: note: expanded from macro 'AVERAGE_RULE' #define AVERAGE_RULE 1 ^ In file included from src/plyplugin.C:25: src/ply.c:2924:16: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] RANDOM_RULE, "rnd", ^ src/ply.c:2924:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] RANDOM_RULE, "rnd", ^~~~~~~~~~~~~~~~~~ { } src/ply.h:120:23: note: expanded from macro 'RANDOM_RULE' #define RANDOM_RULE 6 ^ In file included from src/plyplugin.C:25: src/ply.c:2925:17: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] MINIMUM_RULE, "max", ^ src/ply.c:2925:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] MINIMUM_RULE, "max", ^~~~~~~~~~~~~~~~~~~ { } src/ply.h:117:23: note: expanded from macro 'MINIMUM_RULE' #define MINIMUM_RULE 3 ^ In file included from src/plyplugin.C:25: src/ply.c:2926:17: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] MAXIMUM_RULE, "min", ^ src/ply.c:2926:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] MAXIMUM_RULE, "min", ^~~~~~~~~~~~~~~~~~~ { } src/ply.h:118:23: note: expanded from macro 'MAXIMUM_RULE' #define MAXIMUM_RULE 4 ^ In file included from src/plyplugin.C:25: src/ply.c:2927:18: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] MAJORITY_RULE, "major", ^ src/ply.c:2927:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] MAJORITY_RULE, "major", ^~~~~~~~~~~~~~~~~~~~~~ { } src/ply.h:116:23: note: expanded from macro 'MAJORITY_RULE' #define MAJORITY_RULE 2 ^ In file included from src/plyplugin.C:25: src/ply.c:2928:14: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] SAME_RULE, "same", ^ src/ply.c:2928:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] SAME_RULE, "same", ^~~~~~~~~~~~~~~~~ { } src/ply.h:119:23: note: expanded from macro 'SAME_RULE' #define SAME_RULE 5 ^ In file included from src/plyplugin.C:25: src/ply.c:2929:7: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] -1, "end_marker", ^ src/ply.c:2929:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -1, "end_marker", ^~~~~~~~~~~~~~~~ { } src/ply.c:2960:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules = (PlyPropRules *) myalloc (sizeof (PlyPropRules)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :267:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2962:30: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules->rule_list = (int *) myalloc (sizeof(int) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :269:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3047:7: warning: unused variable 'count' [-Wunused-variable] int count; ^ src/ply.c:3048:15: warning: unused variable 'elem' [-Wunused-variable] PlyElement *elem = rules->elem; ^ src/ply.c:3046:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:3074:30: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules->props = (void **) myalloc (sizeof (void *) * rules->max_props); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :271:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3075:32: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules->weights = (float *) myalloc (sizeof (float) * rules->max_props); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :273:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3126:23: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] new_data = (char *) myalloc (sizeof (char) * elem->other_size); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :275:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3132:23: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] vals = (double *) myalloc (sizeof (double) * rules->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :277:1: note: expanded from here "src/ply.c" ^ src/plyplugin.C:43:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"x", Float32, Float32, offsetof(Vertex,x), 0, 0, 0, 0}, ^ src/plyplugin.C:44:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"y", Float32, Float32, offsetof(Vertex,y), 0, 0, 0, 0}, ^ src/plyplugin.C:45:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"z", Float32, Float32, offsetof(Vertex,z), 0, 0, 0, 0}, ^ src/plyplugin.C:46:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"r", Float32, Float32, offsetof(Vertex,r), 0, 0, 0, 0}, ^ src/plyplugin.C:47:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"g", Float32, Float32, offsetof(Vertex,g), 0, 0, 0, 0}, ^ src/plyplugin.C:48:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"b", Float32, Float32, offsetof(Vertex,b), 0, 0, 0, 0}, ^ src/plyplugin.C:49:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"nx", Float32, Float32, offsetof(Vertex,nx), 0, 0, 0, 0}, ^ src/plyplugin.C:50:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"ny", Float32, Float32, offsetof(Vertex,ny), 0, 0, 0, 0}, ^ src/plyplugin.C:51:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"nz", Float32, Float32, offsetof(Vertex,nz), 0, 0, 0, 0}, ^ src/plyplugin.C:55:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"vertex_indices", Int32, Int32, offsetof(Face,verts), ^ src/plyplugin.C:57:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"vertex_index", Int32, Int32, offsetof(Face,verts), ^ src/plyplugin.C:117:24: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("vertex", elem_name)) { ^ src/plyplugin.C:133:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("r", prop->name)) { ^ src/plyplugin.C:137:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("g", prop->name)) { ^ src/plyplugin.C:141:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("b", prop->name)) { ^ src/plyplugin.C:145:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("nx", prop->name)) { ^ src/plyplugin.C:149:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("ny", prop->name)) { ^ src/plyplugin.C:153:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("nz", prop->name)) { ^ src/plyplugin.C:171:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] } else if (equal_strings ("face", elem_name)) { ^ src/plyplugin.C:183:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("vertex_indices", prop->name)) { ^ src/plyplugin.C:186:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("vertex_index", prop->name)) { ^ src/plyplugin.C:103:17: warning: variable 'face_other' set but not used [-Wunused-but-set-variable] PlyOtherProp *face_other=NULL; ^ src/plyplugin.C:102:17: warning: variable 'vert_other' set but not used [-Wunused-but-set-variable] PlyOtherProp *vert_other=NULL; ^ In file included from src/plyplugin.C:22: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:112:13: warning: unused function 'swap4_aligned' [-Wunused-function] static void swap4_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 138 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/plyplugin.so ../compile/lib_FREEBSDAMD64/molfile/plyplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/pqrplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin.o src/pqrplugin.c:161:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] char *name, *type; ^ src/pqrplugin.c:161:9: warning: variable 'name' set but not used [-Wunused-but-set-variable] char *name, *type; ^ 2 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin.so ../compile/lib_FREEBSDAMD64/molfile/pqrplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/psfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/psfplugin.o In file included from src/psfplugin.c:25: In file included from src/fortread.h:28: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ In file included from src/psfplugin.c:25: src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] static int fort_eat_recmark(FILE *ifp, int recmarklen) { ^ src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] static int fort_get_endian_reclen(int reclen, int word0, int word1, ^ src/fortread.h:103:12: warning: unused function 'fortread_4' [-Wunused-function] static int fortread_4(void *dest, int n, int swap, FILE *fd) { ^ 8 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/psfplugin.so ../compile/lib_FREEBSDAMD64/molfile/psfplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/raster3dplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin.so ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/rst7plugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin.so ../compile/lib_FREEBSDAMD64/molfile/rst7plugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/situsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/situsplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/situsplugin.so ../compile/lib_FREEBSDAMD64/molfile/situsplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/spiderplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin.o In file included from src/spiderplugin.C:31: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin.so ../compile/lib_FREEBSDAMD64/molfile/spiderplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/stlplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/stlplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/stlplugin.so ../compile/lib_FREEBSDAMD64/molfile/stlplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/tinkerplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin.so ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/uhbdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin.o In file included from src/uhbdplugin.C:42: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin.so ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vaspchgcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin.o In file included from src/vaspchgcarplugin.c:36: src/vaspplugin.h:111:13: warning: unused function 'vasp_timestep_unitcell' [-Wunused-function] static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data) ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vaspoutcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin.o In file included from src/vaspoutcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vaspparchgplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin.o In file included from src/vaspparchgplugin.c:36: src/vaspplugin.h:111:13: warning: unused function 'vasp_timestep_unitcell' [-Wunused-function] static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data) ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vaspposcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin.o In file included from src/vaspposcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vasp5xdatcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vasp5xdatcarplugin.o In file included from src/vasp5xdatcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vasp5xdatcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vasp5xdatcarplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vaspxdatcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin.o In file included from src/vaspxdatcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vaspxmlplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin.o In file included from src/vaspxmlplugin.c:42: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/vtkplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtkplugin.o src/vtkplugin.C:271:45: warning: variable 'total' set but not used [-Wunused-but-set-variable] int x, y, z, xsize, ysize, zsize, xysize, total; ^ src/vtkplugin.C:333:45: warning: variable 'total' set but not used [-Wunused-but-set-variable] int x, y, z, xsize, ysize, zsize, xysize, total; ^ In file included from src/vtkplugin.C:67: ../include/vmdconio.h:56:12: warning: unused function 'vmdcon_printf' [-Wunused-function] static int vmdcon_printf(int lvl, const char *fmt, ...) { ^ 3 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtkplugin.so ../compile/lib_FREEBSDAMD64/molfile/vtkplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/xbgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin.so ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/xsfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin.o In file included from src/xsfplugin.C:32: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin.so ../compile/lib_FREEBSDAMD64/molfile/xsfplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/xyzplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin.o In file included from src/xyzplugin.c:52: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin.so ../compile/lib_FREEBSDAMD64/molfile/xyzplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/dtrplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin.o In file included from src/dtrplugin.cxx:65: src/vmddir.h:145:12: warning: unused function 'vmd_file_is_executable' [-Wunused-function] static int vmd_file_is_executable(const char * filename) { ^ In file included from src/dtrplugin.cxx:66: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:112:13: warning: unused function 'swap4_aligned' [-Wunused-function] static void swap4_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin.so ../compile/lib_FREEBSDAMD64/molfile/dtrplugin.o -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I../include -Isrc -c src/maeffplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin.o src/maeffplugin.cxx:1885:9: warning: unused variable 'last_ctnumber' [-Wunused-variable] int last_ctnumber = -1; ^ 1 warning generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin.so ../compile/lib_FREEBSDAMD64/molfile/maeffplugin.o -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include -I../include -Isrc -c src/hoomdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/hoomdplugin.o In file included from src/hoomdplugin.c:122: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 2 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/hoomdplugin.so ../compile/lib_FREEBSDAMD64/molfile/hoomdplugin.o -L/usr/local/lib -lexpat -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include -I../include -Isrc -c src/netcdfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/netcdfplugin.o cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/netcdfplugin.so ../compile/lib_FREEBSDAMD64/molfile/netcdfplugin.o -L/usr/local/lib -lnetcdf -fstack-protector-strong c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include -I../include -Isrc -c src/dmsplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dmsplugin.o src/dmsplugin.cxx:330:11: warning: variable 'vy_col' set but not used [-Wunused-but-set-variable] int vy_col = -1; ^ src/dmsplugin.cxx:331:11: warning: variable 'vz_col' set but not used [-Wunused-but-set-variable] int vz_col = -1; ^ src/dmsplugin.cxx:327:11: warning: variable 'y_col' set but not used [-Wunused-but-set-variable] int y_col = -1; ^ src/dmsplugin.cxx:326:11: warning: variable 'x_col' set but not used [-Wunused-but-set-variable] int x_col = -1; ^ src/dmsplugin.cxx:329:11: warning: variable 'vx_col' set but not used [-Wunused-but-set-variable] int vx_col = -1; ^ src/dmsplugin.cxx:328:11: warning: variable 'z_col' set but not used [-Wunused-but-set-variable] int z_col = -1; ^ src/dmsplugin.cxx:476:5: warning: unused function 'read_fictitious_bonds' [-Wunused-function] int read_fictitious_bonds(void *v, int *nbonds, int **from, int **to) { ^ src/dmsplugin.cxx:617:7: warning: unused function 'read_timestep2' [-Wunused-function] int read_timestep2(void *v, ssize_t n, molfile_timestep_t *ts) { ^ 8 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dmsplugin.so ../compile/lib_FREEBSDAMD64/molfile/dmsplugin.o -L/usr/local/lib -lsqlite3 -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -I../include -Isrc -c src/vtfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin.o src/vtfplugin.c:387:29: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] if (sscanf(s, " %255s%n", aid_specifier, &n) < 1) { ^ src/vtfplugin.c:409:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] while (sscanf(s, " %255s%n", keyword, &n) == 1) { ^ src/vtfplugin.c:792:31: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:814:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:824:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:834:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1043:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1099:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1109:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1123:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ 10 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin.so ../compile/lib_FREEBSDAMD64/molfile/vtfplugin.o -L/usr/local/lib -ltcl86 -fstack-protector-strong cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -I../include -Isrc -c src/webpdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin.o In file included from src/webpdbplugin.c:23: src/readpdb.h:39:12: warning: unused function 'read_pdb_record' [-Wunused-function] static int read_pdb_record(FILE *f, char *retStr) { ^ src/readpdb.h:348:12: warning: unused function 'write_raw_pdb_record' [-Wunused-function] static int write_raw_pdb_record(FILE *fd, const char *recordname, ^ In file included from src/webpdbplugin.c:24: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ 4 warnings generated. cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin.so ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin.o -L/usr/local/lib -ltcl86 -fstack-protector-strong gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' cd molfile_plugin; gmake staticlibs && cd .. || exit 1 gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_abinitplugin" -c src/abinitplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/abinitplugin-s.o src/abinitplugin.c:1492:10: warning: variable 'bc' set but not used [-Wunused-but-set-variable] int i, bc = 0; ^ In file included from src/abinitplugin.c:65: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 2 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_amiraplugin" -c src/amiraplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/amiraplugin-s.o src/amiraplugin.C:119:30: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rc=amira_readvar_int(am, "nVertices", &am->nvertices); ^ src/amiraplugin.C:120:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (!rc) rc=amira_readvar_int(am, "nVertices", &am->ntriangles); ^ src/amiraplugin.C:61:14: warning: unused function 'get_next_noncomment_line' [-Wunused-function] static char *get_next_noncomment_line(char *buf, int bufsz, FILE *f) { ^ src/amiraplugin.C:100:12: warning: unused function 'amira_readvar_float' [-Wunused-function] static int amira_readvar_float(am_t *am, char *varname, float *val) { ^ 4 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_avsplugin" -c src/avsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/avsplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_babelplugin" -c src/babelplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/babelplugin-s.o In file included from src/babelplugin.c:36: src/readpdb.h:187:13: warning: unused function 'get_pdb_header' [-Wunused-function] static void get_pdb_header(const char *record, char *pdbcode, char *date, ^ src/readpdb.h:207:13: warning: unused function 'get_pdb_conect' [-Wunused-function] static void get_pdb_conect(const char *record, int natoms, int *idxmap, ^ src/readpdb.h:348:12: warning: unused function 'write_raw_pdb_record' [-Wunused-function] static int write_raw_pdb_record(FILE *fd, const char *recordname, ^ In file included from src/babelplugin.c:37: src/vmddir.h:145:12: warning: unused function 'vmd_file_is_executable' [-Wunused-function] static int vmd_file_is_executable(const char * filename) { ^ In file included from src/babelplugin.c:38: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ src/babelplugin.c:319:20: warning: unused function 'openbabel11type_from_name' [-Wunused-function] static const char *openbabel11type_from_name(const char *name) { ^ 7 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_basissetplugin" -c src/basissetplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin-s.o In file included from src/basissetplugin.c:37: src/qmplugin.h:711:12: warning: unused function 'symmetry_expand' [-Wunused-function] static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, ^ src/qmplugin.h:835:13: warning: unused function 'eatline' [-Wunused-function] static void eatline(FILE * fd, int n) ^ src/qmplugin.h:846:13: warning: unused function 'eatwhitelines' [-Wunused-function] static void eatwhitelines(FILE *file) { ^ src/qmplugin.h:895:12: warning: unused function 'iswhiteline' [-Wunused-function] static int iswhiteline(char *s) { ^ src/qmplugin.h:901:14: warning: unused function 'strtoupper' [-Wunused-function] static char *strtoupper(char *s) { ^ src/qmplugin.h:962:12: warning: unused function 'goto_keyline' [-Wunused-function] static int goto_keyline(FILE *file, ...) { ^ src/qmplugin.h:1006:12: warning: unused function 'have_keyline' [-Wunused-function] static int have_keyline(FILE *file, const char *keystring1, ^ src/qmplugin.h:1077:13: warning: unused function 'thisline' [-Wunused-function] static void thisline(FILE *file) { ^ src/qmplugin.h:1097:13: warning: unused function 'whereami' [-Wunused-function] static void whereami(FILE *file) { ^ src/qmplugin.h:437:18: warning: unused function 'init_qmdata' [-Wunused-function] static qmdata_t* init_qmdata() { ^ src/qmplugin.h:471:27: warning: unused function 'add_wavefunction' [-Wunused-function] static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) { ^ src/qmplugin.h:490:13: warning: unused function 'replace_wavefunction' [-Wunused-function] static void replace_wavefunction(qm_timestep_t *ts, int n) { ^ src/qmplugin.h:507:13: warning: unused function 'del_wavefunction' [-Wunused-function] static void del_wavefunction(qm_timestep_t *ts) { ^ src/qmplugin.h:540:13: warning: unused function 'angular_momentum_expon' [-Wunused-function] static void angular_momentum_expon(int *ang_mom_expon, ^ src/qmplugin.h:585:13: warning: unused function 'print_matrix4' [-Wunused-function] static void print_matrix4(const float mat[16]) { ^ src/qmplugin.h:1028:12: warning: unused function 'fpexpftoc' [-Wunused-function] static int fpexpftoc(char *ftocstr) { ^ 16 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_bgfplugin" -c src/bgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_binposplugin" -c src/binposplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/binposplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_biomoccaplugin" -c src/biomoccaplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_brixplugin" -c src/brixplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/brixplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_carplugin" -c src/carplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/carplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_ccp4plugin" -c src/ccp4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin-s.o In file included from src/ccp4plugin.C:46: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_corplugin" -c src/corplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/corplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_cpmdplugin" -c src/cpmdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin-s.o src/cpmdplugin.c:84:12: warning: unused function 'read_cpmd_structure' [-Wunused-function] static int read_cpmd_structure(void *mydata, int *optflags, ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_crdplugin" -c src/crdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/crdplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_cubeplugin" -c src/cubeplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin-s.o In file included from src/cubeplugin.C:37: src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 2 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dcdplugin" -c src/dcdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin-s.o In file included from src/dcdplugin.c:46: src/fastio.h:413:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:532:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:459:19: warning: unused function 'fio_readv' [-Wunused-function] static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { ^ src/fastio.h:605:12: warning: unused function 'fio_read_int32' [-Wunused-function] static int fio_read_int32(fio_fd fd, int *i) { ^ src/fastio.h:609:12: warning: unused function 'fio_write_str' [-Wunused-function] static int fio_write_str(fio_fd fd, const char *str) { ^ In file included from src/dcdplugin.c:56: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ 7 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dlpolyplugin" -c src/dlpolyplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin-s.o src/dlpolyplugin.c:290:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] if (NULL == fgets(fbuffer, 1024, data->file)) ^ src/dlpolyplugin.c:287:3: note: previous statement is here if (NULL == fgets(fbuffer, 1024, data->file)) ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dsn6plugin" -c src/dsn6plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin-s.o In file included from src/dsn6plugin.C:58: src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:112:13: warning: unused function 'swap4_aligned' [-Wunused-function] static void swap4_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dxplugin" -c src/dxplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dxplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_edmplugin" -c src/edmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/edmplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_fs4plugin" -c src/fs4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin-s.o In file included from src/fs4plugin.C:42: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ In file included from src/fs4plugin.C:43: src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] static int fort_eat_recmark(FILE *ifp, int recmarklen) { ^ src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] static int fort_get_endian_reclen(int reclen, int word0, int word1, ^ src/fortread.h:133:13: warning: unused function 'strnwscpy' [-Wunused-function] static void strnwscpy(char *target, const char *source, const int len) { ^ 8 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_gamessplugin" -c src/gamessplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin-s.o In file included from src/gamessplugin.c:155: src/qmplugin.h:895:12: warning: unused function 'iswhiteline' [-Wunused-function] static int iswhiteline(char *s) { ^ src/qmplugin.h:901:14: warning: unused function 'strtoupper' [-Wunused-function] static char *strtoupper(char *s) { ^ src/qmplugin.h:1077:13: warning: unused function 'thisline' [-Wunused-function] static void thisline(FILE *file) { ^ src/qmplugin.h:1097:13: warning: unused function 'whereami' [-Wunused-function] static void whereami(FILE *file) { ^ src/qmplugin.h:585:13: warning: unused function 'print_matrix4' [-Wunused-function] static void print_matrix4(const float mat[16]) { ^ src/qmplugin.h:1028:12: warning: unused function 'fpexpftoc' [-Wunused-function] static int fpexpftoc(char *ftocstr) { ^ In file included from src/gamessplugin.c:157: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] static float get_pte_mass(const int idx) ^ src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] static float get_pte_vdw_radius(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ src/gamessplugin.c:997:13: warning: unused function 'print_input_data' [-Wunused-function] static void print_input_data(qmdata_t *data) { ^ 11 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_graspplugin" -c src/graspplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/graspplugin-s.o In file included from src/graspplugin.C:35: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_grdplugin" -c src/grdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/grdplugin-s.o In file included from src/grdplugin.C:46: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_gridplugin" -c src/gridplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gridplugin-s.o In file included from src/gridplugin.C:54: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ In file included from src/gridplugin.C:55: src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] static int fort_eat_recmark(FILE *ifp, int recmarklen) { ^ src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] static int fort_get_endian_reclen(int reclen, int word0, int word1, ^ src/fortread.h:133:13: warning: unused function 'strnwscpy' [-Wunused-function] static void strnwscpy(char *target, const char *source, const int len) { ^ 8 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_gromacsplugin" -c src/gromacsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin-s.o In file included from src/gromacsplugin.C:25: In file included from src/Gromacs.h:48: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_jsplugin" -c src/jsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/jsplugin-s.o In file included from src/jsplugin.c:85: src/fastio.h:413:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:532:14: warning: variable 'len' set but not used [-Wunused-but-set-variable] fio_size_t len = 0; ^ src/fastio.h:459:19: warning: unused function 'fio_readv' [-Wunused-function] static fio_size_t fio_readv(fio_fd fd, const fio_iovec * iov, int iovcnt) { ^ In file included from src/jsplugin.c:95: In file included from src/hash.h:37: src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { ^ src/hash.c:280:24: warning: unused function 'hash_stats' [-Wunused-function] VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { ^ In file included from src/jsplugin.c:96: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/jsplugin.c:1228:12: warning: unused function 'read_js_timestep_index_offsets' [-Wunused-function] static int read_js_timestep_index_offsets(void *v, int natoms, ^ 9 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_lammpsplugin" -c src/lammpsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin-s.o src/lammpsplugin.c:1459:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] if (fabsf(ts->A > SMALL)) pbcx = 1; ^ src/lammpsplugin.c:1455:3: note: previous statement is here if ((fabsf(ts->alpha - 90.0f) > SMALL) || ^ src/lammpsplugin.c:1459:9: warning: using floating point absolute value function 'fabsf' when argument is of integer type [-Wabsolute-value] if (fabsf(ts->A > SMALL)) pbcx = 1; ^ src/lammpsplugin.c:1459:9: note: use function 'abs' instead if (fabsf(ts->A > SMALL)) pbcx = 1; ^~~~~ abs src/lammpsplugin.c:1460:9: warning: using floating point absolute value function 'fabsf' when argument is of integer type [-Wabsolute-value] if (fabsf(ts->B > SMALL)) pbcy = 1; ^ src/lammpsplugin.c:1460:9: note: use function 'abs' instead if (fabsf(ts->B > SMALL)) pbcy = 1; ^~~~~ abs src/lammpsplugin.c:1461:9: warning: using floating point absolute value function 'fabsf' when argument is of integer type [-Wabsolute-value] if (fabsf(ts->C > SMALL)) pbcz = 1; ^ src/lammpsplugin.c:1461:9: note: use function 'abs' instead if (fabsf(ts->C > SMALL)) pbcz = 1; ^~~~~ abs In file included from src/lammpsplugin.c:63: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ In file included from src/lammpsplugin.c:69: In file included from src/hash.h:37: src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { ^ src/hash.c:223:21: warning: unused function 'hash_entries' [-Wunused-function] VMDEXTERNSTATIC int hash_entries(hash_t *tptr) { ^ src/hash.c:280:24: warning: unused function 'hash_stats' [-Wunused-function] VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { ^ In file included from src/lammpsplugin.c:70: In file included from src/inthash.h:40: src/inthash.c:182:21: warning: unused function 'inthash_delete' [-Wunused-function] VMDEXTERNSTATIC int inthash_delete(inthash_t *tptr, int key) { ^ src/inthash.c:277:24: warning: unused function 'inthash_stats' [-Wunused-function] VMDEXTERNSTATIC char * inthash_stats(inthash_t *tptr) { ^ 11 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_mapplugin" -c src/mapplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mapplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_mdfplugin" -c src/mdfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin-s.o In file included from src/mdfplugin.C:40: In file included from src/hash.h:37: src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { ^ src/hash.c:223:21: warning: unused function 'hash_entries' [-Wunused-function] VMDEXTERNSTATIC int hash_entries(hash_t *tptr) { ^ src/hash.c:280:24: warning: unused function 'hash_stats' [-Wunused-function] VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { ^ 3 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_mol2plugin" -c src/mol2plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_moldenplugin" -c src/moldenplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin-s.o src/moldenplugin.c:591:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable] molfile_qm_hessian_t *hessian_data; ^ In file included from src/moldenplugin.c:43: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] static float get_pte_mass(const int idx) ^ src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] static float get_pte_vdw_radius(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ In file included from src/moldenplugin.c:44: src/qmplugin.h:711:12: warning: unused function 'symmetry_expand' [-Wunused-function] static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, ^ src/qmplugin.h:1006:12: warning: unused function 'have_keyline' [-Wunused-function] static int have_keyline(FILE *file, const char *keystring1, ^ src/qmplugin.h:1077:13: warning: unused function 'thisline' [-Wunused-function] static void thisline(FILE *file) { ^ src/qmplugin.h:1097:13: warning: unused function 'whereami' [-Wunused-function] static void whereami(FILE *file) { ^ src/qmplugin.h:490:13: warning: unused function 'replace_wavefunction' [-Wunused-function] static void replace_wavefunction(qm_timestep_t *ts, int n) { ^ src/qmplugin.h:507:13: warning: unused function 'del_wavefunction' [-Wunused-function] static void del_wavefunction(qm_timestep_t *ts) { ^ src/qmplugin.h:585:13: warning: unused function 'print_matrix4' [-Wunused-function] static void print_matrix4(const float mat[16]) { ^ 12 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_molemeshplugin" -c src/molemeshplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/molemeshplugin-s.o src/molemeshplugin.C:207:34: warning: overlapping comparisons always evaluate to true [-Wtautological-overlap-compare] } else if ( (facetType != 4 || facetType != 5) && facetType >= 6 ) { ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_msmsplugin" -c src/msmsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_namdbinplugin" -c src/namdbinplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin-s.o src/namdbinplugin.c:98:10: warning: variable 'numatoms' set but not used [-Wunused-but-set-variable] int i, numatoms; ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_offplugin" -c src/offplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/offplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_parm7plugin" -c src/parm7plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_parmplugin" -c src/parmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parmplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pbeqplugin" -c src/pbeqplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin-s.o In file included from src/pbeqplugin.C:48: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pdbplugin" -c src/pdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin-s.o In file included from src/pdbplugin.c:27: src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pdbxplugin" -c src/pdbxplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbxplugin-s.o In file included from src/pdbxplugin.C:30: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ In file included from src/pdbxplugin.C:44: In file included from src/inthash.h:40: src/inthash.c:182:21: warning: unused function 'inthash_delete' [-Wunused-function] VMDEXTERNSTATIC int inthash_delete(inthash_t *tptr, int key) { ^ src/inthash.c:222:21: warning: unused function 'inthash_entries' [-Wunused-function] VMDEXTERNSTATIC int inthash_entries(inthash_t *tptr) { ^ src/inthash.c:277:24: warning: unused function 'inthash_stats' [-Wunused-function] VMDEXTERNSTATIC char * inthash_stats(inthash_t *tptr) { ^ src/pdbxplugin.C:1890:20: warning: unused function 'isAtomSite' [-Wunused-function] static inline bool isAtomSite(char * str) { ^ src/pdbxplugin.C:439:14: warning: unused function 'stringToFloat' [-Wunused-function] static float stringToFloat(char * str) { ^ src/pdbxplugin.C:1601:13: warning: unused function 'parse_pdbx_ihm_restraints_data' [-Wunused-function] static bool parse_pdbx_ihm_restraints_data(pdbxParser* parser) { ^ 8 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_phiplugin" -c src/phiplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/phiplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pltplugin" -c src/pltplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pltplugin-s.o In file included from src/pltplugin.C:37: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_plyplugin" -c src/plyplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/plyplugin-s.o In file included from src/plyplugin.C:25: src/ply.c:41:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "invalid", ^ src/ply.c:42:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:9: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:18: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:46: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:56: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:42:67: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "int8", "int16", "int32", "uint8", "uint16", "uint32", "float32", "float64", ^ src/ply.c:46:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "invalid", ^ src/ply.c:47:1: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:9: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:18: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:34: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:44: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:52: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:47:61: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] "char", "short", "int", "uchar", "ushort", "uint", "float", "double", ^ src/ply.c:146:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile = (PlyFile *) myalloc (sizeof (PlyFile)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :187:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:157:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile->elems = (PlyElement **) myalloc (sizeof (PlyElement *) * nelems); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :189:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:159:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem = (PlyElement *) myalloc (sizeof (PlyElement)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :191:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:199:19: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] name = (char *) myalloc (sizeof (char) * (strlen (filename) + 5)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :193:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:191:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:193:15: warning: unused variable 'elem' [-Wunused-variable] PlyElement *elem; ^ src/ply.c:259:34: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *) * nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :195:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:260:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char) * nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :197:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:263:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :199:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:300:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :201:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:301:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :203:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:314:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem_prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :205:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:338:16: warning: unused variable 'prop' [-Wunused-variable] PlyProperty *prop; ^ src/ply.c:336:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:462:7: warning: unused variable 'i' [-Wunused-variable] int i,j,k; ^ src/ply.c:627:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile = (PlyFile *) myalloc (sizeof (PlyFile)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :207:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:640:43: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (!words || !equal_strings (words[0], "ply")) ^ src/ply.c:647:34: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings (words[0], "format")) { ^ src/ply.c:650:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings (words[1], "ascii")) ^ src/ply.c:652:41: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[1], "binary_big_endian")) ^ src/ply.c:654:41: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[1], "binary_little_endian")) ^ src/ply.c:661:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "element")) ^ src/ply.c:663:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "property")) ^ src/ply.c:665:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "comment")) ^ src/ply.c:667:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "obj_info")) ^ src/ply.c:669:39: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[0], "end_header")) ^ src/ply.c:683:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :209:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:691:21: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elist = (char **) myalloc (sizeof (char *) * plyfile->num_elem_types); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :211:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:616:7: warning: variable 'found_format' set but not used [-Wunused-but-set-variable] int found_format = 0; ^ src/ply.c:732:19: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] name = (char *) myalloc (sizeof (char) * (strlen (filename) + 5)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :213:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:793:32: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop_list = (PlyProperty **) myalloc (sizeof (PlyProperty *) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :215:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:795:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :217:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1065:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other = (PlyOtherProp *) myalloc (sizeof (PlyOtherProp)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :219:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1076:35: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other->props = (PlyProperty **) myalloc (sizeof(PlyProperty) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :221:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1083:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :223:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1174:46: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile->other_elems = (PlyOtherElems *) myalloc (sizeof (PlyOtherElems)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :225:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1176:45: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other_elems->other_list = (OtherElem *) myalloc (sizeof (OtherElem)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :227:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1307:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:1442:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other_data = (char *) myalloc (elem->other_size); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :229:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1492:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] item_ptr = (char *) myalloc (sizeof (char) * item_size * list_count); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :231:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1419:9: warning: unused variable 'fp' [-Wunused-variable] FILE *fp = plyfile->fp; ^ src/ply.c:1413:7: warning: unused variable 'i' [-Wunused-variable] int i,j,k; ^ src/ply.c:1574:27: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] other_data = (char *) myalloc (elem->other_size); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :233:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1615:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] item_ptr = (char *) myalloc (sizeof (char) * item_size * list_count); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :235:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1637:22: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] str = (char *) myalloc (len); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :237:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1548:7: warning: unused variable 'i' [-Wunused-variable] int i,j,k; ^ src/ply.c:1709:21: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] words = (char **) myalloc (sizeof (char *) * max_words); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :239:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:1700:7: warning: unused variable 'i' [-Wunused-variable] int i,j; ^ src/ply.c:1700:9: warning: unused variable 'j' [-Wunused-variable] int i,j; ^ src/ply.c:2255:25: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem = (PlyElement *) myalloc (sizeof (PlyElement)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :241:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2262:38: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] plyfile->elems = (PlyElement **) myalloc (sizeof (PlyElement *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :243:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2320:26: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :245:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2322:32: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings (words[1], "list")) { /* list */ ^ src/ply.c:2328:37: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] else if (equal_strings (words[1], "string")) { /* string */ ^ src/ply.c:2345:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :247:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2314:7: warning: unused variable 'count_type' [-Wunused-variable] int count_type; ^ src/ply.c:2313:7: warning: unused variable 'prop_type' [-Wunused-variable] int prop_type; ^ src/ply.c:2515:21: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elist = (char **) myalloc (sizeof (char *) * ply->num_elem_types); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :249:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2537:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] ply->comments = (char **) myalloc (sizeof (char *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :251:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2577:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] ply->obj_info = (char **) myalloc (sizeof (char *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :253:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2764:16: warning: unused variable 'prop' [-Wunused-variable] PlyProperty *prop; ^ src/ply.c:2762:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:2801:36: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->props = (PlyProperty **) myalloc (sizeof (PlyProperty *)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :255:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2802:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :257:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2815:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem_prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :259:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2849:19: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] myalloc (sizeof (PlyProperty *) * other->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :261:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2850:33: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] elem->store_prop = (char *) myalloc (sizeof (char) * other->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :263:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2865:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] prop = (PlyProperty *) myalloc (sizeof (PlyProperty)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :265:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2923:17: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] AVERAGE_RULE, "avg", ^ src/ply.c:2923:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] AVERAGE_RULE, "avg", ^~~~~~~~~~~~~~~~~~~ { } src/ply.h:115:23: note: expanded from macro 'AVERAGE_RULE' #define AVERAGE_RULE 1 ^ In file included from src/plyplugin.C:25: src/ply.c:2924:16: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] RANDOM_RULE, "rnd", ^ src/ply.c:2924:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] RANDOM_RULE, "rnd", ^~~~~~~~~~~~~~~~~~ { } src/ply.h:120:23: note: expanded from macro 'RANDOM_RULE' #define RANDOM_RULE 6 ^ In file included from src/plyplugin.C:25: src/ply.c:2925:17: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] MINIMUM_RULE, "max", ^ src/ply.c:2925:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] MINIMUM_RULE, "max", ^~~~~~~~~~~~~~~~~~~ { } src/ply.h:117:23: note: expanded from macro 'MINIMUM_RULE' #define MINIMUM_RULE 3 ^ In file included from src/plyplugin.C:25: src/ply.c:2926:17: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] MAXIMUM_RULE, "min", ^ src/ply.c:2926:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] MAXIMUM_RULE, "min", ^~~~~~~~~~~~~~~~~~~ { } src/ply.h:118:23: note: expanded from macro 'MAXIMUM_RULE' #define MAXIMUM_RULE 4 ^ In file included from src/plyplugin.C:25: src/ply.c:2927:18: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] MAJORITY_RULE, "major", ^ src/ply.c:2927:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] MAJORITY_RULE, "major", ^~~~~~~~~~~~~~~~~~~~~~ { } src/ply.h:116:23: note: expanded from macro 'MAJORITY_RULE' #define MAJORITY_RULE 2 ^ In file included from src/plyplugin.C:25: src/ply.c:2928:14: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] SAME_RULE, "same", ^ src/ply.c:2928:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] SAME_RULE, "same", ^~~~~~~~~~~~~~~~~ { } src/ply.h:119:23: note: expanded from macro 'SAME_RULE' #define SAME_RULE 5 ^ In file included from src/plyplugin.C:25: src/ply.c:2929:7: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] -1, "end_marker", ^ src/ply.c:2929:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] -1, "end_marker", ^~~~~~~~~~~~~~~~ { } src/ply.c:2960:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules = (PlyPropRules *) myalloc (sizeof (PlyPropRules)); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :267:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:2962:30: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules->rule_list = (int *) myalloc (sizeof(int) * elem->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :269:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3047:7: warning: unused variable 'count' [-Wunused-variable] int count; ^ src/ply.c:3046:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ src/ply.c:3048:15: warning: unused variable 'elem' [-Wunused-variable] PlyElement *elem = rules->elem; ^ src/ply.c:3074:30: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules->props = (void **) myalloc (sizeof (void *) * rules->max_props); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :271:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3075:32: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] rules->weights = (float *) myalloc (sizeof (float) * rules->max_props); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :273:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3126:23: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] new_data = (char *) myalloc (sizeof (char) * elem->other_size); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :275:1: note: expanded from here "src/ply.c" ^ In file included from src/plyplugin.C:25: src/ply.c:3132:23: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] vals = (double *) myalloc (sizeof (double) * rules->nprops); ^ src/ply.h:158:58: note: expanded from macro 'myalloc' #define myalloc(mem_size) my_alloc((mem_size), __LINE__, __FILE__) ^ :277:1: note: expanded from here "src/ply.c" ^ src/plyplugin.C:43:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"x", Float32, Float32, offsetof(Vertex,x), 0, 0, 0, 0}, ^ src/plyplugin.C:44:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"y", Float32, Float32, offsetof(Vertex,y), 0, 0, 0, 0}, ^ src/plyplugin.C:45:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"z", Float32, Float32, offsetof(Vertex,z), 0, 0, 0, 0}, ^ src/plyplugin.C:46:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"r", Float32, Float32, offsetof(Vertex,r), 0, 0, 0, 0}, ^ src/plyplugin.C:47:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"g", Float32, Float32, offsetof(Vertex,g), 0, 0, 0, 0}, ^ src/plyplugin.C:48:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"b", Float32, Float32, offsetof(Vertex,b), 0, 0, 0, 0}, ^ src/plyplugin.C:49:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"nx", Float32, Float32, offsetof(Vertex,nx), 0, 0, 0, 0}, ^ src/plyplugin.C:50:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"ny", Float32, Float32, offsetof(Vertex,ny), 0, 0, 0, 0}, ^ src/plyplugin.C:51:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"nz", Float32, Float32, offsetof(Vertex,nz), 0, 0, 0, 0}, ^ src/plyplugin.C:55:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"vertex_indices", Int32, Int32, offsetof(Face,verts), ^ src/plyplugin.C:57:4: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] {"vertex_index", Int32, Int32, offsetof(Face,verts), ^ src/plyplugin.C:117:24: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("vertex", elem_name)) { ^ src/plyplugin.C:133:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("r", prop->name)) { ^ src/plyplugin.C:137:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("g", prop->name)) { ^ src/plyplugin.C:141:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("b", prop->name)) { ^ src/plyplugin.C:145:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("nx", prop->name)) { ^ src/plyplugin.C:149:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("ny", prop->name)) { ^ src/plyplugin.C:153:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("nz", prop->name)) { ^ src/plyplugin.C:171:31: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] } else if (equal_strings ("face", elem_name)) { ^ src/plyplugin.C:183:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("vertex_indices", prop->name)) { ^ src/plyplugin.C:186:28: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] if (equal_strings ("vertex_index", prop->name)) { ^ src/plyplugin.C:102:17: warning: variable 'vert_other' set but not used [-Wunused-but-set-variable] PlyOtherProp *vert_other=NULL; ^ src/plyplugin.C:103:17: warning: variable 'face_other' set but not used [-Wunused-but-set-variable] PlyOtherProp *face_other=NULL; ^ In file included from src/plyplugin.C:22: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:112:13: warning: unused function 'swap4_aligned' [-Wunused-function] static void swap4_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 138 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pqrplugin" -c src/pqrplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin-s.o src/pqrplugin.c:161:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] char *name, *type; ^ src/pqrplugin.c:161:9: warning: variable 'name' set but not used [-Wunused-but-set-variable] char *name, *type; ^ 2 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_psfplugin" -c src/psfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/psfplugin-s.o In file included from src/psfplugin.c:25: In file included from src/fortread.h:28: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ In file included from src/psfplugin.c:25: src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] static int fort_eat_recmark(FILE *ifp, int recmarklen) { ^ src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] static int fort_get_endian_reclen(int reclen, int word0, int word1, ^ src/fortread.h:103:12: warning: unused function 'fortread_4' [-Wunused-function] static int fortread_4(void *dest, int n, int swap, FILE *fd) { ^ 8 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_raster3dplugin" -c src/raster3dplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_rst7plugin" -c src/rst7plugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_situsplugin" -c src/situsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/situsplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_spiderplugin" -c src/spiderplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin-s.o In file included from src/spiderplugin.C:31: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:48:13: warning: unused function 'swap4_unaligned' [-Wunused-function] static void swap4_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_stlplugin" -c src/stlplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/stlplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_tinkerplugin" -c src/tinkerplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_uhbdplugin" -c src/uhbdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin-s.o In file included from src/uhbdplugin.C:42: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:67:13: warning: unused function 'swap8_unaligned' [-Wunused-function] static void swap8_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 4 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspchgcarplugin" -c src/vaspchgcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin-s.o In file included from src/vaspchgcarplugin.c:36: src/vaspplugin.h:111:13: warning: unused function 'vasp_timestep_unitcell' [-Wunused-function] static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data) ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspoutcarplugin" -c src/vaspoutcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin-s.o In file included from src/vaspoutcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspparchgplugin" -c src/vaspparchgplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin-s.o In file included from src/vaspparchgplugin.c:36: src/vaspplugin.h:111:13: warning: unused function 'vasp_timestep_unitcell' [-Wunused-function] static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data) ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspposcarplugin" -c src/vaspposcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin-s.o In file included from src/vaspposcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vasp5xdatcarplugin" -c src/vasp5xdatcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vasp5xdatcarplugin-s.o In file included from src/vasp5xdatcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspxdatcarplugin" -c src/vaspxdatcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin-s.o In file included from src/vaspxdatcarplugin.c:35: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspxmlplugin" -c src/vaspxmlplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin-s.o In file included from src/vaspxmlplugin.c:42: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vtkplugin" -c src/vtkplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtkplugin-s.o src/vtkplugin.C:271:45: warning: variable 'total' set but not used [-Wunused-but-set-variable] int x, y, z, xsize, ysize, zsize, xysize, total; ^ src/vtkplugin.C:333:45: warning: variable 'total' set but not used [-Wunused-but-set-variable] int x, y, z, xsize, ysize, zsize, xysize, total; ^ In file included from src/vtkplugin.C:67: ../include/vmdconio.h:56:12: warning: unused function 'vmdcon_printf' [-Wunused-function] static int vmdcon_printf(int lvl, const char *fmt, ...) { ^ 3 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_xbgfplugin" -c src/xbgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin-s.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_xsfplugin" -c src/xsfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin-s.o In file included from src/xsfplugin.C:32: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_xyzplugin" -c src/xyzplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin-s.o In file included from src/xyzplugin.c:52: src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dtrplugin" -c src/dtrplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin-s.o In file included from src/dtrplugin.cxx:65: src/vmddir.h:145:12: warning: unused function 'vmd_file_is_executable' [-Wunused-function] static int vmd_file_is_executable(const char * filename) { ^ In file included from src/dtrplugin.cxx:66: src/endianswap.h:34:13: warning: unused function 'swap2_unaligned' [-Wunused-function] static void swap2_unaligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:98:13: warning: unused function 'swap2_aligned' [-Wunused-function] static void swap2_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:112:13: warning: unused function 'swap4_aligned' [-Wunused-function] static void swap4_aligned(void *v, ptrdiff_t ndata) { ^ src/endianswap.h:126:13: warning: unused function 'swap8_aligned' [-Wunused-function] static void swap8_aligned(void *v, ptrdiff_t ndata) { ^ 5 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_maeffplugin" -c src/maeffplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin-s.o src/maeffplugin.cxx:1885:9: warning: unused variable 'last_ctnumber' [-Wunused-variable] int last_ctnumber = -1; ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I/usr/local/include -I../include -Isrc -D"VMDPLUGIN=molfile_netcdfplugin" -c src/netcdfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/netcdfplugin-s.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -I/usr/local/include/tcl8.6 -D"VMDPLUGIN=molfile_vtfplugin" -c src/vtfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin-s.o src/vtfplugin.c:387:29: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] if (sscanf(s, " %255s%n", aid_specifier, &n) < 1) { ^ src/vtfplugin.c:409:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] while (sscanf(s, " %255s%n", keyword, &n) == 1) { ^ src/vtfplugin.c:792:31: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:814:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:824:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:834:32: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1043:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1099:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1109:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ src/vtfplugin.c:1123:34: warning: 'sscanf' may overflow; destination buffer in argument 3 has size 255, but the corresponding specifier may require size 256 [-Wfortify-source] sscanf(line, " %255s%n", s, &n); ^ 10 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -D"STATIC_PLUGIN" -I../include -Isrc -I/usr/local/include/tcl8.6 -D"VMDPLUGIN=molfile_webpdbplugin" -c src/webpdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin-s.o In file included from src/webpdbplugin.c:23: src/readpdb.h:39:12: warning: unused function 'read_pdb_record' [-Wunused-function] static int read_pdb_record(FILE *f, char *retStr) { ^ src/readpdb.h:348:12: warning: unused function 'write_raw_pdb_record' [-Wunused-function] static int write_raw_pdb_record(FILE *fd, const char *recordname, ^ In file included from src/webpdbplugin.c:24: src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] static const char *get_pte_label(const int idx) ^ src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ 4 warnings generated. rm -f ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.a ar cr ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.a ../compile/lib_FREEBSDAMD64/molfile/abinitplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/amiraplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/avsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/babelplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/binposplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/brixplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/carplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/corplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/crdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dxplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/edmplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/graspplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/grdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/gridplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/jsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/mapplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/molemeshplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/offplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/parmplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pdbxplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/phiplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pltplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/plyplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/psfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/situsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/stlplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vasp5xdatcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vtkplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/netcdfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin-s.o touch ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.a rm -f ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.h touch ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.h ../create_static_header.sh MOLFILE molfile ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.h abinitplugin amiraplugin avsplugin babelplugin basissetplugin bgfplugin binposplugin biomoccaplugin brixplugin carplugin ccp4plugin corplugin cpmdplugin crdplugin cubeplugin dcdplugin dlpolyplugin dsn6plugin dxplugin edmplugin fs4plugin gamessplugin graspplugin grdplugin gridplugin gromacsplugin jsplugin lammpsplugin mapplugin mdfplugin mol2plugin moldenplugin molemeshplugin msmsplugin namdbinplugin offplugin parm7plugin parmplugin pbeqplugin pdbplugin pdbxplugin phiplugin pltplugin plyplugin pqrplugin psfplugin raster3dplugin rst7plugin situsplugin spiderplugin stlplugin tinkerplugin uhbdplugin vaspchgcarplugin vaspoutcarplugin vaspparchgplugin vaspposcarplugin vasp5xdatcarplugin vaspxdatcarplugin vaspxmlplugin vtkplugin xbgfplugin xsfplugin xyzplugin dtrplugin maeffplugin netcdfplugin vtfplugin webpdbplugin gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' for dir in apbsrun alascanfep atomedit autoimd autoionize autopsf bdtk bendix bfeestimator bignum biocore bossconvert catdcd cgenffcaller cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap cv_dashboard dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu infobutton inorganicbuilder irspecgui json mafft mdff membrane membranemixer mergestructs modelmaker molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool qwikfold qwikmd ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool structurecheck symmetrytool tablelist timeline tktooltip topotools torsionplot trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdlite vmdmovie vmdprefs vmdtkcon vnd zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake dynlibs && cd .. || exit 1 ; done gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8 c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psfatom.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfatom.o In file included from src/psfatom.C:5: ../molfile_plugin/src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] static float get_pte_mass(const int idx) ^ ../molfile_plugin/src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] static float get_pte_vdw_radius(const int idx) ^ ../molfile_plugin/src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] static int get_pte_idx(const char *label) ^ ../molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ 4 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psfcheck.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psfreslist.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfreslist.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psfres.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfres.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psftype.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psftype.o In file included from src/psftype.C:5: ../molfile_plugin/src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] static float get_pte_vdw_radius(const int idx) ^ ../molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] static int get_pte_idx_from_string(const char *label) { ^ In file included from src/psftype.C:4: src/psftype.h:21:11: warning: private field 'index' is not used [-Wunused-private-field] int index; ^ 3 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psftypelist.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psftypelist.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psfbond.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfbond.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../molfile_plugin/src -c src/psfatomlist.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfatomlist.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc -I../molfile_plugin/src -c src/psfcheck_wrap.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck_wrap.o src/psfcheck_wrap.C:254:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register unsigned char uu; ^~~~~~~~~ src/psfcheck_wrap.C:266:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register unsigned char uu = 0; ^~~~~~~~~ src/psfcheck_wrap.C:267:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int d; ^~~~~~~~~ src/psfcheck_wrap.C:427:18: warning: variable 'entryPtr' set but not used [-Wunused-but-set-variable] Tcl_HashEntry *entryPtr; ^ src/psfcheck_wrap.C:200:1: warning: unused function 'SWIG_Tcl_TypeDynamicCast' [-Wunused-function] SWIG_TypeDynamicCast(swig_type_info *ty, void **ptr) { ^ src/psfcheck_wrap.C:39:30: note: expanded from macro 'SWIG_TypeDynamicCast' #define SWIG_TypeDynamicCast SWIG_Tcl_TypeDynamicCast ^ src/psfcheck_wrap.C:212:1: warning: unused function 'SWIG_Tcl_TypeName' [-Wunused-function] SWIG_TypeName(const swig_type_info *ty) { ^ src/psfcheck_wrap.C:40:30: note: expanded from macro 'SWIG_TypeName' #define SWIG_TypeName SWIG_Tcl_TypeName ^ src/psfcheck_wrap.C:218:1: warning: unused function 'SWIG_Tcl_TypeQuery' [-Wunused-function] SWIG_TypeQuery(const char *name) { ^ src/psfcheck_wrap.C:41:30: note: expanded from macro 'SWIG_TypeQuery' #define SWIG_TypeQuery SWIG_Tcl_TypeQuery ^ src/psfcheck_wrap.C:230:1: warning: function 'SWIG_Tcl_TypeClientData' is not needed and will not be emitted [-Wunneeded-internal-declaration] SWIG_TypeClientData(swig_type_info *ti, void *clientdata) { ^ src/psfcheck_wrap.C:42:30: note: expanded from macro 'SWIG_TypeClientData' #define SWIG_TypeClientData SWIG_Tcl_TypeClientData ^ src/psfcheck_wrap.C:505:1: warning: unused function 'SWIG_Tcl_PointerTypeFromString' [-Wunused-function] SWIG_Tcl_PointerTypeFromString(char *c) { ^ src/psfcheck_wrap.C:522:1: warning: unused function 'SWIG_Tcl_ConvertPacked' [-Wunused-function] SWIG_Tcl_ConvertPacked(Tcl_Interp *interp, Tcl_Obj *obj, void *ptr, int sz, swig_type_info *ty, int flags) { ^ src/psfcheck_wrap.C:921:1: warning: unused function 'SWIG_Tcl_ObjectConstructor' [-Wunused-function] SWIG_Tcl_ObjectConstructor(ClientData clientData, Tcl_Interp *interp, int objc, Tcl_Obj *CONST objv[]) { ^ src/psfcheck_wrap.C:1000:1: warning: unused function 'SWIG_Tcl_NewInstanceObj' [-Wunused-function] SWIG_Tcl_NewInstanceObj(Tcl_Interp *interp, void *thisvalue, swig_type_info *type, int flags) { ^ 12 warnings generated. if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck.so ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfatom.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfreslist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfres.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psftype.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psftypelist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfbond.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfatomlist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck_wrap.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck.so ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfatom.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfreslist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfres.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psftype.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psftypelist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfbond.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfatomlist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.8/psfcheck_wrap.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0 c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat1.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat1.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat2.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat2.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat3.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat3.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat4.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat4.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat5.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat5.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat6.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat6.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat7.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat7.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat8.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat8.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmat9.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat9.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmatex.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatex.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/bandmat.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/bandmat.o src/bandmat.C:127:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (A_BW.Upper() < 0) | (B_BW.Lower() < 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/bandmat.C:127:8: note: cast one or both operands to int to silence this warning src/bandmat.C:127:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (A_BW.Upper() < 0) | (B_BW.Lower() < 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || src/bandmat.C:127:8: note: cast one or both operands to int to silence this warning src/bandmat.C:127:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (A_BW.Upper() < 0) | (B_BW.Lower() < 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || src/bandmat.C:127:8: note: cast one or both operands to int to silence this warning src/bandmat.C:140:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (A_BW.Upper() < 0) | (B_BW.Lower() < 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/bandmat.C:140:8: note: cast one or both operands to int to silence this warning src/bandmat.C:140:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (A_BW.Upper() < 0) | (B_BW.Lower() < 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || src/bandmat.C:140:8: note: cast one or both operands to int to silence this warning src/bandmat.C:140:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (A_BW.Upper() < 0) | (B_BW.Lower() < 0) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || src/bandmat.C:140:8: note: cast one or both operands to int to silence this warning src/bandmat.C:488:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (B_BW.Lower() < 0)) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || src/bandmat.C:488:8: note: cast one or both operands to int to silence this warning src/bandmat.C:500:8: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical] if ((A_BW.Lower() < 0) | (B_BW.Lower() < 0)) ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ || src/bandmat.C:500:8: note: cast one or both operands to int to silence this warning 8 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/submat.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/submat.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/myexcept.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/myexcept.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/cholesky.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/cholesky.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/evalue.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/evalue.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/fft.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/fft.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/hholder.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hholder.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/jacobi.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/jacobi.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newfft.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newfft.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/sort.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/sort.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/svd.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/svd.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newmatrm.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatrm.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -g -Isrc -c src/hesstrans.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.o src/hesstrans.C:346:8: warning: variable 'angle142' set but not used [-Wunused-but-set-variable] Real angle142 = 0.0; // Angle in radians ^ src/hesstrans.C:347:8: warning: variable 'angle143' set but not used [-Wunused-but-set-variable] Real angle143 = 0.0; // Angle in radians ^ src/hesstrans.C:348:8: warning: variable 'angle243' set but not used [-Wunused-but-set-variable] Real angle243 = 0.0; // Angle in radians ^ 3 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -g -I/usr/local/include/tcl8.6 -Isrc -D_FREEBSDAMD64 -DHESSTRANSTCLDLL_EXPORTS -c src/tcl_hesstrans.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/tcl_hesstrans.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.so ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat1.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat2.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat3.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat4.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat5.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat6.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat7.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat8.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat9.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatex.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/bandmat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/submat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/myexcept.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/cholesky.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/evalue.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/fft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hholder.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/jacobi.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newfft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/sort.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/svd.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatrm.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/tcl_hesstrans.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.so ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat1.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat2.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat3.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat4.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat5.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat6.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat7.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat8.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat9.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatex.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/bandmat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/submat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/myexcept.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/cholesky.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/evalue.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/fft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hholder.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/jacobi.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newfft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/sort.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/svd.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatrm.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/tcl_hesstrans.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/mutator1.5 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/libalchemify.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/libalchemify.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc -c src/alchemify_tcl_wrap.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/alchemify_tcl_wrap.o src/alchemify_tcl_wrap.c:1796:14: warning: explicitly assigning value of variable of type 'void *' to itself [-Wself-assign] clientdata = clientdata; ~~~~~~~~~~ ^ ~~~~~~~~~~ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/alchemify_tcl.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/alchemify_tcl.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/libalchemify.so ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/libalchemify.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/alchemify_tcl_wrap.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/alchemify_tcl.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/libalchemify.so ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/libalchemify.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/alchemify_tcl_wrap.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.5/alchemify_tcl.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pmepot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pmepot.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/gridcharges.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/gridcharges.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/recipspace.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/recipspace.o src/recipspace.c:77:10: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] return abs(v); ^ src/recipspace.c:77:10: note: use function 'fabsf' instead return abs(v); ^~~ fabsf src/recipspace.c:153:42: warning: variable 'vir' set but not used [-Wunused-but-set-variable] float m3, m33, xp3, msq, imsq, vir, fac; ^ src/recipspace.c:224:33: warning: variable 'vir' set but not used [-Wunused-but-set-variable] float xp3, msq, imsq, vir, fac; ^ src/recipspace.c:295:33: warning: variable 'vir' set but not used [-Wunused-but-set-variable] float xp3, msq, imsq, vir, fac; ^ 4 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/dxfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/dxfile.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pub3dfft.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pub3dfft.o src/pub3dfft.c:25:64: warning: variable 'nt' set but not used [-Wunused-but-set-variable] static int idij, idlj, idot, ipph, i, j, k, l, jc, lc, ik, nt, idj, ^ src/pub3dfft.c:654:64: warning: variable 'nt' set but not used [-Wunused-but-set-variable] static int idij, idlj, idot, ipph, i, j, k, l, jc, lc, ik, nt, idj, ^ 2 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc -D_FREEBSDAMD64 -DPMEPOTTCLDLL_EXPORTS -c src/tcl_pmepot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/tcl_pmepot.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/libpmepot.so ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pmepot.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/gridcharges.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/recipspace.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/dxfile.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pub3dfft.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/tcl_pmepot.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/libpmepot.so ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pmepot.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/gridcharges.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/recipspace.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/dxfile.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pub3dfft.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/tcl_pmepot.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/charmm_file.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/charmm_file.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/charmm_parse_topo_defs.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/charmm_parse_topo_defs.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/extract_alias.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/extract_alias.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/hash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/hash.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/hasharray.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/hasharray.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/memarena.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/memarena.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/pdb_file.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/pdb_file.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/pdb_file_extract.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/pdb_file_extract.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/psf_file.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/psf_file.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/psf_file_extract.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/psf_file_extract.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/stringhash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/stringhash.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_defs.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_defs.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_mol.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_mol_output.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol_output.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_mol_pluginio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol_pluginio.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -DNEWPSFGEN -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -D_FREEBSDAMD64 -DPSFGENTCLDLL_EXPORTS -c src/tcl_psfgen.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/tcl_psfgen.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/libpsfgen.so ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/charmm_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/charmm_parse_topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/extract_alias.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/hash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/hasharray.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/memarena.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/pdb_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/pdb_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/psf_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/psf_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/stringhash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol_output.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol_pluginio.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/tcl_psfgen.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/libpsfgen.so ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/charmm_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/charmm_parse_topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/extract_alias.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/hash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/hasharray.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/memarena.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/pdb_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/pdb_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/psf_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/psf_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/stringhash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol_output.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/topo_mol_pluginio.o ../compile/lib_FREEBSDAMD64/tcl/psfgen2.0/tcl_psfgen.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsd' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdtt' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdtt' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdvt' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdvt' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ruler' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ruler' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runante' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runante' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runsqm' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runsqm' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/saltbr' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/saltbr' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/signalproc' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/kiss_fft.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/kiss_fft.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc -D_FREEBSDAMD64 -DFFTCMDSTCLDLL_EXPORTS -c src/tcl_fftcmds.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_fftcmds.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/fftcmds.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/kiss_fft.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_fftcmds.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/fftcmds.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/kiss_fft.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_fftcmds.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/sgsmooth.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.o src/sgsmooth.C:135:17: warning: format specifies type 'int' but the argument has type 'size_t' (aka 'unsigned long') [-Wformat] rows, cols); ^~~~ src/sgsmooth.C:135:23: warning: format specifies type 'int' but the argument has type 'size_t' (aka 'unsigned long') [-Wformat] rows, cols); ^~~~ 2 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc -D_FREEBSDAMD64 -DSGSMOOTHTCLDLL_EXPORTS -c src/tcl_sgsmooth.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_sgsmooth.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_sgsmooth.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_sgsmooth.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/specden.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc -D_FREEBSDAMD64 -DSPECDENTCLDLL_EXPORTS -c src/tcl_specden.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_specden.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_specden.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_specden.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/signalproc' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/solvate' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/solvate' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ssrestraints' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ssrestraints' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stingtool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stingtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/structurecheck' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/structurecheck' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/symmetrytool' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/symmetrytool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tablelist' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tablelist' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/timeline' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/timeline' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tktooltip' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tktooltip' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/topotools' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/topotools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/torsionplot' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/torsionplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/trunctraj' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/trunctraj' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/utilities' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/utilities' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vdna' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vdna' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewchangerender' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewchangerender' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewmaster' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewmaster' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volmapgui' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volmapgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/libbiokit' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1 c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I/usr/local/include/tcl8.6 -Isrc/libbiokit -c src/interface/tcl_libbiokit_wrap.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit_wrap.o src/interface/tcl_libbiokit_wrap.cpp:523:7: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register size_t l = 0; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:524:7: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register size_t r = iter->size - 1; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:527:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register size_t i = (l + r) >> 1; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:530:4: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int compare = strcmp(name, iname); ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:574:7: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register size_t i = 0; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:593:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register const unsigned char *u = (unsigned char *) ptr; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:594:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register const unsigned char *eu = u + sz; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:596:5: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register unsigned char uu = *u; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:608:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register unsigned char *u = (unsigned char *) ptr; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:609:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register const unsigned char *eu = u + sz; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:611:5: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char d = *(c++); ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:612:5: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register unsigned char uu; ^~~~~~~~~ src/interface/tcl_libbiokit_wrap.cpp:2202:14: warning: explicitly assigning value of variable of type 'void *' to itself [-Wself-assign] clientdata = clientdata; ~~~~~~~~~~ ^ ~~~~~~~~~~ 13 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/interface/tcl_libbiokit.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/alignedSequence.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/alignedStructure.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/alphabet.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/alphabetBuilder.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/aminoAcidQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/Atom.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/AtomList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/binaryQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/Contact.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/ContactList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/ContactTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/coordinate3D.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/fastaReader.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/fastaWriter.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/PointerList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/PIDTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/qTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o src/libbiokit/qTools.cpp:311:3: warning: 'delete' applied to a pointer that was allocated with 'new[]'; did you mean 'delete[]'? [-Wmismatched-new-delete] delete qNorm; ^ [] src/libbiokit/qTools.cpp:200:17: note: allocated with 'new[]' here int **qNorm = new int* [structCount]; ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/Residue.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o src/libbiokit/Residue.cpp:47:26: warning: field 'resNum' is uninitialized when used here [-Wuninitialized] : AtomList(atom), resNum(resNum) ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/rnaQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/sequence.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/sequenceAlignment.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/structureAlignment.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/sequenceQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o src/libbiokit/sequenceQR.cpp:241:24: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if ((currentColumn == 0)) { ~~~~~~~~~~~~~~^~~~ src/libbiokit/sequenceQR.cpp:241:24: note: remove extraneous parentheses around the comparison to silence this warning if ((currentColumn == 0)) { ~ ^ ~ src/libbiokit/sequenceQR.cpp:241:24: note: use '=' to turn this equality comparison into an assignment if ((currentColumn == 0)) { ^~ = src/libbiokit/sequenceQR.cpp:286:2: warning: 'delete' applied to a pointer that was allocated with 'new[]'; did you mean 'delete[]'? [-Wmismatched-new-delete] delete norms; ^ [] src/libbiokit/sequenceQR.cpp:266:24: note: allocated with 'new[]' here float *norms = new float[cMk]; ^ 2 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/ShortIntList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/structure.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/symbol.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/symbolList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc/libbiokit -c src/libbiokit/typeConvert.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o if [ -n "" ]; \ then -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit_wrap.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ else cc -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit_wrap.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o -L/usr/local/lib -ltcl86 -fstack-protector-strong ; \ fi gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/libbiokit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseq' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseq' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseqdialog' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseqdialog' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/phylotree' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/phylotree' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psipred' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psipred' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqdata' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqdata' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqedit' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqedit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' gmake[3]: Nothing to be done for 'dynlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' for dir in apbsrun alascanfep atomedit autoimd autoionize autopsf bdtk bendix bfeestimator bignum biocore bossconvert catdcd cgenffcaller cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap cv_dashboard dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu infobutton inorganicbuilder irspecgui json mafft mdff membrane membranemixer mergestructs modelmaker molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool qwikfold qwikmd ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool structurecheck symmetrytool tablelist timeline tktooltip topotools torsionplot trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdlite vmdmovie vmdprefs vmdtkcon vnd zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake staticlibs && cd .. || exit 1 ; done gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsd' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdtt' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdtt' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdvt' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdvt' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ruler' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ruler' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runante' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runante' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runsqm' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runsqm' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/saltbr' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/saltbr' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/signalproc' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/signalproc' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/solvate' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/solvate' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ssrestraints' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ssrestraints' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stingtool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stingtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/structurecheck' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/structurecheck' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/symmetrytool' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/symmetrytool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tablelist' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tablelist' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/timeline' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/timeline' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tktooltip' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tktooltip' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/topotools' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/topotools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/torsionplot' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/torsionplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/trunctraj' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/trunctraj' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/utilities' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/utilities' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vdna' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vdna' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewchangerender' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewchangerender' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewmaster' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewmaster' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volmapgui' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volmapgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/libbiokit' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/libbiokit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseq' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseq' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseqdialog' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseqdialog' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/phylotree' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/phylotree' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psipred' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psipred' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqdata' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqdata' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqedit' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqedit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' gmake[3]: Nothing to be done for 'staticlibs'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' for dir in molfile_plugin apbsrun alascanfep atomedit autoimd autoionize autopsf bdtk bendix bfeestimator bignum biocore bossconvert catdcd cgenffcaller cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap cv_dashboard dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu infobutton inorganicbuilder irspecgui json mafft mdff membrane membranemixer mergestructs modelmaker molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool qwikfold qwikmd ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool structurecheck symmetrytool tablelist timeline tktooltip topotools torsionplot trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdlite vmdmovie vmdprefs vmdtkcon vnd zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake bins && cd .. || exit 1 ; done gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0 c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/Main.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Main.o src/Main.cpp:155:9: warning: variable 'outlines' set but not used [-Wunused-but-set-variable] int outlines; ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/Parser.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Parser.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/Worker.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Worker.o src/Worker.cpp:75:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] lines++; ^ src/Worker.cpp:73:4: note: previous statement is here if(atom->residue == *rsd) ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/Atom.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Atom.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Main.o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Parser.o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Worker.o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Atom.o -o ../compile/lib_FREEBSDAMD64/tcl/bossconvert1.0/Topology -lm gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' mkdir -p ../compile/lib_FREEBSDAMD64/bin/catdcd5.2 c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./hash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/catdcd5.2/hash.o c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated [-Wdeprecated] c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./catdcd.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/catdcd5.2/catdcd.o c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated [-Wdeprecated] c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall ../compile/lib_FREEBSDAMD64/bin/catdcd5.2/hash.o ../compile/lib_FREEBSDAMD64/bin/catdcd5.2/catdcd.o -o ../compile/lib_FREEBSDAMD64/bin/catdcd5.2/catdcd -L../compile/lib_FREEBSDAMD64/molfile -lmolfile_plugin -L/usr/local/lib -ltcl86 -L/usr/local/lib -lnetcdf -L/usr/local/lib -lexpat -L/usr/local/lib -lsqlite3 -lm gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' mkdir -p ../compile/lib_FREEBSDAMD64/bin/cionize1.0 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./hash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/hash.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./threads.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/threads.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./util.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/util.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./getplugins.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/getplugins.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./energythr.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/energythr.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_gridio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_gridio.o ./cionize_gridio.c:84:39: warning: comparing a pointer to a null character constant; did you mean to compare to NULL? [-Wpointer-compare] while ((p = strchr(tmpstr, '"')) != '\0') { ^~~~ (void *)0 ./cionize_gridio.c:193:53: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^ ./cionize_gridio.c:193:53: note: use function 'fabsf' instead if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^~~ fabsf ./cionize_gridio.c:193:53: note: include the header or explicitly provide a declaration for 'fabsf' ./cionize_gridio.c:193:78: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^ ./cionize_gridio.c:193:78: note: use function 'fabsf' instead if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^~~ fabsf ./cionize_gridio.c:193:78: note: include the header or explicitly provide a declaration for 'fabsf' ./cionize_gridio.c:193:103: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^ ./cionize_gridio.c:193:103: note: use function 'fabsf' instead if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^~~ fabsf ./cionize_gridio.c:193:103: note: include the header or explicitly provide a declaration for 'fabsf' ./cionize_gridio.c:193:128: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^ ./cionize_gridio.c:193:128: note: use function 'fabsf' instead if (k != numplane || j != numcol || i != numpt || abs(tmpx - cx) > 0.01 || abs(tmpy - cy) > 0.01 || abs(tmpz - cz) > 0.01 || abs(gridspacing - tmpspacing) > 0.01) { ^~~ fabsf ./cionize_gridio.c:193:128: note: include the header or explicitly provide a declaration for 'fabsf' 5 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_molfileio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_molfileio.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_internals.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_internals.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_userio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_userio.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_error.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_error.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_lattice.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_lattice.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_setup.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_setup.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_shortrng.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_shortrng.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_longrng.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_longrng.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_cubic.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_cubic.o ./mgpot_cubic.c:48:9: warning: unused variable 'bench_latcut_gpu' [-Wunused-variable] float bench_latcut_gpu = 0; ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_quintic1.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_quintic1.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/hash.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/threads.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/util.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/getplugins.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/energythr.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_gridio.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_molfileio.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_internals.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_userio.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_error.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_lattice.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_setup.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_shortrng.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_longrng.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_cubic.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_quintic1.o -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize -L../compile/lib_FREEBSDAMD64/molfile -lmolfile_plugin -L/usr/local/lib -ltcl86 -L/usr/local/lib -lnetcdf -L/usr/local/lib -lexpat -L/usr/local/lib -lsqlite3 -lm gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/mafft1.1 cp mafft.tcl pkgIndex.tcl ../compile/lib_FREEBSDAMD64/tcl/mafft1.1 gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/analyze.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/analyze.o src/analyze.c:117:41: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("num_bp in analysis %4d \n",num_bp); ~~~ ^~~~~~ %4ld 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/fpair.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/fpair.o src/fpair.c:139:44: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] sprintf(work_num, "%d_%d", i, j); ~~ ^ %ld src/fpair.c:139:47: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] sprintf(work_num, "%d_%d", i, j); ~~ ^ %ld src/fpair.c:197:52: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] work_num, ChainID[ir], ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:198:29: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:222:60: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] work_num, ChainID[ir], ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:223:37: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:250:60: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] work_num, ChainID[ir], ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:251:37: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:292:42: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ChainID[ir], ResSeq[ir], bseq[i], bseq[j],ResSeq[jr], ^~~~~~~~~~ src/fpair.c:292:71: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ChainID[ir], ResSeq[ir], bseq[i], bseq[j],ResSeq[jr], ^~~~~~~~~~ src/fpair.c:308:79: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf( "The total number of pairs %d is too large. ",num_bp); ~~ ^~~~~~ %ld src/fpair.c:338:44: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] sprintf(work_num, "%d_%d", i, j); ~~ ^ %ld src/fpair.c:338:47: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] sprintf(work_num, "%d_%d", i, j); ~~ ^ %ld src/fpair.c:350:33: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:351:33: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:408:56: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] work_num, ChainID[ir], ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:409:33: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:430:56: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] work_num, ChainID[ir], ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:431:33: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], type,pa_int,syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:453:56: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] work_num, ChainID[ir], ResSeq[ir], bseq[i], bseq[j], ^~~~~~~~~~ src/fpair.c:454:33: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ResSeq[jr],ChainID[jr], type,pa_int,syn_i, syn_j); ^~~~~~~~~~ src/fpair.c:1062:10: warning: unused variable 'criteria' [-Wunused-variable] char criteria[200]; ^ src/fpair.c:1332:29: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] j_order,marker_n, i - helix_idx[ii][1] + 1, b1, wc, b2); ^~~~~~~~ src/fpair.c:2203:59: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("%5d %5d %4s - %4s %8.2f%8.2f\n", i, j, AtomName[m],AtomName[n],dd, dist); ~~~ ^ %5ld src/fpair.c:2203:62: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("%5d %5d %4s - %4s %8.2f%8.2f\n", i, j, AtomName[m],AtomName[n],dd, dist); ~~~ ^ %5ld 25 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/fpair_sub.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/fpair_sub.o src/fpair_sub.c:84:17: warning: variable 'ii' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized] else if(resnam=='P') ^~~~~~~~~~~ src/fpair_sub.c:88:16: note: uninitialized use occurs here return ii; ^~ src/fpair_sub.c:84:14: note: remove the 'if' if its condition is always true else if(resnam=='P') ^~~~~~~~~~~~~~~ src/fpair_sub.c:70:12: note: initialize the variable 'ii' to silence this warning long ii; ^ = 0 src/fpair_sub.c:196:24: warning: '&&' within '||' [-Wlogical-op-parentheses] if (nlen >= 54 && !strncmp(str, "ATOM", 4) ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ src/fpair_sub.c:196:24: note: place parentheses around the '&&' expression to silence this warning if (nlen >= 54 && !strncmp(str, "ATOM", 4) ^ ( ) src/fpair_sub.c:230:24: warning: '&&' within '||' [-Wlogical-op-parentheses] if (nlen >= 54 && !strncmp(str, "ATOM", 4) ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ src/fpair_sub.c:230:24: note: place parentheses around the '&&' expression to silence this warning if (nlen >= 54 && !strncmp(str, "ATOM", 4) ^ ( ) src/fpair_sub.c:2167:24: warning: variable 'inum' set but not used [-Wunused-but-set-variable] long i, inum_base, inum, is_exist, j, jr, k, m, n_unique = 0, **mtxple; ^ src/fpair_sub.c:2378:22: warning: unused variable 'inum' [-Wunused-variable] long j,k,atmnum, inum=0; ^ src/fpair_sub.c:2455:30: warning: unused variable 'inum' [-Wunused-variable] long i,j,k,Pnum, atmnum, inum=0; ^ 6 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/multiple.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/multiple.o src/multiple.c:101:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout,"%4d (%d) ", nmul+1, nstr); ~~~ ^~~~~~ %4ld src/multiple.c:101:51: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout,"%4d (%d) ", nmul+1, nstr); ~~ ^~~~ %ld src/multiple.c:139:9: warning: variable 'k' set but not used [-Wunused-but-set-variable] int k,i; ^ 3 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/nrutil.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/nrutil.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pair_type.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/pair_type.o src/pair_type.c:21:14: warning: unused variable 'k' [-Wunused-variable] long nh, k; ^ src/pair_type.c:120:19: warning: unused variable 'k' [-Wunused-variable] long nh1,nh2, k; ^ src/pair_type.c:172:9: warning: variable 's' set but not used [-Wunused-but-set-variable] long s=0,h=0,w=0; ^ src/pair_type.c:172:13: warning: variable 'h' set but not used [-Wunused-but-set-variable] long s=0,h=0,w=0; ^ src/pair_type.c:172:17: warning: variable 'w' set but not used [-Wunused-but-set-variable] long s=0,h=0,w=0; ^ 5 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pattern.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/pattern.o src/pattern.c:55:52: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("There are only %d base pairs!!\n", nl_tot); ~~ ^~~~~~ %ld src/pattern.c:78:65: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("String length %d is larger than (70)\n",n); ~~ ^ %ld src/pattern.c:278:24: warning: unused variable 'yes' [-Wunused-variable] long i, j,k, nstr, yes=0, n, nt, m, ns; ^ src/pattern.c:551:71: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout_tmp,"\n Number of groups -----------%d-----------\n",npatt); ~~ ^~~~~ %ld src/pattern.c:562:17: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] idx_in_tmp[i]); ^~~~~~~~~~~~~ src/pattern.c:470:18: warning: unused variable 'yes' [-Wunused-variable] long i, j,k, yes=0, m, ns; ^ src/pattern.c:610:26: warning: variable 'nnew' set but not used [-Wunused-but-set-variable] long i, nm, sub_yes, nnew, type_new[300], type_i, delta; ^ src/pattern.c:711:11: warning: variable 'idx_in' set but not used [-Wunused-but-set-variable] long *idx_in,*idx_in_tmp, *idx_out; ^ src/pattern.c:712:26: warning: unused variable 'nns' [-Wunused-variable] long **pair_tot_idx, nns=0; ^ src/pattern.c:713:46: warning: variable 'line' set but not used [-Wunused-but-set-variable] char str[100], tmp[100], inpfile[100], **line, **pair_tot; ^ src/pattern.c:710:34: warning: variable 'matched' set but not used [-Wunused-but-set-variable] long *group_idx, *patt_idx, *matched; ^ src/pattern.c:711:32: warning: variable 'idx_out' set but not used [-Wunused-but-set-variable] long *idx_in,*idx_in_tmp, *idx_out; ^ src/pattern.c:708:18: warning: unused variable 'yes' [-Wunused-variable] long i, j,k, yes=0, nt; ^ src/pattern.c:711:19: warning: variable 'idx_in_tmp' set but not used [-Wunused-but-set-variable] long *idx_in,*idx_in_tmp, *idx_out; ^ src/pattern.c:820:61: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout,"Input type: %s (%4d)\n", type_tmp, user_type[ng]); ~~~ ^~~~~~~~~~~~~ %4ld src/pattern.c:821:46: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("Input type: %4d %s %4d \n",ng, type_tmp, user_type[ng]); ~~~ ^~ %4ld src/pattern.c:821:61: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("Input type: %4d %s %4d \n",ng, type_tmp, user_type[ng]); ~~~ ^~~~~~~~~~~~~ %4ld src/pattern.c:920:61: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout,"Total number of matched patterns = %d \n",ns); ~~ ^~ %ld src/pattern.c:932:47: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout,"-----------%d-----------\n",ns); ~~ ^~ %ld src/pattern.c:965:10: warning: unused variable 'i' [-Wunused-variable] long i, n, k, j, yes, n1,n2,m; ^ src/pattern.c:965:19: warning: variable 'j' set but not used [-Wunused-but-set-variable] long i, n, k, j, yes, n1,n2,m; ^ 21 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/ps-xy.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/ps-xy.o src/ps-xy.c:307:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] nhelix,longest); ^~~~~~ src/ps-xy.c:307:19: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] nhelix,longest); ^~~~~~~ src/ps-xy.c:35:42: warning: unused variable 'alfa' [-Wunused-variable] double **xy,**nxy,x1,y1,a=0, *slope, alfa; ^ src/ps-xy.c:443:17: warning: unused variable 'atmnum' [-Wunused-variable] long i,j,k, atmnum; ^ src/ps-xy.c:443:12: warning: unused variable 'j' [-Wunused-variable] long i,j,k, atmnum; ^ src/ps-xy.c:492:14: warning: unused variable 'frame_box' [-Wunused-variable] long i,j,frame_box=0; ^ src/ps-xy.c:488:11: warning: unused variable 'format' [-Wunused-variable] char *format = "%6ld%6ld"; ^ 7 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/ps-xy-sub.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/ps-xy-sub.o src/ps-xy-sub.c:54:23: warning: '&&' within '||' [-Wlogical-op-parentheses] for(i++;(i<=n)&& ~~~~~~^~ src/ps-xy-sub.c:54:23: note: place parentheses around the '&&' expression to silence this warning for(i++;(i<=n)&& ^ ( src/ps-xy-sub.c:759:9: warning: absolute value function 'abs' given an argument of type 'long' but has parameter of type 'int' which may cause truncation of value [-Wabsolute-value] m = abs(n1-n2) - 1; ^ src/ps-xy-sub.c:759:9: note: use function 'labs' instead m = abs(n1-n2) - 1; ^~~ labs src/ps-xy-sub.c:745:49: warning: variable 'y2' set but not used [-Wunused-but-set-variable] double x0,y0, x01,y01, x02,y02, x1,y1, x2,y2, a0, b0,sign; ^ src/ps-xy-sub.c:745:46: warning: variable 'x2' set but not used [-Wunused-but-set-variable] double x0,y0, x01,y01, x02,y02, x1,y1, x2,y2, a0, b0,sign; ^ src/ps-xy-sub.c:955:13: warning: variable 'x0' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized] else if(n==2) ^~~~ src/ps-xy-sub.c:966:20: note: uninitialized use occurs here xy_bs[n1][1] = x0; ^~ src/ps-xy-sub.c:955:10: note: remove the 'if' if its condition is always true else if(n==2) ^~~~~~~~ src/ps-xy-sub.c:933:15: note: initialize the variable 'x0' to silence this warning double x0,y0,x0i, y0i,xi, yi,xf, yf, c1, sign; ^ = 0.0 src/ps-xy-sub.c:955:13: warning: variable 'y0' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized] else if(n==2) ^~~~ src/ps-xy-sub.c:967:20: note: uninitialized use occurs here xy_bs[n1][2] = y0; ^~ src/ps-xy-sub.c:955:10: note: remove the 'if' if its condition is always true else if(n==2) ^~~~~~~~ src/ps-xy-sub.c:933:18: note: initialize the variable 'y0' to silence this warning double x0,y0,x0i, y0i,xi, yi,xf, yf, c1, sign; ^ = 0.0 6 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/rnaview.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaview.o src/rnaview.c:135:57: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fstat,"\nNumber of the total bases = %d\n", base_all); ~~ ^~~~~~~~ %ld src/rnaview.c:252:65: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("\nNumber of structure used for calculation = %d\n", n); ~~ ^ %ld src/rnaview.c:253:72: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fstat,"\nNumber of structure used for calculation = %d\n", n); ~~ ^ %ld src/rnaview.c:254:57: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fstat,"\nNumber of the total bases = %d\n", base_all); ~~ ^~~~~~~~ %ld src/rnaview.c:448:63: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("The best representative of NMR model = %d\n", model); ~~ ^~~~~ %ld src/rnaview.c:476:77: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout,"REMARK NMR structrue: (the best model = %d ).\n",j); ~~ ^ %ld src/rnaview.c:420:10: warning: unused variable 'i' [-Wunused-variable] long i, j, model; ^ src/rnaview.c:706:40: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ChainID[ seidx[ib][1]], ResSeq[ seidx[ib][1] ], ResSeq[ seidx[ie][1] ]); ^~~~~~~~~~~~~~~~~~~~~~ src/rnaview.c:706:64: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ChainID[ seidx[ib][1]], ResSeq[ seidx[ib][1] ], ResSeq[ seidx[ie][1] ]); ^~~~~~~~~~~~~~~~~~~~~~ src/rnaview.c:587:18: warning: unused variable 'prot_out' [-Wunused-variable] FILE *fout, *prot_out; ^ src/rnaview.c:582:20: warning: variable 'n' set but not used [-Wunused-but-set-variable] long i, j, k,m,n, ie, ib, dna_rna, num, num_residue, nres, bs_atoms; ^ src/rnaview.c:579:27: warning: unused variable 'str' [-Wunused-variable] char outfile[BUF512], str[BUF512]; ^ src/rnaview.c:583:58: warning: unused variable 'nprot_atom' [-Wunused-variable] long *ResSeq, *RY, **seidx, num_modify, *modify_idx, nprot_atom=0; ^ src/rnaview.c:833:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] num_pair_tot,num_residue); ^~~~~~~~~~~~ src/rnaview.c:833:25: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] num_pair_tot,num_residue); ^~~~~~~~~~~ src/rnaview.c:835:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] num_pair_tot,num_residue); ^~~~~~~~~~~~ src/rnaview.c:835:25: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] num_pair_tot,num_residue); ^~~~~~~~~~~ src/rnaview.c:1012:21: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] i, AtomName[j], ResName[j], ChainID[j], ResSeq[j],xyz[j][1], ^ src/rnaview.c:1012:61: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] i, AtomName[j], ResName[j], ChainID[j], ResSeq[j],xyz[j][1], ^~~~~~~~~ src/rnaview.c:1144:76: warning: '&&' within '||' [-Wlogical-op-parentheses] } else if ((strstr(str_pair[i], "W/.")||strstr(str_pair[i], "./W"))&& ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ src/rnaview.c:1144:76: note: place parentheses around the '&&' expression to silence this warning } else if ((strstr(str_pair[i], "W/.")||strstr(str_pair[i], "./W"))&& ^ ( src/rnaview.c:1150:76: warning: '&&' within '||' [-Wlogical-op-parentheses] } else if ((strstr(str_pair[i], "H/.")||strstr(str_pair[i], "./H"))&& ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ src/rnaview.c:1150:76: note: place parentheses around the '&&' expression to silence this warning } else if ((strstr(str_pair[i], "H/.")||strstr(str_pair[i], "./H"))&& ^ ( src/rnaview.c:1156:76: warning: '&&' within '||' [-Wlogical-op-parentheses] } else if ((strstr(str_pair[i], "S/.")||strstr(str_pair[i], "./S"))&& ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ src/rnaview.c:1156:76: note: place parentheses around the '&&' expression to silence this warning } else if ((strstr(str_pair[i], "S/.")||strstr(str_pair[i], "./S"))&& ^ ( src/rnaview.c:1161:76: warning: '&&' within '||' [-Wlogical-op-parentheses] } else if ((strstr(str_pair[i], "./.")||strstr(str_pair[i], "./."))&& ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ src/rnaview.c:1161:76: note: place parentheses around the '&&' expression to silence this warning } else if ((strstr(str_pair[i], "./.")||strstr(str_pair[i], "./."))&& ^ ( 23 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/rnaxml-new.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaxml-new.o src/rnaxml-new.c:24:21: warning: variable 'chain_nam1' set but not used [-Wunused-but-set-variable] char chain_nam, chain_nam1, chain_nam2, outfile[256]; ^ src/rnaxml-new.c:24:33: warning: variable 'chain_nam2' set but not used [-Wunused-but-set-variable] char chain_nam, chain_nam1, chain_nam2, outfile[256]; ^ src/rnaxml-new.c:252:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] tag8, i, POSITION_1_N[nres1]); ^ src/rnaxml-new.c:260:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] tag8, j, POSITION_1_N[nres2]); ^ src/rnaxml-new.c:351:51: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(xml,"%s\n", tag1, molID); ~~ ^~~~~ %ld src/rnaxml-new.c:355:81: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(xml,"%s\n",tag3, molID); ~~ ^~~~~ %ld src/rnaxml-new.c:357:47: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(xml,"%s%d\n",tag5, POSITION_1_N[ start ]); ~~ ^~~~~~~~~~~~~~~~~~~~~ %ld src/rnaxml-new.c:358:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(xml,"%s%d\n",tag5, POSITION_1_N[ end ]); ~~ ^~~~~~~~~~~~~~~~~~~ %ld src/rnaxml-new.c:363:101: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(xml,"%s\n",tag3, res_length); ~~ ^~~~~~~~~~ %ld src/rnaxml-new.c:367:29: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(xml, "%4d ",ResSeq[ seidx[i][1] ]); ~~~ ^~~~~~~~~~~~~~~~~~~~~ %4ld src/rnaxml-new.c:558:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] tag8, chain1, POSITION_1_N[helix_left]); ^~~~~~ src/rnaxml-new.c:565:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] tag8, chain2, POSITION_1_N[helix_right]); ^~~~~~ 12 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/statistics.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/statistics.o src/statistics.c:61:64: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," A %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n", A[0], ~~~ ^~~~ %4ld src/statistics.c:62:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(A[0])/sum, A[1], 100*(A[1])/sum, A[2], 100*(A[2])/sum); ^~~~ src/statistics.c:62:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(A[0])/sum, A[1], 100*(A[1])/sum, A[2], 100*(A[2])/sum); ^~~~ src/statistics.c:63:65: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," G %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n", G[0], ~~~ ^~~~ %4ld src/statistics.c:64:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(G[0])/sum, G[1], 100*(G[1])/sum, G[2], 100*(G[2])/sum); ^~~~ src/statistics.c:64:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(G[0])/sum, G[1], 100*(G[1])/sum, G[2], 100*(G[2])/sum); ^~~~ src/statistics.c:65:64: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," U %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n", U[0], ~~~ ^~~~ %4ld src/statistics.c:66:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(U[0])/sum, U[1], 100*(U[1])/sum, U[2], 100*(U[2])/sum); ^~~~ src/statistics.c:66:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(U[0])/sum, U[1], 100*(U[1])/sum, U[2], 100*(U[2])/sum); ^~~~ src/statistics.c:67:63: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," C %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n",C[0], ~~~ ^~~~ %4ld src/statistics.c:68:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(C[0])/sum, C[1], 100*(C[1])/sum, C[2], 100*(C[2])/sum); ^~~~ src/statistics.c:68:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(C[0])/sum, C[1], 100*(C[1])/sum, C[2], 100*(C[2])/sum); ^~~~ src/statistics.c:69:64: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," T %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n", T[0], ~~~ ^~~~ %4ld src/statistics.c:70:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(T[0])/sum, T[1], 100*(T[1])/sum, T[2], 100*(T[2])/sum); ^~~~ src/statistics.c:70:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(T[0])/sum, T[1], 100*(T[1])/sum, T[2], 100*(T[2])/sum); ^~~~ src/statistics.c:71:64: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," P %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n", P[0], ~~~ ^~~~ %4ld src/statistics.c:72:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(P[0])/sum, P[1], 100*(P[1])/sum, P[2], 100*(P[2])/sum); ^~~~ src/statistics.c:72:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(P[0])/sum, P[1], 100*(P[1])/sum, P[2], 100*(P[2])/sum); ^~~~ src/statistics.c:73:64: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs," T %4d(%5.1f) %4d(%5.1f) %4d(%5.1f)\n", I[0], ~~~ ^~~~ %4ld src/statistics.c:74:28: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(I[0])/sum, I[1], 100*(I[1])/sum, I[2], 100*(I[2])/sum); ^~~~ src/statistics.c:74:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] 100*(I[0])/sum, I[1], 100*(I[1])/sum, I[2], 100*(I[2])/sum); ^~~~ src/statistics.c:77:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[0]+G[0]+I[0], 100*(A[0]+G[0]+I[0])/sum, ^~~~~~~~~~~~~~ src/statistics.c:78:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[1]+G[1]+I[1], 100*(A[1]+G[1]+I[1])/sum, ^~~~~~~~~~~~~~ src/statistics.c:79:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[2]+G[2]+I[2], 100*(A[2]+G[2]+I[2])/sum ); ^~~~~~~~~~~~~~ src/statistics.c:81:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[0]+C[0]+T[0]+P[0], 100*(U[0]+C[0]+T[0]+P[0])/sum, ^~~~~~~~~~~~~~~~~~~ src/statistics.c:82:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[1]+C[1]+T[1]+P[1], 100*(U[1]+C[1]+T[1]+P[1])/sum, ^~~~~~~~~~~~~~~~~~~ src/statistics.c:83:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[2]+C[2]+T[2]+P[2], 100*(U[2]+C[2]+T[2]+P[2])/sum); ^~~~~~~~~~~~~~~~~~~ src/statistics.c:92:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[0], 100*(A[0])/sumA, A[1], 100*(A[1])/sumA, A[2], 100*(A[2])/sumA); ^~~~ src/statistics.c:92:35: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[0], 100*(A[0])/sumA, A[1], 100*(A[1])/sumA, A[2], 100*(A[2])/sumA); ^~~~ src/statistics.c:92:58: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[0], 100*(A[0])/sumA, A[1], 100*(A[1])/sumA, A[2], 100*(A[2])/sumA); ^~~~ src/statistics.c:94:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] G[0], 100*(G[0])/sumG, G[1], 100*(G[1])/sumG, G[2], 100*(G[2])/sumG); ^~~~ src/statistics.c:94:35: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] G[0], 100*(G[0])/sumG, G[1], 100*(G[1])/sumG, G[2], 100*(G[2])/sumG); ^~~~ src/statistics.c:94:58: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] G[0], 100*(G[0])/sumG, G[1], 100*(G[1])/sumG, G[2], 100*(G[2])/sumG); ^~~~ src/statistics.c:97:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[0], 100*(U[0])/sumU, U[1], 100*(U[1])/sumU, U[2], 100*(U[2])/sumU); ^~~~ src/statistics.c:97:35: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[0], 100*(U[0])/sumU, U[1], 100*(U[1])/sumU, U[2], 100*(U[2])/sumU); ^~~~ src/statistics.c:97:58: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[0], 100*(U[0])/sumU, U[1], 100*(U[1])/sumU, U[2], 100*(U[2])/sumU); ^~~~ src/statistics.c:99:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] C[0], 100*(C[0])/sumC, C[1], 100*(C[1])/sumC, C[2], 100*(C[2])/sumC); ^~~~ src/statistics.c:99:35: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] C[0], 100*(C[0])/sumC, C[1], 100*(C[1])/sumC, C[2], 100*(C[2])/sumC); ^~~~ src/statistics.c:99:58: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] C[0], 100*(C[0])/sumC, C[1], 100*(C[1])/sumC, C[2], 100*(C[2])/sumC); ^~~~ src/statistics.c:103:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[0]+G[0], 100*(A[0]+G[0])/(sumA+sumG), ^~~~~~~~~ src/statistics.c:104:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[1]+G[1], 100*(A[1]+G[1])/(sumA+sumG), ^~~~~~~~~ src/statistics.c:105:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] A[2]+G[2], 100*(A[2]+G[2])/(sumA+sumG)); ^~~~~~~~~ src/statistics.c:109:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[0]+C[0], 100*(U[0]+C[0])/(sumU+sumC), ^~~~~~~~~ src/statistics.c:110:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[1]+C[1], 100*(U[1]+C[1])/(sumU+sumC), ^~~~~~~~~ src/statistics.c:111:12: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] U[2]+C[2], 100*(U[2]+C[2])/(sumU+sumC)); ^~~~~~~~~ src/statistics.c:143:67: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"Distributions from total number of pairs (%d):\n",sum); ~~ ^~~ %ld src/statistics.c:146:61: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"The Standard W.C pairs = %5d(%4.1f%%)\n\n", type_stat_tot[1], percent); ~~~ ^~~~~~~~~~~~~~~~ %5ld src/statistics.c:151:36: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%4d(%4.1f%%)", type_stat_tot[j], percent); ~~~ ^~~~~~~~~~~~~~~~ %4ld src/statistics.c:158:36: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%4d(%4.1f%%)", type_stat_tot[j], percent); ~~~ ^~~~~~~~~~~~~~~~ %4ld src/statistics.c:183:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%5d", pair_stat[j][i]); ~~~ ^~~~~~~~~~~~~~~ %5ld src/statistics.c:190:34: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%5d%5.1f\n", sum_16, 100*sum_16/sum2); ~~~ ^~~~~~ %5ld src/statistics.c:198:27: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%5d", sum_32); ~~~ ^~~~~~ %5ld src/statistics.c:228:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%5d", pair_stat[j][i]); ~~~ ^~~~~~~~~~~~~~~ %5ld src/statistics.c:235:34: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%5d%5.1f\n", sum_16, 100*sum_16/sum2); ~~~ ^~~~~~ %5ld src/statistics.c:250:27: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fs,"%5d", sum_32); ~~~ ^~~~~~ %5ld src/statistics.c:438:17: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ade[0],pa[0], ade[1],pa[1],ade[2],pa[2],ade[3],pa[3]); ^~~~~~ src/statistics.c:438:31: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ade[0],pa[0], ade[1],pa[1],ade[2],pa[2],ade[3],pa[3]); ^~~~~~ src/statistics.c:438:44: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ade[0],pa[0], ade[1],pa[1],ade[2],pa[2],ade[3],pa[3]); ^~~~~~ src/statistics.c:438:57: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ade[0],pa[0], ade[1],pa[1],ade[2],pa[2],ade[3],pa[3]); ^~~~~~ src/statistics.c:440:17: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] cyt[0],pc[0],cyt[1],pc[1],cyt[2],pc[2],cyt[3],pc[3]); ^~~~~~ src/statistics.c:440:30: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] cyt[0],pc[0],cyt[1],pc[1],cyt[2],pc[2],cyt[3],pc[3]); ^~~~~~ src/statistics.c:440:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] cyt[0],pc[0],cyt[1],pc[1],cyt[2],pc[2],cyt[3],pc[3]); ^~~~~~ src/statistics.c:440:56: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] cyt[0],pc[0],cyt[1],pc[1],cyt[2],pc[2],cyt[3],pc[3]); ^~~~~~ src/statistics.c:442:17: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] gua[0],pg[0],gua[1],pg[1],gua[2],pg[2],gua[3],pg[3]); ^~~~~~ src/statistics.c:442:30: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] gua[0],pg[0],gua[1],pg[1],gua[2],pg[2],gua[3],pg[3]); ^~~~~~ src/statistics.c:442:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] gua[0],pg[0],gua[1],pg[1],gua[2],pg[2],gua[3],pg[3]); ^~~~~~ src/statistics.c:442:56: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] gua[0],pg[0],gua[1],pg[1],gua[2],pg[2],gua[3],pg[3]); ^~~~~~ src/statistics.c:444:17: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ura[0],pu[0],ura[1],pu[1],ura[2],pu[2],ura[3],pu[3]); ^~~~~~ src/statistics.c:444:30: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ura[0],pu[0],ura[1],pu[1],ura[2],pu[2],ura[3],pu[3]); ^~~~~~ src/statistics.c:444:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ura[0],pu[0],ura[1],pu[1],ura[2],pu[2],ura[3],pu[3]); ^~~~~~ src/statistics.c:444:56: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] ura[0],pu[0],ura[1],pu[1],ura[2],pu[2],ura[3],pu[3]); ^~~~~~ src/statistics.c:801:30: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout, "%9d", type_stat[j]); ~~~ ^~~~~~~~~~~~ %9ld src/statistics.c:805:30: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout, "%9d", type_stat[j]); ~~~ ^~~~~~~~~~~~ %9ld src/statistics.c:809:35: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout, "%9d%9d\n", type_stat[14], type_stat[15]); ~~~ ^~~~~~~~~~~~~ %9ld src/statistics.c:809:50: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] fprintf(fout, "%9d%9d\n", type_stat[14], type_stat[15]); ~~~ ^~~~~~~~~~~~~ %9ld src/statistics.c:984:37: warning: format specifies type 'int *' but the argument has type 'long *' [-Wformat] sscanf(str_tmp, "%d%d", &n1, &n2); ~~ ^~~ %ld src/statistics.c:984:42: warning: format specifies type 'int *' but the argument has type 'long *' [-Wformat] sscanf(str_tmp, "%d%d", &n1, &n2); ~~ ^~~ %ld 77 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/vrml.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/vrml.o src/vrml.c:414:9: warning: misleading indentation; statement is not part of the previous 'else' [-Wmisleading-indentation] fprintf(vrml_outfile, "Label { p %.2f %.2f %.2f c \"%s\" %s}\n", ^ src/vrml.c:411:5: note: previous statement is here else ^ src/vrml.c:596:9: warning: unused variable 'COLOR_BLACK' [-Wunused-variable] int COLOR_BLACK = 0; ^ In file included from src/vrml.c:11: src/vrml.h:11:13: warning: unused function 'vrml_def' [-Wunused-function] static void vrml_def(char *def); ^ src/vrml.h:18:13: warning: unused function 'vrml_invalid_def' [-Wunused-function] static int vrml_invalid_def(char *def); ^ 4 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/xml2ps.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/xml2ps.o src/xml2ps.c:153:57: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("# xy: # of bases: # of O3' %d %d %d\n", nxy, nres, npo3); ~~ ^~~ %ld src/xml2ps.c:153:62: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("# xy: # of bases: # of O3' %d %d %d\n", nxy, nres, npo3); ~~ ^~~~ %ld src/xml2ps.c:153:68: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("# xy: # of bases: # of O3' %d %d %d\n", nxy, nres, npo3); ~~ ^~~~ %ld src/xml2ps.c:185:78: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("Number of base pairs (including tertiary interactions): %d\n", npair); ~~ ^~~~~ %ld src/xml2ps.c:186:55: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("Number of helix (anti-parallel): %d\n", nhelix); ~~ ^~~~~~ %ld src/xml2ps.c:187:47: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] printf("Number of single strand: %d\n", nsing); ~~ ^~~~~ %ld src/xml2ps.c:52:22: warning: unused variable 'key' [-Wunused-variable] long i, j ,k ,n, key=0, nxy, *resid_idx, nchain, **chain_idx,*author_seq; ^ src/xml2ps.c:47:38: warning: unused variable 'parfile' [-Wunused-variable] char inpfile[256], outfile[256], parfile[256]; ^ src/xml2ps.c:312:10: warning: unused variable 'model_id' [-Wunused-variable] long model_id=0; ^ src/xml2ps.c:413:14: warning: variable 'm' is used uninitialized whenever 'for' loop exits because its condition is false [-Wsometimes-uninitialized] for(j=0; j150.f || data[n] != data[n]) data[n] = 150.f; ^ src/unary_ops.C:70:5: note: previous statement is here if (data[n] < 0.000001) ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/voxels.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/voxels.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/ops.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/ops.o src/ops.C:58:10: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] return "regular"; ^ src/ops.C:65:10: warning: ISO C++11 does not allow conversion from string literal to 'char *' [-Wwritable-strings] return "PMF"; ^ 2 warnings generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/vec.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/vec.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/hash.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/hash.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/getplugins.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/getplugins.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/molfile.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/molfile.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/params.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/params.o src/params.C:178:8: warning: variable 'err_too_many_inputs' set but not used [-Wunused-but-set-variable] bool err_too_many_inputs = false; ^ 1 warning generated. c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/main.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/main.o c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/volmap.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/binary_ops.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/convolutions.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/unary_ops.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/voxels.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/ops.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/vec.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/hash.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/getplugins.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/molfile.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/params.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/main.o -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/volutil -L../compile/lib_FREEBSDAMD64/molfile -lmolfile_plugin -L/usr/local/lib -ltcl86 -L/usr/local/lib -lnetcdf -L/usr/local/lib -lexpat -L/usr/local/lib -lsqlite3 -lm gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[3]: Nothing to be done for 'bins'. gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[3]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' mkdir -p ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1 cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/alnscore.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/alnscore.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/amenu.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/amenu.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/calcgapcoeff.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcgapcoeff.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/calcprf1.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcprf1.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/calcprf2.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcprf2.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/calctree.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calctree.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/clustalw.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/clustalw.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/gcgcheck.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/gcgcheck.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/interface.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/interface.o src/interface.c:957:4: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] if(temp == 0) { ^ src/interface.c:955:3: note: previous statement is here if(strlen(param_arg[setoutorder]) > 0) ^ src/interface.c:972:4: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation] if(temp == 0) { ^ src/interface.c:970:3: note: previous statement is here if(strlen(param_arg[setbootlabels]) > 0) ^ src/interface.c:1180:11: warning: variable 'number' set but not used [-Wunused-but-set-variable] sint i, number, nlines; ^ src/interface.c:3455:6: warning: expression result unused [-Wunused-value] *s++; ^~~~ src/interface.c:4413:13: warning: variable 'rl' set but not used [-Wunused-but-set-variable] int rs=0, rl=0; ^ src/interface.c:4413:7: warning: variable 'rs' set but not used [-Wunused-but-set-variable] int rs=0, rl=0; ^ 6 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/malign.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/malign.o src/malign.c:243:17: warning: misleading indentation; statement is not part of the previous 'for' [-Wmisleading-indentation] sum = j; ^ src/malign.c:241:12: note: previous statement is here for (j=0;j 1){ ^~~~ src/gjnoc.c:183:2: note: remove the 'if' if its condition is always true if(is_noc) { ^~~~~~~~~~~ src/gjnoc.c:160:10: note: initialize the variable 'argc' to silence this warning int argc; ^ = 0 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/gjutil.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjutil.o src/gjutil.c:411:14: warning: variable 'nchar' set but not used [-Wunused-but-set-variable] int /*j,*/i,nchar; ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/idist.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/idist.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/igetca.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetca.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/igetcadssp.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetcadssp.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/ltou.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ltou.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/makeafile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/makeafile.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/matfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matfit.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/matinv.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matinv.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/matmult.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matmult.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/murzin_P.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/murzin_P.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/newoutput.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/newoutput.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/openfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/openfile.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pairfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairfit.o src/pairfit.c:69:12: warning: variable 'rmsold' set but not used [-Wunused-but-set-variable] float rmsold; ^ src/pairfit.c:60:10: warning: variable 'started1' set but not used [-Wunused-but-set-variable] int started1,started2; ^ src/pairfit.c:60:19: warning: variable 'started2' set but not used [-Wunused-but-set-variable] int started1,started2; ^ 3 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pairpath.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairpath.o src/pairpath.c:49:16: warning: variable 'match' set but not used [-Wunused-but-set-variable] int i,j,k,q, match; ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/pairwise.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairwise.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/printmat.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/printmat2.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat2.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/probcalc.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probcalc.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/probplot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probplot.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/qkfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/qkfit.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/readtree.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/readtree.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/reval.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/reval.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/revmatmult.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/revmatmult.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/rossmann.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/rossmann.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/roughfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/roughfit.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/scan.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/scan.o src/scan.c:57:8: warning: variable 'first' set but not used [-Wunused-but-set-variable] int first; ^ src/scan.c:75:20: warning: variable 'irms' set but not used [-Wunused-but-set-variable] float score,rms,irms; ^ 2 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/sec_content.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sec_content.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/slow_scan.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/slow_scan.o src/slow_scan.c:140:20: warning: variable 'irms' set but not used [-Wunused-but-set-variable] float score,rms,irms; ^ src/slow_scan.c:118:8: warning: variable 'first' set but not used [-Wunused-but-set-variable] int first; ^ src/slow_scan.c:144:10: warning: variable 'test' set but not used [-Wunused-but-set-variable] float test; ^ 3 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/stamp.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stamp.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/stampgetpars.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stampgetpars.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/sw7ccs.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sw7ccs.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/swstruc.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/swstruc.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/testfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/testfile.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/treefit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treefit.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/treepath.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treepath.o src/treepath.c:85:7: warning: variable 'match' set but not used [-Wunused-but-set-variable] int match, allen,total; ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/treewise.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treewise.o src/treewise.c:71:7: warning: variable 'nclust' set but not used [-Wunused-but-set-variable] int nclust; ^ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/update.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/update.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall -Isrc -c src/utol.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/utol.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wall ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/a3to1.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/aliseq.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ccprobcalc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/closefile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/count_domain.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/display_align.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/dosort.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/get_clust.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getdomain.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getdsspsum.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getfile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getks.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getsec.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjnoc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjutil.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/idist.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetca.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetcadssp.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ltou.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/makeafile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matinv.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matmult.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/murzin_P.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/newoutput.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/openfile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairpath.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairwise.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat2.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probcalc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probplot.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/qkfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/readtree.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/reval.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/revmatmult.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/rossmann.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/roughfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/scan.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sec_content.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/slow_scan.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stamp.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stampgetpars.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sw7ccs.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/swstruc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/testfile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treefit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treepath.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treewise.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/update.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/utol.o -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stamp -lm gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins' Populating distribution directory with compiled plugins mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/include for header in vmdplugin.h molfile_plugin.h vmdconio.h; do cp -p include/$header /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/include || exit 1 ; done for dir in molfile_plugin apbsrun alascanfep atomedit autoimd autoionize autopsf bdtk bendix bfeestimator bignum biocore bossconvert catdcd cgenffcaller cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap cv_dashboard dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu infobutton inorganicbuilder irspecgui json mafft mdff membrane membranemixer mergestructs modelmaker molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool qwikfold qwikmd ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool structurecheck symmetrytool tablelist timeline tktooltip topotools torsionplot trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdlite vmdmovie vmdprefs vmdtkcon vnd zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake distrib && cd .. || exit 1 ; done gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' Copying molfile plugins to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins destination area for file in abinitplugin.so amiraplugin.so avsplugin.so babelplugin.so basissetplugin.so bgfplugin.so binposplugin.so biomoccaplugin.so brixplugin.so carplugin.so ccp4plugin.so corplugin.so cpmdplugin.so crdplugin.so cubeplugin.so dcdplugin.so dlpolyplugin.so dsn6plugin.so dxplugin.so edmplugin.so fs4plugin.so gamessplugin.so graspplugin.so grdplugin.so gridplugin.so gromacsplugin.so jsplugin.so lammpsplugin.so mapplugin.so mdfplugin.so mol2plugin.so moldenplugin.so molemeshplugin.so msmsplugin.so namdbinplugin.so offplugin.so parm7plugin.so parmplugin.so pbeqplugin.so pdbplugin.so pdbxplugin.so phiplugin.so pltplugin.so plyplugin.so pqrplugin.so psfplugin.so raster3dplugin.so rst7plugin.so situsplugin.so spiderplugin.so stlplugin.so tinkerplugin.so uhbdplugin.so vaspchgcarplugin.so vaspoutcarplugin.so vaspparchgplugin.so vaspposcarplugin.so vasp5xdatcarplugin.so vaspxdatcarplugin.so vaspxmlplugin.so vtkplugin.so xbgfplugin.so xsfplugin.so xyzplugin.so dtrplugin.so maeffplugin.so hoomdplugin.so netcdfplugin.so dmsplugin.so vtfplugin.so webpdbplugin.so dmsplugin.so hoomdplugin.so lmplugin.so netcdfplugin.so orcaplugin.so tngplugin.so vtfplugin.so webpdbplugin.so libmolfile_plugin.a libmolfile_plugin.h libmolfile_plugin.lib libmolfile_plugin.h ; do \ echo " $file ..."; \ for localname in `find ../compile -name $file -print`; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp -p $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ done; \ done; abinitplugin.so ... amiraplugin.so ... avsplugin.so ... babelplugin.so ... basissetplugin.so ... bgfplugin.so ... binposplugin.so ... biomoccaplugin.so ... brixplugin.so ... carplugin.so ... ccp4plugin.so ... corplugin.so ... cpmdplugin.so ... crdplugin.so ... cubeplugin.so ... dcdplugin.so ... dlpolyplugin.so ... dsn6plugin.so ... dxplugin.so ... edmplugin.so ... fs4plugin.so ... gamessplugin.so ... graspplugin.so ... grdplugin.so ... gridplugin.so ... gromacsplugin.so ... jsplugin.so ... lammpsplugin.so ... mapplugin.so ... mdfplugin.so ... mol2plugin.so ... moldenplugin.so ... molemeshplugin.so ... msmsplugin.so ... namdbinplugin.so ... offplugin.so ... parm7plugin.so ... parmplugin.so ... pbeqplugin.so ... pdbplugin.so ... pdbxplugin.so ... phiplugin.so ... pltplugin.so ... plyplugin.so ... pqrplugin.so ... psfplugin.so ... raster3dplugin.so ... rst7plugin.so ... situsplugin.so ... spiderplugin.so ... stlplugin.so ... tinkerplugin.so ... uhbdplugin.so ... vaspchgcarplugin.so ... vaspoutcarplugin.so ... vaspparchgplugin.so ... vaspposcarplugin.so ... vasp5xdatcarplugin.so ... vaspxdatcarplugin.so ... vaspxmlplugin.so ... vtkplugin.so ... xbgfplugin.so ... xsfplugin.so ... xyzplugin.so ... dtrplugin.so ... maeffplugin.so ... hoomdplugin.so ... netcdfplugin.so ... dmsplugin.so ... vtfplugin.so ... webpdbplugin.so ... dmsplugin.so ... hoomdplugin.so ... lmplugin.so ... netcdfplugin.so ... orcaplugin.so ... tngplugin.so ... vtfplugin.so ... webpdbplugin.so ... libmolfile_plugin.a ... libmolfile_plugin.h ... libmolfile_plugin.lib ... libmolfile_plugin.h ... gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molfile_plugin' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' Copying apbsrun 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/apbsrun1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/apbsrun1.3 cp apbsrun.tcl pkgIndex.tcl radii.dat /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/apbsrun1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/apbsrun' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' Copying alascanfep 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/alascanfep1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/alascanfep1.0 cp alascan.tcl alascan_analysis.tcl fep.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/alascanfep1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/alascanfep' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' Copying atomedit 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/atomedit1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/atomedit1.0 cp atomedit.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/atomedit1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/atomedit' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' Copying autoimd 1.7 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/autoimd1.7 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/autoimd1.7 cp -f autoimd.tcl autoimd-settings.tcl autoimd-api.tcl autoimd-gui.tcl pkgIndex.tcl autoimd-template.namd doc/ug.pdf namdrun.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/autoimd1.7 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoimd' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' Copying autoionize 1.5 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/autoionize1.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/autoionize1.5 cp autoionize.tcl autoionizegui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/autoionize1.5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autoionize' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' for localname in `find ../compile -name psfcheck.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ cp autopsf.tcl pkgIndex.tcl $dir ; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/autopsf' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' Copying bdtk 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bdtk1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bdtk1.0 cp bdtk.tcl bdtk_gui.tcl bdtk_procs.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bdtk1.0 cp -r database /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bdtk1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bdtk' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' Copying bendix 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bendix1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bendix1.1 cp bendix.tcl pkgIndex.tcl doc/GUI-tips.gif doc/Monsieur_Bendix_smaller_still.gif /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bendix1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bendix' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' Copying bfeestimator 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bfeestimator1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bfeestimator1.0 cp bfee.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bfeestimator1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bfeestimator' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' Copying bignum 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bignum1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bignum1.0 cp bignum.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/bignum1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bignum' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' Copying biocore 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/biocore1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/biocore1.1 cp biocore.tcl biocorechat.tcl biocorelogin.tcl biocorepubsync.tcl pkgIndex.tcl locked.gif unlocked.gif biocoreHelper.tcl biocoreutil.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/biocore1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/biocore' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' echo "Copying bossconvert 1.0 files to" Copying bossconvert 1.0 files to for localname in `find ../compile -name Topology -o -name Topology.exe` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $dir"; \ cp $localname $dir; \ cp bossconvert.tcl pkgIndex.tcl $dir; \ cp imprlist oplsaa.par oplsaa.sb $dir; \ done /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/bossconvert1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/bossconvert' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' for localname in `find ../compile -name catdcd -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/catdcd' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' Copying cgenffcaller 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cgenffcaller1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cgenffcaller1.0 cp pkgIndex.tcl cgenffcaller.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cgenffcaller1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgenffcaller' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' Copying cgtools 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cgtools1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cgtools1.3 cp cggui.tcl cgtools.tcl cgnetworking.tcl pkgIndex.tcl protein.cgc water.cgc rbcg-2007.par rbcg-2007.top /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cgtools1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cgtools' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' Copying chirality 1.4 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/chirality1.4 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/chirality1.4 cp chirality.tcl chirality_gui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/chirality1.4 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/chirality' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' for localname in `find ../compile -name cionize -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ tclplugname=`echo $pluginname | sed s/\\\/bin\\\//\\\/tcl\\\// `; \ tcldir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$tclplugname`; \ mkdir -p $tcldir; \ cp cionize.tcl pkgIndex.tcl $tcldir; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cionize' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' Copying cispeptide 1.4 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cispeptide1.4 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cispeptide1.4 cp cispeptide.tcl cispeptide_gui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cispeptide1.4 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cispeptide' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' Copying cliptool 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cliptool1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cliptool1.0 cp cliptool.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cliptool1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cliptool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' Copying clonerep 1.4 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/clonerep1.4 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/clonerep1.4 cp clonerep.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/clonerep1.4 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clonerep' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' Copying colorscalebar 3.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/colorscalebar3.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/colorscalebar3.0 cp colorscalebar.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/colorscalebar3.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/colorscalebar' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' Copying contactmap 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/contactmap1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/contactmap1.1 cp contactmap.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/contactmap1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/contactmap' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' Copying cv_dashboard 1.5 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cv_dashboard1.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cv_dashboard1.5 cp -r cv_dashboard.tcl cv_dashboard_display.tcl cv_dashboard_editor.tcl cv_dashboard_main.tcl cv_dashboard_plots.tcl cv_dashboard_settings.tcl pkgIndex.tcl templates /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/cv_dashboard1.5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/cv_dashboard' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' Copying dataimport 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dataimport1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dataimport1.0 cp dataimport.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dataimport1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dataimport' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' Copying demomaster 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/demomaster1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/demomaster1.0 cp demomaster.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/demomaster1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/demomaster' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' Copying dipwatch 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dipwatch1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dipwatch1.2 cp dipwatch.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dipwatch1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dipwatch' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' Copying dowser 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dowser1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dowser1.1 cp dowser.tcl dowser_gui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/dowser1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/dowser' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' Copying exectool 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/exectool1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/exectool1.2 cp exectool.tcl jobmanager.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/exectool1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/exectool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' Copying extendedpdb 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/extendedpdb1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/extendedpdb1.0 cp extendedpdb.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/extendedpdb1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/extendedpdb' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' Copying fftk 2.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/fftk2.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/fftk2.1 cp pkgIndex.tcl fftk.tcl fftk_BondAngleOpt.tcl fftk_BuildPar.tcl fftk_ChargeOpt.tcl fftk_ChargeOpt_ESP.tcl fftk_Configuration.tcl fftk_DihOpt.tcl fftk_GenBonded.tcl fftk_GenDihScan.tcl fftk_GenZMatrix.tcl fftk_GeomOpt.tcl fftk_guiInterface.tcl fftk_guiProcs.tcl fftk_SharedFcns.tcl fftk_distort.tcl fftk_QMGaussian.tcl fftk_QMORCA.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/fftk2.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/fftk' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' Copying gofrgui 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/gofrgui1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/gofrgui1.3 cp gofrgui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/gofrgui1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/gofrgui' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' Copying heatmapper 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/heatmapper1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/heatmapper1.2 cp heatmapper.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/heatmapper1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/heatmapper' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' Copying hbonds 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/hbonds1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/hbonds1.3 cp hbonds.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/hbonds1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hbonds' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' for localname in `find ../compile -name hesstrans.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ cp pkgIndex.tcl $dir ; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/hesstrans' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' Copying idatm 0.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/idatm0.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/idatm0.2 cp idatm.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/idatm0.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/idatm' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' Copying ilstools 1.5 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ilstools1.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ilstools1.5 cp -rf ilstools.tcl pkgIndex.tcl oxygen.xyz nitricoxide.xyz carbonmonoxide.xyz carbondioxide.xyz ethene.xyz methane.xyz nitrousoxide.xyz nitrogendioxide.xyz nitrogen.xyz acetylene.xyz hydrogen.xyz /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ilstools1.5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ilstools' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' Copying imdmenu 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/imdmenu1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/imdmenu1.0 cp -f imdmenu.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/imdmenu1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/imdmenu' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' Copying infobutton 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/infobutton1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/infobutton1.0 cp info.gif infobutton.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/infobutton1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/infobutton' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' Copying inorganicbuilder 0.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/inorganicbuilder0.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/inorganicbuilder0.1 cp inorganicbuilder.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/inorganicbuilder0.1 cp -r materials /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/inorganicbuilder0.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/inorganicbuilder' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' Copying irspecgui 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/irspecgui1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/irspecgui1.3 cp irspecgui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/irspecgui1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/irspecgui' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' Copying json 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/json1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/json1.0 cp json.tcl json_write.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/json1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/json' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' echo "Copying mafft 1.1 files to" Copying mafft 1.1 files to for localname in `find ../compile -name mafft.tcl -o -name pkgIndex.tcl` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname $dir; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mafft' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' Copying mdff 0.6 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/mdff0.6 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/mdff0.6 cp mdff.tcl mdff_check.tcl mdff_map.tcl mdff_sim.tcl mdff_correlation.tcl mdff_setup.tcl pkgIndex.tcl mdff_template.namd mdff_tmp.tcl xmdff_phenix.tcl xmdff_template.namd mdff_gui.tcl mdffgui_balloon.tcl remdff_template.namd replica-mdff.namd load-mdff-results.tcl show_replicas_mdff.vmd README_REMDFF.txt resetmaps.sh /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/mdff0.6 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mdff' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' Copying membrane 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/membrane1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/membrane1.2 cp membrane.tcl pkgIndex.tcl popc_box.pdb popc_box.psf popc36_box.pdb popc36_box.psf pope36_box.pdb pope36_box.psf pope_box.pdb pope_box.psf top_all27_prot_lipid.inp /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/membrane1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membrane' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' Copying membranemixer 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/membranemixer1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/membranemixer1.0 cp membranemixer.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/membranemixer1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/membranemixer' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' Copying mergestructs 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/mergestructs1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/mergestructs1.1 cp mergestructs.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/mergestructs1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mergestructs' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' Copying modelmaker 0.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/modelmaker0.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/modelmaker0.1 cp CCColor.tcl clash_selection.tcl find_selection.tcl helix-turn-cc.tcl makepsf.tcl modelmaker.tcl pkgIndex.tcl rosetta_input_generator.tcl rosetta_scoring_wrapper.tcl rosetta_vmd.tcl ss_analysis.tcl utilities.tcl align2d.py clusterK.py model-single.py README.md /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/modelmaker0.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/modelmaker' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' Copying molefacture 2.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/molefacture2.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/molefacture2.0 cp molefacture.tcl molefacture_builder.tcl molefacture_edit.tcl molefacture_geometry.tcl molefacture_gui.tcl molefacture_internals.tcl molefacture_state.tcl molefacture_balloontext.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/molefacture2.0 cp -r lib /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/molefacture2.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/molefacture' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' Copying moltoptools 0.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/moltoptools0.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/moltoptools0.1 cp moltoptools.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/moltoptools0.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/moltoptools' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' Copying multimolanim 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multimolanim1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multimolanim1.0 cp multimolanim.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multimolanim1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multimolanim' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' Copying multiplot 1.7 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiplot1.7 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiplot1.7 cp multiplot.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiplot1.7 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiplot' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' Copying multitext 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multitext1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multitext1.1 cp multitext.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multitext1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multitext' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' for localname in `find ../compile -name libalchemify.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ cp mutator.tcl mutator_gui.tcl pkgIndex.tcl $dir ; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/mutator' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' Copying namdenergy 1.4 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdenergy1.4 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdenergy1.4 cp namdenergy.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdenergy1.4 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdenergy' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' Copying namdgui 1.4 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdgui1.4 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdgui1.4 cp namdgui.tcl namdgui_tclforces.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdgui1.4 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdgui' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' Copying namdplot 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdplot1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdplot1.3 cp namdplot.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdplot1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdplot' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' Copying namdserver 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdserver1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdserver1.1 cp namdserver.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/namdserver1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/namdserver' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' Copying nanotube 1.6 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/nanotube1.6 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/nanotube1.6 cp gui.tcl graphene.tcl nanotube.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/nanotube1.6 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nanotube' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' Copying navfly 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/navfly1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/navfly1.0 cp navfly.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/navfly1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navfly' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' Copying navigate 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/navigate1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/navigate1.0 cp -rf navigate.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/navigate1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/navigate' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' Copying networkview 1.41 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/networkview1.41 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/networkview1.41 cp networkView.tcl networkViewGui.tcl communityNetwork.tcl suboptimalPaths.tcl networkSetup.tcl adjacencyMatrix.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/networkview1.41 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/networkview' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' Copying nmwiz 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/nmwiz1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/nmwiz1.2 cp nmwiz.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/nmwiz1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/nmwiz' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' Copying optimization 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/optimization1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/optimization1.3 cp optimization.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/optimization1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/optimization' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' Copying palettetool 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/palettetool1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/palettetool1.0 cp palettetool.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/palettetool1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/palettetool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' Copying paratool 1.6 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/paratool1.6 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/paratool1.6 cp paratool.tcl paratool_atomedit.tcl paratool_aux.tcl paratool_respcharges.tcl paratool_charmmcharges.tcl paratool_intcoor.tcl paratool_lists.tcl paratool_readwrite.tcl paratool_tmcomplex.tcl pkgIndex.tcl paratool_components.tcl paratool_topology.tcl paratool_parameters.tcl paratool_potscan.tcl paratool_refinement.tcl paratool_energies.tcl paratool_hessian.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/paratool1.6 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/paratool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' Copying parsefep 2.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/parsefep2.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/parsefep2.1 cp parseFEP.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/parsefep2.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/parsefep' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' Copying pbctools 2.8 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/pbctools2.8 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/pbctools2.8 cp pbcbox.tcl pbcgui.tcl pbcjoin.tcl pbcset.tcl pbctools.tcl pbcunwrap.tcl pbcwrap.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/pbctools2.8 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pbctools' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' Copying pdbtool 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/pdbtool1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/pdbtool1.1 cp pdbtool.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/pdbtool1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pdbtool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' Copying plumed 2.8 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/plumed2.8 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/plumed2.8 cp vmdplumed.tcl pkgIndex.tcl templates_list_v1.tcl templates_list_v2.tcl templates_list_vmdcv.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/plumed2.8 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/plumed' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' for localname in `find ../compile -name libpmepot.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ cp src/pkgIndex.tcl $dir ; \ cp src/pmepot.tcl $dir ; \ cp src/pmepot_gui.tcl $dir ; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/pmepot' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' Copying propka 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/propka1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/propka1.1 cp propka.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/propka1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/propka' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' Copying psfgen 2.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins arch-specific dir for localname in `find ../compile -name libpsfgen.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ cp doc/ug.pdf $dir ; \ cp src/pkgIndex.tcl $dir ; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psfgen' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' Copying qmtool 2.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qmtool2.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qmtool2.0 cp qmtool.tcl qmtool_analysis.tcl qmtool_atomedit.tcl qmtool_aux.tcl qmtool_charges.tcl qmtool_intcoor.tcl qmtool_readwrite.tcl qmtool_setup.tcl qmtool_gui.tcl qmtool_gaussian.tcl qmtool_orca.tcl qmtool_gamess.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qmtool2.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qmtool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' Copying qwikfold 0.7 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qwikfold0.7 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qwikfold0.7 cp -r pkgIndex.tcl qwikfold.tcl qwikfold_functions.tcl qwikfold_menubar.tcl qwikfold_notebook.tcl qwikfold_sanity_checks.tcl qwikfold_settings.tcl examples patches python /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qwikfold0.7 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikfold' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' Copying qwikmd 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qwikmd1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qwikmd1.3 cp pkgIndex.tcl qwikmd_ballon.tcl qwikmd_func.tcl qwikmd_info.tcl qwikmd.tcl qwikmd_logText.tcl arrow_right.gif arrow_down.gif Annealing.conf Equilibration.conf MD.conf Minimization.conf SMD.conf QMMM-Min.conf QMMM-Ann.conf QMMM-Equi.conf QMMM.conf /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/qwikmd1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/qwikmd' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' Copying ramaplot 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ramaplot1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ramaplot1.1 cp ramaplot.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ramaplot1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ramaplot' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' Copying readcharmmpar 1.5 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/readcharmmpar1.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/readcharmmpar1.5 cp readcharmmpar.tcl par_all27_prot_lipid_na.inp pkgIndex.tcl par_amber2charmm.inp par_all36_lipid.prm toppar_all36_carb_glycopeptide.str toppar_water_ions_namd.str par_all22_prot.prm par_all36_carb.prm par_all36_cgenff.prm par_all36_na.prm par_all36_prot.prm /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/readcharmmpar1.5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmpar' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' Copying readcharmmtop 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/readcharmmtop1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/readcharmmtop1.2 cp readcharmmtop.tcl pkgIndex.tcl top_all27_prot_lipid_na.inp top_all27_hybrid.inp top_amber2charmm.inp top_all36_lipid.rtf toppar_all36_carb_glycopeptide.str toppar_water_ions_namd.str top_all22_prot.rtf top_all36_carb.rtf top_all36_cgenff.rtf top_all36_na.rtf top_all36_prot.rtf top_all36_hybrid.inp /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/readcharmmtop1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/readcharmmtop' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' Copying remote 0.6 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/remote0.6 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/remote0.6 cp remote.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/remote0.6 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/remote' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' Copying resptool 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/resptool1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/resptool1.2 cp resptool.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/resptool1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/resptool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' echo "Copying rnaview 1.1 files to" Copying rnaview 1.1 files to for localname in `find ../compile -name rnaview -o -name rnaview.exe` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $dir"; \ cp $localname $dir; \ cp rnaview.tcl pkgIndex.tcl $dir; \ cp -r BASEPARS $dir; \ done /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/rnaview1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rnaview' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsd' Copying rmsd 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsd1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsd1.0 cp rmsd.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsd1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsd' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdtt' Copying rmsdtt 3.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsdtt3.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsdtt3.0 cp rmsdtt.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsdtt3.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdtt' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdvt' Copying rmsdvt 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsdvt1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsdvt1.0 cp modal.tcl rmsdvt-gui.tcl rmsdvt.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/rmsdvt1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/rmsdvt' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ruler' Copying ruler 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ruler1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ruler1.0 cp ruler.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ruler1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ruler' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runante' Copying runante 0.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/runante0.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/runante0.2 cp runante.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/runante0.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runante' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runsqm' Copying runsqm 0.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/runsqm0.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/runsqm0.2 cp runsqm.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/runsqm0.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/runsqm' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/saltbr' Copying saltbr 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/saltbr1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/saltbr1.1 cp saltbr.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/saltbr1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/saltbr' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/signalproc' for localname in `find ../compile -name specden.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ cp pkgIndex.tcl data_io_lib.tcl fftpack.tcl signalproc.tcl $dir ; \ done for localname in `find ../compile -name fftcmds.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ done for localname in `find ../compile -name sgsmooth.so -print` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ cp $localname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname; \ done gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/signalproc' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/solvate' Copying solvate 1.7 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/solvate1.7 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/solvate1.7 cp wat.top wat.pdb wat.psf solvate.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/solvate1.7 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/solvate' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ssrestraints' Copying ssrestraints 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ssrestraints1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ssrestraints1.1 cp ssrestraints.tcl ssrestraints_stride.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/ssrestraints1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/ssrestraints' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stingtool' Copying stingtool 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/stingtool1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/stingtool1.0 cp stingtool.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/stingtool1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stingtool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/structurecheck' Copying structurecheck 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/structurecheck1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/structurecheck1.2 cp pkgIndex.tcl structurecheck.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/structurecheck1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/structurecheck' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/symmetrytool' Copying symmetrytool 1.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/symmetrytool1.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/symmetrytool1.3 cp symmetry.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/symmetrytool1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/symmetrytool' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tablelist' Copying tablelist 6.11 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tablelist6.11 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tablelist6.11/scripts mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tablelist6.11/scripts/utils cp CHANGES.txt COPYRIGHT.txt README.txt pkgIndex.tcl tablelistPublic.tcl tablelist.tcl tablelist_tile.tcl tablelistCommon.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tablelist6.11 cp scripts/mwutil.tcl scripts/pencil.cur scripts/repair.tcl scripts/tablelistBind.tcl scripts/tablelistConfig.tcl scripts/tablelistEdit.tcl scripts/tablelistImages.tcl scripts/tablelistMove.tcl scripts/tablelistSort.tcl scripts/tablelistThemes.tcl scripts/tablelistUtil.tcl scripts/tablelistWidget.tcl scripts/tclIndex /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tablelist6.11/scripts cp scripts/utils/mwutil.tcl scripts/utils/pkgIndex.tcl scripts/utils/scaleutilMisc.tcl scripts/utils/scaleutil.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tablelist6.11/scripts/utils gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tablelist' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/timeline' Copying timeline 2.3 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/timeline2.3 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/timeline2.3 cp timeline.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/timeline2.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/timeline' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tktooltip' Copying tktooltip 1.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tktooltip1.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tktooltip1.0 cp tktooltip.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/tktooltip1.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/tktooltip' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/topotools' Copying topotools 1.8 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/topotools1.8 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/topotools1.8 cp pkgIndex.tcl topotools.tcl topoatoms.tcl topobonds.tcl topoangles.tcl topodihedrals.tcl topoimpropers.tcl topocrossterms.tcl topolammps.tcl topoutils.tcl topohelpers.tcl topogromacs.tcl topovarxyz.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/topotools1.8 cp README.md /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/topotools1.8/README gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/topotools' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/torsionplot' Copying torsionplot 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/torsionplot1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/torsionplot1.2 cp pkgIndex.tcl torsionplot.tcl AMAN_12_AMAN.dx AMAN_14_BGLN.dx BGLN_14_BMAN.dx BGLN_or_AMAN_14_BGLN.dx MAN_13_AMAN.dx NGLB_no_FUC.dx rama-general.dx rama-ileval.dx rama-transpro.dx AMAN_12_BGLN.dx AMAN_16_AMAN.dx BGLN_16_AFUC.dx BMAN_16_AMAN.dx NGLB_FUC.dx rama-cispro.dx rama-gly.dx rama-prepro-noGP.dx /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/torsionplot1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/torsionplot' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/trunctraj' Copying trunctraj 1.5 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5 cp trunctraj.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5/toppar mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5/toppar/non_charmm mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5/toppar/stream cp toppar/*.inp toppar/*.prm toppar/*.rtf /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5/toppar cp toppar/non_charmm/*.inp /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5/toppar/non_charmm/ cp toppar/stream/*.str /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/trunctraj1.5/toppar/stream/ gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/trunctraj' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/utilities' Copying utilities 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/utilities1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/utilities1.2 cp utilities.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/utilities1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/utilities' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vdna' Copying vdna 2.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vdna2.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vdna2.2 cp vdna.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vdna2.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vdna' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewchangerender' Copying viewchangerender 1.8 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/viewchangerender1.8 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/viewchangerender1.8 cp vcr.tcl vcr_gui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/viewchangerender1.8 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewchangerender' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewmaster' Copying viewmaster 2.6 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/viewmaster2.6 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/viewmaster2.6 cp viewmaster.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/viewmaster2.6 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/viewmaster' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volmapgui' Copying volmapgui 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/volmapgui1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/volmapgui1.1 cp -rf volmapgui.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/volmapgui1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volmapgui' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' echo "Copying volutil 1.3 files to" Copying volutil 1.3 files to for localname in `find ../compile -name volutil -o -name volutil.exe` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $dir"; \ cp $localname $dir; \ cp volutil.tcl pkgIndex.tcl $dir; \ done /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/volutil1.3 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/volutil' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' Copying vmddebug 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmddebug1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmddebug1.1 cp vmddebug.tcl debugatomsel.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmddebug1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmddebug' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' Copying vmdlite 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdlite1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdlite1.1 cp pkgIndex.tcl centerMolecule.tcl vmdlite_analysis.tcl vmdlite_graphics.tcl vmdlite_guiProcs.tcl vmdlite_main.tcl vmdlite_sandbox.tcl vmdlite_system.tcl vmdlite.tcl vmd.rc /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdlite1.1 cp -r sandboxMolecules /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdlite1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdlite' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' Copying vmdmovie 1.9 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdmovie1.9 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdmovie1.9 cp vmdmovie.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdmovie1.9 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdmovie' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' Copying vmdprefs 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdprefs1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdprefs1.1 cp vmdprefs.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdprefs1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdprefs' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' Copying vmdtkcon 2.0 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdtkcon2.0 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdtkcon2.0 cp -rf vmdtkcon.tcl tkcon-modified.tcl pkgIndex.tcl README /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vmdtkcon2.0 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vmdtkcon' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' Copying vnd 0.5 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vnd0.5 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vnd0.5 cp -r pkgIndex.tcl vnd_gui.tcl vnd_read.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/vnd0.5 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/vnd' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' Copying zoomseq 1.2 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/zoomseq1.2 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/zoomseq1.2 cp zoomseq.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/zoomseq1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/zoomseq' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' echo "Copying blast 1.11 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/blast1.11" Copying blast 1.11 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/blast1.11 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/blast1.11 cp blast.tcl blast_resultviewer.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/blast1.11 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/blast' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' echo "Copying clustalw 1.1 files to" Copying clustalw 1.1 files to for localname in `find ../compile -name clustalw -o -name clustalw.exe` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $dir"; \ cp $localname $dir; \ cp clustalw.tcl clustalw_help pkgIndex.tcl $dir; \ done /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/clustalw1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/clustalw' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/libbiokit' echo "Copying libbiokit 1.1 files." Copying libbiokit 1.1 files. for localname in `find ../compile -name tcl_libbiokit.so -o -name percid -o -name percid.exe -o -name q -o -name q.exe -o -name qpair -o -name qpair.exe -o -name rmsd -o -name rmsd.exe -o -name seqqr -o -name seqqr.exe -o -name structqr -o -name structqr.exe` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $localname -> $dir"; \ cp $localname $dir; \ cp libbiokit.tcl libbiokit_entropy.tcl libbiokit_profcombine.tcl metric.tcl pkgIndex.tcl $dir; \ done ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/q -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structqr -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsd -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qpair -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/seqqr -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/percid -> /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/libbiokit1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/libbiokit' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseq' echo "Copying multiseq 3.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseq3.1" Copying multiseq 3.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseq3.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseq3.1 cp colormap_vmd.tcl export_options.tcl get_input.tcl import_options.tcl multiseq.tcl phylotree_options.tcl pkgIndex.tcl plot.tcl select_contactshell.tcl select_nrset.tcl select_residues.tcl stamp_options.tcl find.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseq3.1 cp versions* /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseq3.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseq' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseqdialog' echo "Copying multiseqdialog 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseqdialog1.1" Copying multiseqdialog 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseqdialog1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseqdialog1.1 cp download_updates.tcl multiseqdialog.tcl pkgIndex.tcl scrolledframe.tcl wait_dialog.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/multiseqdialog1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/multiseqdialog' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/phylotree' echo "Copying phylotree 1.2 files to" Copying phylotree 1.2 files to for localname in `find ../compile -name upgmaclu -o -name upgmaclu.exe` ;do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $dir"; \ cp $localname $dir; \ cp phylotree.tcl phylotree_analysis.tcl phylotree_data.tcl phylotree_export.tcl phylotree_je.tcl phylotree_matrixviewer.tcl phylotree_newick.tcl phylotree_nexus.tcl phylotree_nodeprops.tcl phylotree_widget.tcl pkgIndex.tcl cluster.tcl $dir; \ done /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/phylotree1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/phylotree' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psipred' echo "Copying psipred 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/psipred1.1" Copying psipred 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/psipred1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/psipred1.1 cp psipred.tcl pkgIndex.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/psipred1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/psipred' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqdata' echo "Copying seqdata 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqdata1.1" Copying seqdata 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqdata1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqdata1.1 cp pkgIndex.tcl seqdata.tcl seqdata_aln.tcl seqdata_astral.tcl seqdata_enzyme.tcl seqdata_fasta.tcl seqdata_genbank.tcl seqdata_nex.tcl seqdata_notes.tcl seqdata_pdb.tcl seqdata_pir.tcl seqdata_phy.tcl seqdata_scop.tcl seqdata_swissprot.tcl seqdata_taxonomy.tcl seqdata_temperature.tcl seqdata_vmd.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqdata1.1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqdata' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqedit' echo "Copying seqedit 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqedit1.1" Copying seqedit 1.1 files to /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqedit1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqedit1.1 cp clustalw_preferences.tcl colormap_default.tcl consensus_builder.tcl customize_groups.tcl get_groupname.tcl metric_conservation.tcl metric_element.tcl metric_entropy.tcl metric_import.tcl metric_insertions.tcl metric_mutualinfo.tcl metric_percentid.tcl metric_selection.tcl metric_signatures.tcl metric_similarity.tcl metric_type.tcl pkgIndex.tcl removegaps_options.tcl seqedit.tcl seqedit_preview.tcl seqedit_widget.tcl seqedit_widget_edit.tcl seqedit_widget_select.tcl seqedit_widget_statusbar.tcl taxonomy_options.tcl /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqedit1.1 mkdir -p /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqedit1.1/blosum cd blosum; cp blosum* /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/noarch/tcl/seqedit1.1/blosum gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/seqedit' gmake[2]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' echo "Copying stamp 1.2 files to" Copying stamp 1.2 files to for localname in `find ../compile -name stamp -o -name stamp.exe` ; do \ pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \ dir=`dirname /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/$pluginname`; \ mkdir -p $dir; \ echo " $dir"; \ cp $localname $dir; \ cp stamp.tcl pkgIndex.tcl dssp.directories pdb.directories stamp.defaults $dir; \ done /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/plugins/FREEBSDAMD64/tcl/stamp1.2 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins/stamp' gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/plugins' cd /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57 && /usr/bin/env PYTHON_INCLUDE_DIR=/usr/local/include/python3.9 PYTHON_LIBRARY_DIR=/usr/local/lib/python3.9 NUMPY_INCLUDE_DIR=/usr/local/lib/python3.9/site-packages/numpy/core/include NUMPY_LIBRARY_DIR=/usr/local/lib/python3.9/site-packages TCL_INCLUDE_DIR=/usr/local/include/tcl8.6 TCL_LIBRARY_DIR=/usr/local/lib TK_INCLUDE_DIR=/usr/local/include/tk8.6 TK_LIBRARY_DIR=/usr/local/lib MAKE=gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCACHE_DIR="/root/.ccache" ./configure FREEBSDAMD64 OPENGL FLTK TK IMD TCL PTHREADS LIBTACHYON NETCDF NUMPY PYTHON /usr/bin/env EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" gmake all -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/src gmake[1]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/src' echo "Compiling " OpenGLDisplayDevice.C " --> " OpenGLDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLDisplayDevice.C -o ../FREEBSDAMD64/OpenGLDisplayDevice.o Compiling OpenGLDisplayDevice.C --> OpenGLDisplayDevice.o ... echo "Compiling " OpenGLExtensions.C " --> " OpenGLExtensions.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLExtensions.C -o ../FREEBSDAMD64/OpenGLExtensions.o Compiling OpenGLExtensions.C --> OpenGLExtensions.o ... echo "Compiling " OpenGLRenderer.C " --> " OpenGLRenderer.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLRenderer.C -o ../FREEBSDAMD64/OpenGLRenderer.o Compiling OpenGLRenderer.C --> OpenGLRenderer.o ... echo "Compiling " OpenGLShader.C " --> " OpenGLShader.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLShader.C -o ../FREEBSDAMD64/OpenGLShader.o Compiling OpenGLShader.C --> OpenGLShader.o ... echo "Compiling " OpenGLCache.C " --> " OpenGLCache.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLCache.C -o ../FREEBSDAMD64/OpenGLCache.o Compiling OpenGLCache.C --> OpenGLCache.o ... echo "Compiling " IMDMgr.C " --> " IMDMgr.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c IMDMgr.C -o ../FREEBSDAMD64/IMDMgr.o Compiling IMDMgr.C --> IMDMgr.o ... echo "Compiling " IMDSim.C " --> " IMDSim.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c IMDSim.C -o ../FREEBSDAMD64/IMDSim.o Compiling IMDSim.C --> IMDSim.o ... echo "Compiling " IMDSimThread.C " --> " IMDSimThread.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c IMDSimThread.C -o ../FREEBSDAMD64/IMDSimThread.o Compiling IMDSimThread.C --> IMDSimThread.o ... echo "Compiling " CmdIMD.C " --> " CmdIMD.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdIMD.C -o ../FREEBSDAMD64/CmdIMD.o Compiling CmdIMD.C --> CmdIMD.o ... echo "Compiling " imd.C " --> " imd.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c imd.C -o ../FREEBSDAMD64/imd.o Compiling imd.C --> imd.o ... echo "Compiling " LibTachyonDisplayDevice.C " --> " LibTachyonDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c LibTachyonDisplayDevice.C -o ../FREEBSDAMD64/LibTachyonDisplayDevice.o Compiling LibTachyonDisplayDevice.C --> LibTachyonDisplayDevice.o ... echo "Compiling " PythonTextInterp.C " --> " PythonTextInterp.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PythonTextInterp.C -o ../FREEBSDAMD64/PythonTextInterp.o Compiling PythonTextInterp.C --> PythonTextInterp.o ... PythonTextInterp.C:105:24: warning: 'PyEval_CallObjectWithKeywords' is deprecated [-Wdeprecated-declarations] PyObject *result = PyEval_CallObject(obj, arglist); ^ /usr/local/include/python3.9/ceval.h:24:5: note: expanded from macro 'PyEval_CallObject' PyEval_CallObjectWithKeywords(callable, arg, (PyObject *)NULL) ^ /usr/local/include/python3.9/ceval.h:17:1: note: 'PyEval_CallObjectWithKeywords' has been explicitly marked deprecated here Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( ^ /usr/local/include/python3.9/pyport.h:508:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ 1 warning generated. echo "Compiling " VMDTkinterMenu.C " --> " VMDTkinterMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDTkinterMenu.C -o ../FREEBSDAMD64/VMDTkinterMenu.o Compiling VMDTkinterMenu.C --> VMDTkinterMenu.o ... echo "Compiling " py_animate.C " --> " py_animate.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_animate.C -o ../FREEBSDAMD64/py_animate.o Compiling py_animate.C --> py_animate.o ... echo "Compiling " py_atomsel.C " --> " py_atomsel.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_atomsel.C -o ../FREEBSDAMD64/py_atomsel.o Compiling py_atomsel.C --> py_atomsel.o ... echo "Compiling " py_selection.C " --> " py_selection.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_selection.C -o ../FREEBSDAMD64/py_selection.o Compiling py_selection.C --> py_selection.o ... echo "Compiling " py_axes.C " --> " py_axes.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_axes.C -o ../FREEBSDAMD64/py_axes.o Compiling py_axes.C --> py_axes.o ... echo "Compiling " py_color.C " --> " py_color.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_color.C -o ../FREEBSDAMD64/py_color.o Compiling py_color.C --> py_color.o ... echo "Compiling " py_commands.C " --> " py_commands.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_commands.C -o ../FREEBSDAMD64/py_commands.o Compiling py_commands.C --> py_commands.o ... echo "Compiling " py_display.C " --> " py_display.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_display.C -o ../FREEBSDAMD64/py_display.o Compiling py_display.C --> py_display.o ... echo "Compiling " py_graphics.C " --> " py_graphics.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_graphics.C -o ../FREEBSDAMD64/py_graphics.o Compiling py_graphics.C --> py_graphics.o ... echo "Compiling " py_imd.C " --> " py_imd.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_imd.C -o ../FREEBSDAMD64/py_imd.o Compiling py_imd.C --> py_imd.o ... echo "Compiling " py_label.C " --> " py_label.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_label.C -o ../FREEBSDAMD64/py_label.o Compiling py_label.C --> py_label.o ... echo "Compiling " py_material.C " --> " py_material.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_material.C -o ../FREEBSDAMD64/py_material.o Compiling py_material.C --> py_material.o ... echo "Compiling " py_measure.C " --> " py_measure.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_measure.C -o ../FREEBSDAMD64/py_measure.o Compiling py_measure.C --> py_measure.o ... echo "Compiling " py_menu.C " --> " py_menu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_menu.C -o ../FREEBSDAMD64/py_menu.o Compiling py_menu.C --> py_menu.o ... echo "Compiling " py_molecule.C " --> " py_molecule.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_molecule.C -o ../FREEBSDAMD64/py_molecule.o Compiling py_molecule.C --> py_molecule.o ... echo "Compiling " py_molrep.C " --> " py_molrep.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_molrep.C -o ../FREEBSDAMD64/py_molrep.o Compiling py_molrep.C --> py_molrep.o ... echo "Compiling " py_mouse.C " --> " py_mouse.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_mouse.C -o ../FREEBSDAMD64/py_mouse.o Compiling py_mouse.C --> py_mouse.o ... echo "Compiling " py_render.C " --> " py_render.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_render.C -o ../FREEBSDAMD64/py_render.o Compiling py_render.C --> py_render.o ... echo "Compiling " py_topo.C " --> " py_topo.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_topo.C -o ../FREEBSDAMD64/py_topo.o Compiling py_topo.C --> py_topo.o ... echo "Compiling " py_trans.C " --> " py_trans.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_trans.C -o ../FREEBSDAMD64/py_trans.o Compiling py_trans.C --> py_trans.o ... echo "Compiling " py_vmd.C " --> " py_vmd.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_vmd.C -o ../FREEBSDAMD64/py_vmd.o Compiling py_vmd.C --> py_vmd.o ... echo "Compiling " py_numeric.C " --> " py_numeric.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c py_numeric.C -o ../FREEBSDAMD64/py_numeric.o Compiling py_numeric.C --> py_numeric.o ... echo "Compiling " androidvmdstart.C " --> " androidvmdstart.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c androidvmdstart.C -o ../FREEBSDAMD64/androidvmdstart.o Compiling androidvmdstart.C --> androidvmdstart.o ... echo "Compiling " Animation.C " --> " Animation.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Animation.C -o ../FREEBSDAMD64/Animation.o Compiling Animation.C --> Animation.o ... echo "Compiling " ArtDisplayDevice.C " --> " ArtDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ArtDisplayDevice.C -o ../FREEBSDAMD64/ArtDisplayDevice.o Compiling ArtDisplayDevice.C --> ArtDisplayDevice.o ... echo "Compiling " AtomColor.C " --> " AtomColor.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomColor.C -o ../FREEBSDAMD64/AtomColor.o Compiling AtomColor.C --> AtomColor.o ... echo "Compiling " AtomParser.C " --> " AtomParser.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomParser.C -o ../FREEBSDAMD64/AtomParser.o Compiling AtomParser.C --> AtomParser.o ... /usr/ccs/bin/yaccpar:116:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register YYSTYPE *yypvt = 0; /* top of value stack for $vars */ ^~~~~~~~~ /usr/ccs/bin/yaccpar:154:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register YYSTYPE *yy_pv; /* top of value stack */ ^~~~~~~~~ /usr/ccs/bin/yaccpar:155:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int *yy_ps; /* top of state stack */ ^~~~~~~~~ /usr/ccs/bin/yaccpar:156:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int yy_state; /* current state */ ^~~~~~~~~ /usr/ccs/bin/yaccpar:157:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int yy_n; /* internal state number info */ ^~~~~~~~~ /usr/ccs/bin/yaccpar:348:5: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register YYCONST int *yyxi = yyexca; ^~~~~~~~~ /usr/ccs/bin/yaccpar:494:4: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int yy_len = yyr2[ yy_n ]; ^~~~~~~~~ 7 warnings generated. echo "Compiling " AtomLexer.C " --> " AtomLexer.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomLexer.C -o ../FREEBSDAMD64/AtomLexer.o Compiling AtomLexer.C --> AtomLexer.o ... lex.yy.c:754:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register yy_state_type yy_current_state; ^~~~~~~~~ lex.yy.c:755:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char *yy_cp, *yy_bp; ^~~~~~~~~ lex.yy.c:755:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char *yy_cp, *yy_bp; ^~~~~~~~~ lex.yy.c:756:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int yy_act; ^~~~~~~~~ lex.yy.c:802:4: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register YY_CHAR yy_c = yy_ec[YY_SC_TO_UI(*yy_cp)]; ^~~~~~~~~ lex.yy.c:1316:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char *dest = yy_current_buffer->yy_ch_buf; ^~~~~~~~~ lex.yy.c:1317:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char *source = yytext_ptr; ^~~~~~~~~ lex.yy.c:1318:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int number_to_move, i; ^~~~~~~~~ lex.yy.c:1318:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int number_to_move, i; ^~~~~~~~~ lex.yy.c:1448:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register yy_state_type yy_current_state; ^~~~~~~~~ lex.yy.c:1449:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char *yy_cp; ^~~~~~~~~ lex.yy.c:1455:3: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register YY_CHAR yy_c = (*yy_cp ? yy_ec[YY_SC_TO_UI(*yy_cp)] : 1); ^~~~~~~~~ lex.yy.c:1487:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register int yy_is_jam; ^~~~~~~~~ lex.yy.c:1488:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register char *yy_cp = yy_c_buf_p; ^~~~~~~~~ lex.yy.c:1490:2: warning: 'register' storage class specifier is deprecated and incompatible with C++17 [-Wdeprecated-register] register YY_CHAR yy_c = 1; ^~~~~~~~~ 15 warnings generated. echo "Compiling " AtomRep.C " --> " AtomRep.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomRep.C -o ../FREEBSDAMD64/AtomRep.o Compiling AtomRep.C --> AtomRep.o ... echo "Compiling " AtomSel.C " --> " AtomSel.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomSel.C -o ../FREEBSDAMD64/AtomSel.o Compiling AtomSel.C --> AtomSel.o ... echo "Compiling " Axes.C " --> " Axes.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Axes.C -o ../FREEBSDAMD64/Axes.o Compiling Axes.C --> Axes.o ... echo "Compiling " BaseMolecule.C " --> " BaseMolecule.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c BaseMolecule.C -o ../FREEBSDAMD64/BaseMolecule.o Compiling BaseMolecule.C --> BaseMolecule.o ... echo "Compiling " Benchmark.C " --> " Benchmark.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Benchmark.C -o ../FREEBSDAMD64/Benchmark.o Compiling Benchmark.C --> Benchmark.o ... echo "Compiling " BondSearch.C " --> " BondSearch.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c BondSearch.C -o ../FREEBSDAMD64/BondSearch.o Compiling BondSearch.C --> BondSearch.o ... echo "Compiling " CmdAnimate.C " --> " CmdAnimate.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdAnimate.C -o ../FREEBSDAMD64/CmdAnimate.o Compiling CmdAnimate.C --> CmdAnimate.o ... echo "Compiling " CmdColor.C " --> " CmdColor.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdColor.C -o ../FREEBSDAMD64/CmdColor.o Compiling CmdColor.C --> CmdColor.o ... echo "Compiling " CmdDisplay.C " --> " CmdDisplay.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdDisplay.C -o ../FREEBSDAMD64/CmdDisplay.o Compiling CmdDisplay.C --> CmdDisplay.o ... echo "Compiling " CmdLabel.C " --> " CmdLabel.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdLabel.C -o ../FREEBSDAMD64/CmdLabel.o Compiling CmdLabel.C --> CmdLabel.o ... echo "Compiling " CmdMaterial.C " --> " CmdMaterial.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdMaterial.C -o ../FREEBSDAMD64/CmdMaterial.o Compiling CmdMaterial.C --> CmdMaterial.o ... echo "Compiling " CmdMenu.C " --> " CmdMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdMenu.C -o ../FREEBSDAMD64/CmdMenu.o Compiling CmdMenu.C --> CmdMenu.o ... echo "Compiling " CmdMol.C " --> " CmdMol.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdMol.C -o ../FREEBSDAMD64/CmdMol.o Compiling CmdMol.C --> CmdMol.o ... echo "Compiling " CmdRender.C " --> " CmdRender.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdRender.C -o ../FREEBSDAMD64/CmdRender.o Compiling CmdRender.C --> CmdRender.o ... echo "Compiling " CmdTrans.C " --> " CmdTrans.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdTrans.C -o ../FREEBSDAMD64/CmdTrans.o Compiling CmdTrans.C --> CmdTrans.o ... echo "Compiling " CommandQueue.C " --> " CommandQueue.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CommandQueue.C -o ../FREEBSDAMD64/CommandQueue.o Compiling CommandQueue.C --> CommandQueue.o ... echo "Compiling " CoorPluginData.C " --> " CoorPluginData.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CoorPluginData.C -o ../FREEBSDAMD64/CoorPluginData.o Compiling CoorPluginData.C --> CoorPluginData.o ... echo "Compiling " CUDAAccel.C " --> " CUDAAccel.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CUDAAccel.C -o ../FREEBSDAMD64/CUDAAccel.o Compiling CUDAAccel.C --> CUDAAccel.o ... echo "Compiling " DisplayDevice.C " --> " DisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DisplayDevice.C -o ../FREEBSDAMD64/DisplayDevice.o Compiling DisplayDevice.C --> DisplayDevice.o ... echo "Compiling " Displayable.C " --> " Displayable.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Displayable.C -o ../FREEBSDAMD64/Displayable.o Compiling Displayable.C --> Displayable.o ... echo "Compiling " DisplayRocker.C " --> " DisplayRocker.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DisplayRocker.C -o ../FREEBSDAMD64/DisplayRocker.o Compiling DisplayRocker.C --> DisplayRocker.o ... echo "Compiling " DispCmds.C " --> " DispCmds.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DispCmds.C -o ../FREEBSDAMD64/DispCmds.o Compiling DispCmds.C --> DispCmds.o ... echo "Compiling " DrawMolecule.C " --> " DrawMolecule.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolecule.C -o ../FREEBSDAMD64/DrawMolecule.o Compiling DrawMolecule.C --> DrawMolecule.o ... echo "Compiling " DrawMolItem.C " --> " DrawMolItem.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItem.C -o ../FREEBSDAMD64/DrawMolItem.o Compiling DrawMolItem.C --> DrawMolItem.o ... echo "Compiling " DrawMolItem2.C " --> " DrawMolItem2.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItem2.C -o ../FREEBSDAMD64/DrawMolItem2.o Compiling DrawMolItem2.C --> DrawMolItem2.o ... echo "Compiling " DrawMolItemRibbons.C " --> " DrawMolItemRibbons.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemRibbons.C -o ../FREEBSDAMD64/DrawMolItemRibbons.o Compiling DrawMolItemRibbons.C --> DrawMolItemRibbons.o ... echo "Compiling " DrawMolItemMSMS.C " --> " DrawMolItemMSMS.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemMSMS.C -o ../FREEBSDAMD64/DrawMolItemMSMS.o Compiling DrawMolItemMSMS.C --> DrawMolItemMSMS.o ... echo "Compiling " DrawMolItemNanoShaper.C " --> " DrawMolItemNanoShaper.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemNanoShaper.C -o ../FREEBSDAMD64/DrawMolItemNanoShaper.o Compiling DrawMolItemNanoShaper.C --> DrawMolItemNanoShaper.o ... echo "Compiling " DrawMolItemRings.C " --> " DrawMolItemRings.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemRings.C -o ../FREEBSDAMD64/DrawMolItemRings.o Compiling DrawMolItemRings.C --> DrawMolItemRings.o ... echo "Compiling " DrawMolItemOrbital.C " --> " DrawMolItemOrbital.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemOrbital.C -o ../FREEBSDAMD64/DrawMolItemOrbital.o Compiling DrawMolItemOrbital.C --> DrawMolItemOrbital.o ... echo "Compiling " DrawMolItemQuickSurf.C " --> " DrawMolItemQuickSurf.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemQuickSurf.C -o ../FREEBSDAMD64/DrawMolItemQuickSurf.o Compiling DrawMolItemQuickSurf.C --> DrawMolItemQuickSurf.o ... echo "Compiling " DrawMolItemSurface.C " --> " DrawMolItemSurface.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemSurface.C -o ../FREEBSDAMD64/DrawMolItemSurface.o Compiling DrawMolItemSurface.C --> DrawMolItemSurface.o ... echo "Compiling " DrawMolItemVolume.C " --> " DrawMolItemVolume.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemVolume.C -o ../FREEBSDAMD64/DrawMolItemVolume.o Compiling DrawMolItemVolume.C --> DrawMolItemVolume.o ... echo "Compiling " DrawForce.C " --> " DrawForce.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawForce.C -o ../FREEBSDAMD64/DrawForce.o Compiling DrawForce.C --> DrawForce.o ... echo "Compiling " DrawRingsUtils.C " --> " DrawRingsUtils.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawRingsUtils.C -o ../FREEBSDAMD64/DrawRingsUtils.o Compiling DrawRingsUtils.C --> DrawRingsUtils.o ... echo "Compiling " FastPBC.C " --> " FastPBC.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FastPBC.C -o ../FREEBSDAMD64/FastPBC.o Compiling FastPBC.C --> FastPBC.o ... echo "Compiling " FileRenderList.C " --> " FileRenderList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FileRenderList.C -o ../FREEBSDAMD64/FileRenderList.o Compiling FileRenderList.C --> FileRenderList.o ... echo "Compiling " FileRenderer.C " --> " FileRenderer.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FileRenderer.C -o ../FREEBSDAMD64/FileRenderer.o Compiling FileRenderer.C --> FileRenderer.o ... echo "Compiling " FPS.C " --> " FPS.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FPS.C -o ../FREEBSDAMD64/FPS.o Compiling FPS.C --> FPS.o ... echo "Compiling " GaussianBlur.C " --> " GaussianBlur.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GaussianBlur.C -o ../FREEBSDAMD64/GaussianBlur.o Compiling GaussianBlur.C --> GaussianBlur.o ... echo "Compiling " GelatoDisplayDevice.C " --> " GelatoDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GelatoDisplayDevice.C -o ../FREEBSDAMD64/GelatoDisplayDevice.o Compiling GelatoDisplayDevice.C --> GelatoDisplayDevice.o ... echo "Compiling " GeometryAngle.C " --> " GeometryAngle.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryAngle.C -o ../FREEBSDAMD64/GeometryAngle.o Compiling GeometryAngle.C --> GeometryAngle.o ... echo "Compiling " GeometryAtom.C " --> " GeometryAtom.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryAtom.C -o ../FREEBSDAMD64/GeometryAtom.o Compiling GeometryAtom.C --> GeometryAtom.o ... echo "Compiling " GeometryBond.C " --> " GeometryBond.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryBond.C -o ../FREEBSDAMD64/GeometryBond.o Compiling GeometryBond.C --> GeometryBond.o ... echo "Compiling " GeometryDihedral.C " --> " GeometryDihedral.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryDihedral.C -o ../FREEBSDAMD64/GeometryDihedral.o Compiling GeometryDihedral.C --> GeometryDihedral.o ... echo "Compiling " GeometryList.C " --> " GeometryList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryList.C -o ../FREEBSDAMD64/GeometryList.o Compiling GeometryList.C --> GeometryList.o ... echo "Compiling " GeometryMol.C " --> " GeometryMol.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryMol.C -o ../FREEBSDAMD64/GeometryMol.o Compiling GeometryMol.C --> GeometryMol.o ... echo "Compiling " GeometrySpring.C " --> " GeometrySpring.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometrySpring.C -o ../FREEBSDAMD64/GeometrySpring.o Compiling GeometrySpring.C --> GeometrySpring.o ... echo "Compiling " GraphLayout.C " --> " GraphLayout.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GraphLayout.C -o ../FREEBSDAMD64/GraphLayout.o Compiling GraphLayout.C --> GraphLayout.o ... echo "Compiling " Hershey.C " --> " Hershey.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Hershey.C -o ../FREEBSDAMD64/Hershey.o Compiling Hershey.C --> Hershey.o ... echo "Compiling " HMDMgr.C " --> " HMDMgr.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c HMDMgr.C -o ../FREEBSDAMD64/HMDMgr.o Compiling HMDMgr.C --> HMDMgr.o ... echo "Compiling " Inform.C " --> " Inform.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Inform.C -o ../FREEBSDAMD64/Inform.o Compiling Inform.C --> Inform.o ... echo "Compiling " ImageIO.C " --> " ImageIO.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ImageIO.C -o ../FREEBSDAMD64/ImageIO.o Compiling ImageIO.C --> ImageIO.o ... echo "Compiling " Isosurface.C " --> " Isosurface.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Isosurface.C -o ../FREEBSDAMD64/Isosurface.o Compiling Isosurface.C --> Isosurface.o ... Isosurface.C:35:7: warning: variable 'tricount' set but not used [-Wunused-but-set-variable] int tricount=0; ^ 1 warning generated. echo "Compiling " JRegex.C " --> " JRegex.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c JRegex.C -o ../FREEBSDAMD64/JRegex.o Compiling JRegex.C --> JRegex.o ... echo "Compiling " JString.C " --> " JString.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c JString.C -o ../FREEBSDAMD64/JString.o Compiling JString.C --> JString.o ... echo "Compiling " macosxvmdstart.C " --> " macosxvmdstart.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c macosxvmdstart.C -o ../FREEBSDAMD64/macosxvmdstart.o Compiling macosxvmdstart.C --> macosxvmdstart.o ... echo "Compiling " MaterialList.C " --> " MaterialList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MaterialList.C -o ../FREEBSDAMD64/MaterialList.o Compiling MaterialList.C --> MaterialList.o ... echo "Compiling " Matrix4.C " --> " Matrix4.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Matrix4.C -o ../FREEBSDAMD64/Matrix4.o Compiling Matrix4.C --> Matrix4.o ... echo "Compiling " MayaDisplayDevice.C " --> " MayaDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MayaDisplayDevice.C -o ../FREEBSDAMD64/MayaDisplayDevice.o Compiling MayaDisplayDevice.C --> MayaDisplayDevice.o ... echo "Compiling " MDFF.C " --> " MDFF.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MDFF.C -o ../FREEBSDAMD64/MDFF.o Compiling MDFF.C --> MDFF.o ... echo "Compiling " Measure.C " --> " Measure.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Measure.C -o ../FREEBSDAMD64/Measure.o Compiling Measure.C --> Measure.o ... echo "Compiling " MeasureCluster.C " --> " MeasureCluster.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureCluster.C -o ../FREEBSDAMD64/MeasureCluster.o Compiling MeasureCluster.C --> MeasureCluster.o ... echo "Compiling " MeasurePBC.C " --> " MeasurePBC.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasurePBC.C -o ../FREEBSDAMD64/MeasurePBC.o Compiling MeasurePBC.C --> MeasurePBC.o ... echo "Compiling " MeasureRDF.C " --> " MeasureRDF.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureRDF.C -o ../FREEBSDAMD64/MeasureRDF.o Compiling MeasureRDF.C --> MeasureRDF.o ... echo "Compiling " MeasureQCP.C " --> " MeasureQCP.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureQCP.C -o ../FREEBSDAMD64/MeasureQCP.o Compiling MeasureQCP.C --> MeasureQCP.o ... echo "Compiling " MeasureSurface.C " --> " MeasureSurface.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureSurface.C -o ../FREEBSDAMD64/MeasureSurface.o Compiling MeasureSurface.C --> MeasureSurface.o ... echo "Compiling " MeasureSymmetry.C " --> " MeasureSymmetry.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureSymmetry.C -o ../FREEBSDAMD64/MeasureSymmetry.o Compiling MeasureSymmetry.C --> MeasureSymmetry.o ... echo "Compiling " MeasureVolInterior.C " --> " MeasureVolInterior.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureVolInterior.C -o ../FREEBSDAMD64/MeasureVolInterior.o Compiling MeasureVolInterior.C --> MeasureVolInterior.o ... echo "Compiling " MobileInterface.C " --> " MobileInterface.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MobileInterface.C -o ../FREEBSDAMD64/MobileInterface.o Compiling MobileInterface.C --> MobileInterface.o ... echo "Compiling " MobileButtons.C " --> " MobileButtons.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MobileButtons.C -o ../FREEBSDAMD64/MobileButtons.o Compiling MobileButtons.C --> MobileButtons.o ... echo "Compiling " MobileTracker.C " --> " MobileTracker.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MobileTracker.C -o ../FREEBSDAMD64/MobileTracker.o Compiling MobileTracker.C --> MobileTracker.o ... echo "Compiling " Molecule.C " --> " Molecule.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Molecule.C -o ../FREEBSDAMD64/Molecule.o Compiling Molecule.C --> Molecule.o ... echo "Compiling " MoleculeList.C " --> " MoleculeList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MoleculeList.C -o ../FREEBSDAMD64/MoleculeList.o Compiling MoleculeList.C --> MoleculeList.o ... echo "Compiling " MoleculeGraphics.C " --> " MoleculeGraphics.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MoleculeGraphics.C -o ../FREEBSDAMD64/MoleculeGraphics.o Compiling MoleculeGraphics.C --> MoleculeGraphics.o ... echo "Compiling " MolFilePlugin.C " --> " MolFilePlugin.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MolFilePlugin.C -o ../FREEBSDAMD64/MolFilePlugin.o Compiling MolFilePlugin.C --> MolFilePlugin.o ... echo "Compiling " Mouse.C " --> " Mouse.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Mouse.C -o ../FREEBSDAMD64/Mouse.o Compiling Mouse.C --> Mouse.o ... echo "Compiling " MSMSInterface.C " --> " MSMSInterface.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MSMSInterface.C -o ../FREEBSDAMD64/MSMSInterface.o Compiling MSMSInterface.C --> MSMSInterface.o ... echo "Compiling " NanoShaperInterface.C " --> " NanoShaperInterface.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c NanoShaperInterface.C -o ../FREEBSDAMD64/NanoShaperInterface.o Compiling NanoShaperInterface.C --> NanoShaperInterface.o ... echo "Compiling " Orbital.C " --> " Orbital.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Orbital.C -o ../FREEBSDAMD64/Orbital.o Compiling Orbital.C --> Orbital.o ... Orbital.C:911:21: warning: unused function 'cephesfastexpf' [-Wunused-function] static inline float cephesfastexpf(float x) { ^ In file included from Orbital.C:73: ./Orbital.h:42:7: warning: private field 'num_basis_funcs' is not used [-Wunused-private-field] int num_basis_funcs; ///< # of basis functions stored in basis_array ^ ./Orbital.h:55:14: warning: private field 'atom_sort' is not used [-Wunused-private-field] const int *atom_sort; ///< atom indexes sorted by atom type ^ 3 warnings generated. echo "Compiling " OrbitalJIT.C " --> " OrbitalJIT.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OrbitalJIT.C -o ../FREEBSDAMD64/OrbitalJIT.o Compiling OrbitalJIT.C --> OrbitalJIT.o ... echo "Compiling " PeriodicTable.C " --> " PeriodicTable.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PeriodicTable.C -o ../FREEBSDAMD64/PeriodicTable.o Compiling PeriodicTable.C --> PeriodicTable.o ... echo "Compiling " P_JoystickTool.C " --> " P_JoystickTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_JoystickTool.C -o ../FREEBSDAMD64/P_JoystickTool.o Compiling P_JoystickTool.C --> P_JoystickTool.o ... echo "Compiling " P_TugTool.C " --> " P_TugTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_TugTool.C -o ../FREEBSDAMD64/P_TugTool.o Compiling P_TugTool.C --> P_TugTool.o ... echo "Compiling " P_GrabTool.C " --> " P_GrabTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_GrabTool.C -o ../FREEBSDAMD64/P_GrabTool.o Compiling P_GrabTool.C --> P_GrabTool.o ... echo "Compiling " P_PrintTool.C " --> " P_PrintTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_PrintTool.C -o ../FREEBSDAMD64/P_PrintTool.o Compiling P_PrintTool.C --> P_PrintTool.o ... echo "Compiling " P_PinchTool.C " --> " P_PinchTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_PinchTool.C -o ../FREEBSDAMD64/P_PinchTool.o Compiling P_PinchTool.C --> P_PinchTool.o ... echo "Compiling " P_UIVR.C " --> " P_UIVR.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_UIVR.C -o ../FREEBSDAMD64/P_UIVR.o Compiling P_UIVR.C --> P_UIVR.o ... echo "Compiling " P_Buttons.C " --> " P_Buttons.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_Buttons.C -o ../FREEBSDAMD64/P_Buttons.o Compiling P_Buttons.C --> P_Buttons.o ... echo "Compiling " P_Tracker.C " --> " P_Tracker.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_Tracker.C -o ../FREEBSDAMD64/P_Tracker.o Compiling P_Tracker.C --> P_Tracker.o ... echo "Compiling " P_Tool.C " --> " P_Tool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_Tool.C -o ../FREEBSDAMD64/P_Tool.o Compiling P_Tool.C --> P_Tool.o ... echo "Compiling " P_CmdTool.C " --> " P_CmdTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_CmdTool.C -o ../FREEBSDAMD64/P_CmdTool.o Compiling P_CmdTool.C --> P_CmdTool.o ... echo "Compiling " P_SensorConfig.C " --> " P_SensorConfig.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_SensorConfig.C -o ../FREEBSDAMD64/P_SensorConfig.o Compiling P_SensorConfig.C --> P_SensorConfig.o ... echo "Compiling " ParseTree.C " --> " ParseTree.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ParseTree.C -o ../FREEBSDAMD64/ParseTree.o Compiling ParseTree.C --> ParseTree.o ... echo "Compiling " PickList.C " --> " PickList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickList.C -o ../FREEBSDAMD64/PickList.o Compiling PickList.C --> PickList.o ... echo "Compiling " PickModeAddBond.C " --> " PickModeAddBond.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeAddBond.C -o ../FREEBSDAMD64/PickModeAddBond.o Compiling PickModeAddBond.C --> PickModeAddBond.o ... echo "Compiling " PickModeCenter.C " --> " PickModeCenter.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeCenter.C -o ../FREEBSDAMD64/PickModeCenter.o Compiling PickModeCenter.C --> PickModeCenter.o ... echo "Compiling " PickModeForce.C " --> " PickModeForce.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeForce.C -o ../FREEBSDAMD64/PickModeForce.o Compiling PickModeForce.C --> PickModeForce.o ... echo "Compiling " PickModeList.C " --> " PickModeList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeList.C -o ../FREEBSDAMD64/PickModeList.o Compiling PickModeList.C --> PickModeList.o ... echo "Compiling " PickModeMolLabel.C " --> " PickModeMolLabel.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeMolLabel.C -o ../FREEBSDAMD64/PickModeMolLabel.o Compiling PickModeMolLabel.C --> PickModeMolLabel.o ... echo "Compiling " PickModeMove.C " --> " PickModeMove.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeMove.C -o ../FREEBSDAMD64/PickModeMove.o Compiling PickModeMove.C --> PickModeMove.o ... echo "Compiling " PickModeUser.C " --> " PickModeUser.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeUser.C -o ../FREEBSDAMD64/PickModeUser.o Compiling PickModeUser.C --> PickModeUser.o ... echo "Compiling " PlainTextInterp.C " --> " PlainTextInterp.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PlainTextInterp.C -o ../FREEBSDAMD64/PlainTextInterp.o Compiling PlainTextInterp.C --> PlainTextInterp.o ... echo "Compiling " PluginMgr.C " --> " PluginMgr.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PluginMgr.C -o ../FREEBSDAMD64/PluginMgr.o Compiling PluginMgr.C --> PluginMgr.o ... echo "Compiling " POV3DisplayDevice.C " --> " POV3DisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c POV3DisplayDevice.C -o ../FREEBSDAMD64/POV3DisplayDevice.o Compiling POV3DisplayDevice.C --> POV3DisplayDevice.o ... echo "Compiling " PSDisplayDevice.C " --> " PSDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PSDisplayDevice.C -o ../FREEBSDAMD64/PSDisplayDevice.o Compiling PSDisplayDevice.C --> PSDisplayDevice.o ... echo "Compiling " QMData.C " --> " QMData.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c QMData.C -o ../FREEBSDAMD64/QMData.o Compiling QMData.C --> QMData.o ... echo "Compiling " QMTimestep.C " --> " QMTimestep.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c QMTimestep.C -o ../FREEBSDAMD64/QMTimestep.o Compiling QMTimestep.C --> QMTimestep.o ... echo "Compiling " QuickSurf.C " --> " QuickSurf.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c QuickSurf.C -o ../FREEBSDAMD64/QuickSurf.o Compiling QuickSurf.C --> QuickSurf.o ... echo "Compiling " RadianceDisplayDevice.C " --> " RadianceDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RadianceDisplayDevice.C -o ../FREEBSDAMD64/RadianceDisplayDevice.o Compiling RadianceDisplayDevice.C --> RadianceDisplayDevice.o ... echo "Compiling " RayShadeDisplayDevice.C " --> " RayShadeDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RayShadeDisplayDevice.C -o ../FREEBSDAMD64/RayShadeDisplayDevice.o Compiling RayShadeDisplayDevice.C --> RayShadeDisplayDevice.o ... echo "Compiling " R3dDisplayDevice.C " --> " R3dDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c R3dDisplayDevice.C -o ../FREEBSDAMD64/R3dDisplayDevice.o Compiling R3dDisplayDevice.C --> R3dDisplayDevice.o ... echo "Compiling " RenderManDisplayDevice.C " --> " RenderManDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RenderManDisplayDevice.C -o ../FREEBSDAMD64/RenderManDisplayDevice.o Compiling RenderManDisplayDevice.C --> RenderManDisplayDevice.o ... echo "Compiling " Scene.C " --> " Scene.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Scene.C -o ../FREEBSDAMD64/Scene.o Compiling Scene.C --> Scene.o ... echo "Compiling " ScaleSpaceFilter.C " --> " ScaleSpaceFilter.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ScaleSpaceFilter.C -o ../FREEBSDAMD64/ScaleSpaceFilter.o Compiling ScaleSpaceFilter.C --> ScaleSpaceFilter.o ... echo "Compiling " Segmentation.C " --> " Segmentation.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Segmentation.C -o ../FREEBSDAMD64/Segmentation.o Compiling Segmentation.C --> Segmentation.o ... echo "Compiling " SnapshotDisplayDevice.C " --> " SnapshotDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SnapshotDisplayDevice.C -o ../FREEBSDAMD64/SnapshotDisplayDevice.o Compiling SnapshotDisplayDevice.C --> SnapshotDisplayDevice.o ... echo "Compiling " Spaceball.C " --> " Spaceball.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Spaceball.C -o ../FREEBSDAMD64/Spaceball.o Compiling Spaceball.C --> Spaceball.o ... echo "Compiling " SpaceballButtons.C " --> " SpaceballButtons.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpaceballButtons.C -o ../FREEBSDAMD64/SpaceballButtons.o Compiling SpaceballButtons.C --> SpaceballButtons.o ... echo "Compiling " SpaceballTracker.C " --> " SpaceballTracker.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpaceballTracker.C -o ../FREEBSDAMD64/SpaceballTracker.o Compiling SpaceballTracker.C --> SpaceballTracker.o ... echo "Compiling " SpatialSearch.C " --> " SpatialSearch.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpatialSearch.C -o ../FREEBSDAMD64/SpatialSearch.o Compiling SpatialSearch.C --> SpatialSearch.o ... echo "Compiling " SpringTool.C " --> " SpringTool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpringTool.C -o ../FREEBSDAMD64/SpringTool.o Compiling SpringTool.C --> SpringTool.o ... echo "Compiling " Stage.C " --> " Stage.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Stage.C -o ../FREEBSDAMD64/Stage.o Compiling Stage.C --> Stage.o ... echo "Compiling " STLDisplayDevice.C " --> " STLDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c STLDisplayDevice.C -o ../FREEBSDAMD64/STLDisplayDevice.o Compiling STLDisplayDevice.C --> STLDisplayDevice.o ... echo "Compiling " Stride.C " --> " Stride.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Stride.C -o ../FREEBSDAMD64/Stride.o Compiling Stride.C --> Stride.o ... echo "Compiling " Surf.C " --> " Surf.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Surf.C -o ../FREEBSDAMD64/Surf.o Compiling Surf.C --> Surf.o ... echo "Compiling " SymbolTable.C " --> " SymbolTable.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SymbolTable.C -o ../FREEBSDAMD64/SymbolTable.o Compiling SymbolTable.C --> SymbolTable.o ... echo "Compiling " TachyonDisplayDevice.C " --> " TachyonDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TachyonDisplayDevice.C -o ../FREEBSDAMD64/TachyonDisplayDevice.o Compiling TachyonDisplayDevice.C --> TachyonDisplayDevice.o ... echo "Compiling " Timestep.C " --> " Timestep.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Timestep.C -o ../FREEBSDAMD64/Timestep.o Compiling Timestep.C --> Timestep.o ... echo "Compiling " UIObject.C " --> " UIObject.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c UIObject.C -o ../FREEBSDAMD64/UIObject.o Compiling UIObject.C --> UIObject.o ... echo "Compiling " UIText.C " --> " UIText.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c UIText.C -o ../FREEBSDAMD64/UIText.o Compiling UIText.C --> UIText.o ... echo "Compiling " VideoStream.C " --> " VideoStream.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VideoStream.C -o ../FREEBSDAMD64/VideoStream.o Compiling VideoStream.C --> VideoStream.o ... echo "Compiling " VMDApp.C " --> " VMDApp.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDApp.C -o ../FREEBSDAMD64/VMDApp.o Compiling VMDApp.C --> VMDApp.o ... echo "Compiling " VMDCollab.C " --> " VMDCollab.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDCollab.C -o ../FREEBSDAMD64/VMDCollab.o Compiling VMDCollab.C --> VMDCollab.o ... echo "Compiling " VMDDir.C " --> " VMDDir.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDDir.C -o ../FREEBSDAMD64/VMDDir.o Compiling VMDDir.C --> VMDDir.o ... echo "Compiling " VMDDisplayList.C " --> " VMDDisplayList.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDDisplayList.C -o ../FREEBSDAMD64/VMDDisplayList.o Compiling VMDDisplayList.C --> VMDDisplayList.o ... echo "Compiling " VMDMenu.C " --> " VMDMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDMenu.C -o ../FREEBSDAMD64/VMDMenu.o Compiling VMDMenu.C --> VMDMenu.o ... echo "Compiling " VMDQuat.C " --> " VMDQuat.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDQuat.C -o ../FREEBSDAMD64/VMDQuat.o Compiling VMDQuat.C --> VMDQuat.o ... echo "Compiling " VMDTitle.C " --> " VMDTitle.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDTitle.C -o ../FREEBSDAMD64/VMDTitle.o Compiling VMDTitle.C --> VMDTitle.o ... echo "Compiling " VolCPotential.C " --> " VolCPotential.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolCPotential.C -o ../FREEBSDAMD64/VolCPotential.o Compiling VolCPotential.C --> VolCPotential.o ... echo "Compiling " VolMapCreate.C " --> " VolMapCreate.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolMapCreate.C -o ../FREEBSDAMD64/VolMapCreate.o Compiling VolMapCreate.C --> VolMapCreate.o ... echo "Compiling " VolMapCreateILS.C " --> " VolMapCreateILS.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolMapCreateILS.C -o ../FREEBSDAMD64/VolMapCreateILS.o Compiling VolMapCreateILS.C --> VolMapCreateILS.o ... echo "Compiling " VolumetricData.C " --> " VolumetricData.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolumetricData.C -o ../FREEBSDAMD64/VolumetricData.o Compiling VolumetricData.C --> VolumetricData.o ... echo "Compiling " VolumeTexture.C " --> " VolumeTexture.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolumeTexture.C -o ../FREEBSDAMD64/VolumeTexture.o Compiling VolumeTexture.C --> VolumeTexture.o ... echo "Compiling " Voltool.C " --> " Voltool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Voltool.C -o ../FREEBSDAMD64/Voltool.o Compiling Voltool.C --> Voltool.o ... echo "Compiling " VrmlDisplayDevice.C " --> " VrmlDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VrmlDisplayDevice.C -o ../FREEBSDAMD64/VrmlDisplayDevice.o Compiling VrmlDisplayDevice.C --> VrmlDisplayDevice.o ... echo "Compiling " Vrml2DisplayDevice.C " --> " Vrml2DisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Vrml2DisplayDevice.C -o ../FREEBSDAMD64/Vrml2DisplayDevice.o Compiling Vrml2DisplayDevice.C --> Vrml2DisplayDevice.o ... echo "Compiling " Watershed.C " --> " Watershed.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Watershed.C -o ../FREEBSDAMD64/Watershed.o Compiling Watershed.C --> Watershed.o ... echo "Compiling " WavefrontDisplayDevice.C " --> " WavefrontDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c WavefrontDisplayDevice.C -o ../FREEBSDAMD64/WavefrontDisplayDevice.o Compiling WavefrontDisplayDevice.C --> WavefrontDisplayDevice.o ... echo "Compiling " WKFThreads.C " --> " WKFThreads.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c WKFThreads.C -o ../FREEBSDAMD64/WKFThreads.o Compiling WKFThreads.C --> WKFThreads.o ... echo "Compiling " WKFUtils.C " --> " WKFUtils.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c WKFUtils.C -o ../FREEBSDAMD64/WKFUtils.o Compiling WKFUtils.C --> WKFUtils.o ... echo "Compiling " utilities.C " --> " utilities.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c utilities.C -o ../FREEBSDAMD64/utilities.o Compiling utilities.C --> utilities.o ... echo "Compiling " util_simd.C " --> " util_simd.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c util_simd.C -o ../FREEBSDAMD64/util_simd.o Compiling util_simd.C --> util_simd.o ... echo "Compiling " vmd.C " --> " vmd.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmd.C -o ../FREEBSDAMD64/vmd.o Compiling vmd.C --> vmd.o ... echo "Compiling " vmdmain.C " --> " vmdmain.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmdmain.C -o ../FREEBSDAMD64/vmdmain.o Compiling vmdmain.C --> vmdmain.o ... echo "Compiling " X3DDisplayDevice.C " --> " X3DDisplayDevice.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c X3DDisplayDevice.C -o ../FREEBSDAMD64/X3DDisplayDevice.o Compiling X3DDisplayDevice.C --> X3DDisplayDevice.o ... echo "Compiling " ColorInfo.C " --> " ColorInfo.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ColorInfo.C -o ../FREEBSDAMD64/ColorInfo.o Compiling ColorInfo.C --> ColorInfo.o ... echo "Compiling " TclCommands.C " --> " TclCommands.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclCommands.C -o ../FREEBSDAMD64/TclCommands.o Compiling TclCommands.C --> TclCommands.o ... echo "Compiling " TclFastPBC.C " --> " TclFastPBC.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclFastPBC.C -o ../FREEBSDAMD64/TclFastPBC.o Compiling TclFastPBC.C --> TclFastPBC.o ... echo "Compiling " TclMDFF.C " --> " TclMDFF.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclMDFF.C -o ../FREEBSDAMD64/TclMDFF.o Compiling TclMDFF.C --> TclMDFF.o ... echo "Compiling " TclMeasure.C " --> " TclMeasure.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclMeasure.C -o ../FREEBSDAMD64/TclMeasure.o Compiling TclMeasure.C --> TclMeasure.o ... echo "Compiling " TclMolInfo.C " --> " TclMolInfo.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclMolInfo.C -o ../FREEBSDAMD64/TclMolInfo.o Compiling TclMolInfo.C --> TclMolInfo.o ... echo "Compiling " TclTextInterp.C " --> " TclTextInterp.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclTextInterp.C -o ../FREEBSDAMD64/TclTextInterp.o Compiling TclTextInterp.C --> TclTextInterp.o ... echo "Compiling " TclVec.C " --> " TclVec.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclVec.C -o ../FREEBSDAMD64/TclVec.o Compiling TclVec.C --> TclVec.o ... echo "Compiling " TclGraphics.C " --> " TclGraphics.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclGraphics.C -o ../FREEBSDAMD64/TclGraphics.o Compiling TclGraphics.C --> TclGraphics.o ... echo "Compiling " TclGraphLayout.C " --> " TclGraphLayout.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclGraphLayout.C -o ../FREEBSDAMD64/TclGraphLayout.o Compiling TclGraphLayout.C --> TclGraphLayout.o ... echo "Compiling " TclSegmentation.C " --> " TclSegmentation.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclSegmentation.C -o ../FREEBSDAMD64/TclSegmentation.o Compiling TclSegmentation.C --> TclSegmentation.o ... echo "Compiling " TclVolMap.C " --> " TclVolMap.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclVolMap.C -o ../FREEBSDAMD64/TclVolMap.o Compiling TclVolMap.C --> TclVolMap.o ... echo "Compiling " TclVoltool.C " --> " TclVoltool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclVoltool.C -o ../FREEBSDAMD64/TclVoltool.o Compiling TclVoltool.C --> TclVoltool.o ... echo "Compiling " cmd_animate.C " --> " cmd_animate.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_animate.C -o ../FREEBSDAMD64/cmd_animate.o Compiling cmd_animate.C --> cmd_animate.o ... echo "Compiling " cmd_collab.C " --> " cmd_collab.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_collab.C -o ../FREEBSDAMD64/cmd_collab.o Compiling cmd_collab.C --> cmd_collab.o ... echo "Compiling " cmd_color.C " --> " cmd_color.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_color.C -o ../FREEBSDAMD64/cmd_color.o Compiling cmd_color.C --> cmd_color.o ... echo "Compiling " cmd_display.C " --> " cmd_display.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_display.C -o ../FREEBSDAMD64/cmd_display.o Compiling cmd_display.C --> cmd_display.o ... echo "Compiling " cmd_imd.C " --> " cmd_imd.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_imd.C -o ../FREEBSDAMD64/cmd_imd.o Compiling cmd_imd.C --> cmd_imd.o ... echo "Compiling " cmd_label.C " --> " cmd_label.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_label.C -o ../FREEBSDAMD64/cmd_label.o Compiling cmd_label.C --> cmd_label.o ... echo "Compiling " cmd_material.C " --> " cmd_material.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_material.C -o ../FREEBSDAMD64/cmd_material.o Compiling cmd_material.C --> cmd_material.o ... echo "Compiling " cmd_menu.C " --> " cmd_menu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_menu.C -o ../FREEBSDAMD64/cmd_menu.o Compiling cmd_menu.C --> cmd_menu.o ... echo "Compiling " cmd_mobile.C " --> " cmd_mobile.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_mobile.C -o ../FREEBSDAMD64/cmd_mobile.o Compiling cmd_mobile.C --> cmd_mobile.o ... echo "Compiling " cmd_mol.C " --> " cmd_mol.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_mol.C -o ../FREEBSDAMD64/cmd_mol.o Compiling cmd_mol.C --> cmd_mol.o ... echo "Compiling " cmd_mouse.C " --> " cmd_mouse.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_mouse.C -o ../FREEBSDAMD64/cmd_mouse.o Compiling cmd_mouse.C --> cmd_mouse.o ... echo "Compiling " cmd_parallel.C " --> " cmd_parallel.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_parallel.C -o ../FREEBSDAMD64/cmd_parallel.o Compiling cmd_parallel.C --> cmd_parallel.o ... echo "Compiling " cmd_plugin.C " --> " cmd_plugin.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_plugin.C -o ../FREEBSDAMD64/cmd_plugin.o Compiling cmd_plugin.C --> cmd_plugin.o ... echo "Compiling " cmd_profile.C " --> " cmd_profile.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_profile.C -o ../FREEBSDAMD64/cmd_profile.o Compiling cmd_profile.C --> cmd_profile.o ... echo "Compiling " cmd_render.C " --> " cmd_render.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_render.C -o ../FREEBSDAMD64/cmd_render.o Compiling cmd_render.C --> cmd_render.o ... echo "Compiling " cmd_spaceball.C " --> " cmd_spaceball.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_spaceball.C -o ../FREEBSDAMD64/cmd_spaceball.o Compiling cmd_spaceball.C --> cmd_spaceball.o ... echo "Compiling " cmd_tool.C " --> " cmd_tool.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_tool.C -o ../FREEBSDAMD64/cmd_tool.o Compiling cmd_tool.C --> cmd_tool.o ... echo "Compiling " cmd_trans.C " --> " cmd_trans.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_trans.C -o ../FREEBSDAMD64/cmd_trans.o Compiling cmd_trans.C --> cmd_trans.o ... echo "Compiling " cmd_user.C " --> " cmd_user.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_user.C -o ../FREEBSDAMD64/cmd_user.o Compiling cmd_user.C --> cmd_user.o ... echo "Compiling " cmd_util.C " --> " cmd_util.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_util.C -o ../FREEBSDAMD64/cmd_util.o Compiling cmd_util.C --> cmd_util.o ... echo "Compiling " cmd_videostream.C " --> " cmd_videostream.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_videostream.C -o ../FREEBSDAMD64/cmd_videostream.o Compiling cmd_videostream.C --> cmd_videostream.o ... echo "Compiling " cmd_vmdbench.C " --> " cmd_vmdbench.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_vmdbench.C -o ../FREEBSDAMD64/cmd_vmdbench.o Compiling cmd_vmdbench.C --> cmd_vmdbench.o ... echo "Compiling " tcl_commands.C " --> " tcl_commands.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c tcl_commands.C -o ../FREEBSDAMD64/tcl_commands.o Compiling tcl_commands.C --> tcl_commands.o ... echo "Compiling " VMDTkMenu.C " --> " VMDTkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDTkMenu.C -o ../FREEBSDAMD64/VMDTkMenu.o Compiling VMDTkMenu.C --> VMDTkMenu.o ... echo "Compiling " ColorFltkMenu.C " --> " ColorFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ColorFltkMenu.C -o ../FREEBSDAMD64/ColorFltkMenu.o Compiling ColorFltkMenu.C --> ColorFltkMenu.o ... echo "Compiling " DisplayFltkMenu.C " --> " DisplayFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DisplayFltkMenu.C -o ../FREEBSDAMD64/DisplayFltkMenu.o Compiling DisplayFltkMenu.C --> DisplayFltkMenu.o ... echo "Compiling " FileChooserFltkMenu.C " --> " FileChooserFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FileChooserFltkMenu.C -o ../FREEBSDAMD64/FileChooserFltkMenu.o Compiling FileChooserFltkMenu.C --> FileChooserFltkMenu.o ... echo "Compiling " GraphicsFltkMenu.C " --> " GraphicsFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GraphicsFltkMenu.C -o ../FREEBSDAMD64/GraphicsFltkMenu.o Compiling GraphicsFltkMenu.C --> GraphicsFltkMenu.o ... echo "Compiling " SelectionBuilder.C " --> " SelectionBuilder.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SelectionBuilder.C -o ../FREEBSDAMD64/SelectionBuilder.o Compiling SelectionBuilder.C --> SelectionBuilder.o ... echo "Compiling " GeometryFltkMenu.C " --> " GeometryFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryFltkMenu.C -o ../FREEBSDAMD64/GeometryFltkMenu.o Compiling GeometryFltkMenu.C --> GeometryFltkMenu.o ... echo "Compiling " MaterialFltkMenu.C " --> " MaterialFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MaterialFltkMenu.C -o ../FREEBSDAMD64/MaterialFltkMenu.o Compiling MaterialFltkMenu.C --> MaterialFltkMenu.o ... echo "Compiling " MolBrowser.C " --> " MolBrowser.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MolBrowser.C -o ../FREEBSDAMD64/MolBrowser.o Compiling MolBrowser.C --> MolBrowser.o ... echo "Compiling " RenderFltkMenu.C " --> " RenderFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RenderFltkMenu.C -o ../FREEBSDAMD64/RenderFltkMenu.o Compiling RenderFltkMenu.C --> RenderFltkMenu.o ... echo "Compiling " SaveTrajectoryFltkMenu.C " --> " SaveTrajectoryFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SaveTrajectoryFltkMenu.C -o ../FREEBSDAMD64/SaveTrajectoryFltkMenu.o Compiling SaveTrajectoryFltkMenu.C --> SaveTrajectoryFltkMenu.o ... In file included from SaveTrajectoryFltkMenu.C:21: ./SaveTrajectoryFltkMenu.h:55:14: warning: private field 'closebutton' is not used [-Wunused-private-field] Fl_Button *closebutton; ^ 1 warning generated. echo "Compiling " VMDFltkMenu.C " --> " VMDFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDFltkMenu.C -o ../FREEBSDAMD64/VMDFltkMenu.o Compiling VMDFltkMenu.C --> VMDFltkMenu.o ... echo "Compiling " MainFltkMenu.C " --> " MainFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MainFltkMenu.C -o ../FREEBSDAMD64/MainFltkMenu.o Compiling MainFltkMenu.C --> MainFltkMenu.o ... echo "Compiling " ToolFltkMenu.C " --> " ToolFltkMenu.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ToolFltkMenu.C -o ../FREEBSDAMD64/ToolFltkMenu.o Compiling ToolFltkMenu.C --> ToolFltkMenu.o ... echo "Compiling " frame_selector.C " --> " frame_selector.o " ..."; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c frame_selector.C -o ../FREEBSDAMD64/frame_selector.o Compiling frame_selector.C --> frame_selector.o ... echo "Compiling " c_compiler.c " --> " c_compiler.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c c_compiler.c -o ../FREEBSDAMD64/c_compiler.o Compiling c_compiler.c --> c_compiler.o ... echo "Compiling " hash.c " --> " hash.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c hash.c -o ../FREEBSDAMD64/hash.o Compiling hash.c --> hash.o ... echo "Compiling " inthash.c " --> " inthash.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c inthash.c -o ../FREEBSDAMD64/inthash.o Compiling inthash.c --> inthash.o ... echo "Compiling " intstack.c " --> " intstack.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c intstack.c -o ../FREEBSDAMD64/intstack.o Compiling intstack.c --> intstack.o ... echo "Compiling " ptrstack.c " --> " ptrstack.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ptrstack.c -o ../FREEBSDAMD64/ptrstack.o Compiling ptrstack.c --> ptrstack.o ... echo "Compiling " msmpot.c " --> " msmpot.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot.c -o ../FREEBSDAMD64/msmpot.o Compiling msmpot.c --> msmpot.o ... echo "Compiling " msmpot_compute.c " --> " msmpot_compute.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot_compute.c -o ../FREEBSDAMD64/msmpot_compute.o Compiling msmpot_compute.c --> msmpot_compute.o ... echo "Compiling " msmpot_cubic.c " --> " msmpot_cubic.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot_cubic.c -o ../FREEBSDAMD64/msmpot_cubic.o Compiling msmpot_cubic.c --> msmpot_cubic.o ... echo "Compiling " msmpot_setup.c " --> " msmpot_setup.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot_setup.c -o ../FREEBSDAMD64/msmpot_setup.o Compiling msmpot_setup.c --> msmpot_setup.o ... echo "Compiling " vmdsock.c " --> " vmdsock.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmdsock.c -o ../FREEBSDAMD64/vmdsock.o Compiling vmdsock.c --> vmdsock.o ... vmdsock.c:133:52: warning: passing 'int *' to parameter of type 'socklen_t *' (aka 'unsigned int *') converts between pointers to integer types with different sign [-Wpointer-sign] rc = accept(s->sd, (struct sockaddr *) &s->addr, &len); ^~~~ /usr/include/sys/socket.h:682:69: note: passing argument to parameter here int accept(int, struct sockaddr * __restrict, socklen_t * __restrict); ^ 1 warning generated. echo "Compiling " vmddlopen.c " --> " vmddlopen.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmddlopen.c -o ../FREEBSDAMD64/vmddlopen.o Compiling vmddlopen.c --> vmddlopen.o ... echo "Compiling " vmdfsinfo.c " --> " vmdfsinfo.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmdfsinfo.c -o ../FREEBSDAMD64/vmdfsinfo.o Compiling vmdfsinfo.c --> vmdfsinfo.o ... echo "Compiling " pcre.c " --> " pcre.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c pcre.c -o ../FREEBSDAMD64/pcre.o Compiling pcre.c --> pcre.o ... echo "Compiling " fitrms.c " --> " fitrms.o " ..."; \ cc -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c fitrms.c -o ../FREEBSDAMD64/fitrms.o Compiling fitrms.c --> fitrms.o ... echo "Linking " vmd_FREEBSDAMD64 "..."; \ cd ../FREEBSDAMD64 ; \ c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -m64 -Wall -Wno-unknown-pragmas -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDNANOSHAPER -DVMDLATTICECUBES -DVMDTCL -DVMDTK -DVMDSTATICPLUGINS -DVMDGUI -DVMDFLTK -DGLX_GLXEXT_LEGACY -I/usr/local/include -I../lib/tachyon/src -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/lib/python3.9/site-packages -I/usr/local/include/tcl8.6 -I/usr/local/include/tk8.6 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -I../src -o vmd_FREEBSDAMD64 OpenGLDisplayDevice.o OpenGLExtensions.o OpenGLRenderer.o OpenGLShader.o OpenGLCache.o IMDMgr.o IMDSim.o IMDSimThread.o CmdIMD.o imd.o LibTachyonDisplayDevice.o PythonTextInterp.o VMDTkinterMenu.o py_animate.o py_atomsel.o py_selection.o py_axes.o py_color.o py_commands.o py_display.o py_graphics.o py_imd.o py_label.o py_material.o py_measure.o py_menu.o py_molecule.o py_molrep.o py_mouse.o py_render.o py_topo.o py_trans.o py_vmd.o py_numeric.o androidvmdstart.o Animation.o ArtDisplayDevice.o AtomColor.o AtomParser.o AtomLexer.o AtomRep.o AtomSel.o Axes.o BaseMolecule.o Benchmark.o BondSearch.o CmdAnimate.o CmdColor.o CmdDisplay.o CmdLabel.o CmdMaterial.o CmdMenu.o CmdMol.o CmdRender.o CmdTrans.o CommandQueue.o CoorPluginData.o CUDAAccel.o DisplayDevice.o Displayable.o DisplayRocker.o DispCmds.o DrawMolecule.o DrawMolItem.o DrawMolItem2.o DrawMolItemRibbons.o DrawMolItemMSMS.o DrawMolItemNanoShaper.o DrawMolItemRings.o DrawMolItemOrbital.o DrawMolItemQuickSurf.o DrawMolItemSurface.o DrawMolItemVolume.o DrawForce.o DrawRingsUtils.o FastPBC.o FileRenderList.o FileRenderer.o FPS.o GaussianBlur.o GelatoDisplayDevice.o GeometryAngle.o GeometryAtom.o GeometryBond.o GeometryDihedral.o GeometryList.o GeometryMol.o GeometrySpring.o GraphLayout.o Hershey.o HMDMgr.o Inform.o ImageIO.o Isosurface.o JRegex.o JString.o macosxvmdstart.o MaterialList.o Matrix4.o MayaDisplayDevice.o MDFF.o Measure.o MeasureCluster.o MeasurePBC.o MeasureRDF.o MeasureQCP.o MeasureSurface.o MeasureSymmetry.o MeasureVolInterior.o MobileInterface.o MobileButtons.o MobileTracker.o Molecule.o MoleculeList.o MoleculeGraphics.o MolFilePlugin.o Mouse.o MSMSInterface.o NanoShaperInterface.o Orbital.o OrbitalJIT.o PeriodicTable.o P_JoystickTool.o P_TugTool.o P_GrabTool.o P_PrintTool.o P_PinchTool.o P_UIVR.o P_Buttons.o P_Tracker.o P_Tool.o P_CmdTool.o P_SensorConfig.o ParseTree.o PickList.o PickModeAddBond.o PickModeCenter.o PickModeForce.o PickModeList.o PickModeMolLabel.o PickModeMove.o PickModeUser.o PlainTextInterp.o PluginMgr.o POV3DisplayDevice.o PSDisplayDevice.o QMData.o QMTimestep.o QuickSurf.o RadianceDisplayDevice.o RayShadeDisplayDevice.o R3dDisplayDevice.o RenderManDisplayDevice.o Scene.o ScaleSpaceFilter.o Segmentation.o SnapshotDisplayDevice.o Spaceball.o SpaceballButtons.o SpaceballTracker.o SpatialSearch.o SpringTool.o Stage.o STLDisplayDevice.o Stride.o Surf.o SymbolTable.o TachyonDisplayDevice.o Timestep.o UIObject.o UIText.o VideoStream.o VMDApp.o VMDCollab.o VMDDir.o VMDDisplayList.o VMDMenu.o VMDQuat.o VMDTitle.o VolCPotential.o VolMapCreate.o VolMapCreateILS.o VolumetricData.o VolumeTexture.o Voltool.o VrmlDisplayDevice.o Vrml2DisplayDevice.o Watershed.o WavefrontDisplayDevice.o WKFThreads.o WKFUtils.o utilities.o util_simd.o vmd.o vmdmain.o X3DDisplayDevice.o ColorInfo.o TclCommands.o TclFastPBC.o TclMDFF.o TclMeasure.o TclMolInfo.o TclTextInterp.o TclVec.o TclGraphics.o TclGraphLayout.o TclSegmentation.o TclVolMap.o TclVoltool.o cmd_animate.o cmd_collab.o cmd_color.o cmd_display.o cmd_imd.o cmd_label.o cmd_material.o cmd_menu.o cmd_mobile.o cmd_mol.o cmd_mouse.o cmd_parallel.o cmd_plugin.o cmd_profile.o cmd_render.o cmd_spaceball.o cmd_tool.o cmd_trans.o cmd_user.o cmd_util.o cmd_videostream.o cmd_vmdbench.o tcl_commands.o VMDTkMenu.o ColorFltkMenu.o DisplayFltkMenu.o FileChooserFltkMenu.o GraphicsFltkMenu.o SelectionBuilder.o GeometryFltkMenu.o MaterialFltkMenu.o MolBrowser.o RenderFltkMenu.o SaveTrajectoryFltkMenu.o VMDFltkMenu.o MainFltkMenu.o ToolFltkMenu.o frame_selector.o c_compiler.o hash.o inthash.o intstack.o ptrstack.o msmpot.o msmpot_compute.o msmpot_cubic.o msmpot_setup.o vmdsock.o vmddlopen.o vmdfsinfo.o pcre.o fitrms.o -L/usr/local/lib -L/usr/local/lib -L../lib/tachyon/compile/bsd -L/usr/local/lib/python3.9 -L/usr/local/lib -L/usr/local/lib -L../plugins/FREEBSDAMD64/molfile -L../lib/netcdf/lib_FREEBSDAMD64 -L../lib/fltk/FREEBSDAMD64 -lGL -lGL -ltachyon -lpython3.9 -lpthread -lpthread -ltk86 -lX11 -ltcl86 -lmolfile_plugin -lnetcdf -lfltk -lX11 -lm -lutil -Xlinker -export-dynamic ; Linking vmd_FREEBSDAMD64 ... echo No resource compiler required on this platform. No resource compiler required on this platform. gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/src' /usr/bin/env EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" gmake depend -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf gmake[1]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf' making dependencies... done. gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf' /usr/bin/env EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" gmake surf -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf gmake[1]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf' cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c surf.c surf.c:10:1: warning: return type of 'main' is not 'int' [-Wmain-return-type] void ^ surf.c:10:1: note: change return type to 'int' void ^~~~ int surf.c:25:4: warning: implicit declaration of function 'deal_wif_options' is invalid in C99 [-Wimplicit-function-declaration] deal_wif_options(ac,av, filename); /* set the filename */ ^ surf.c:35:4: warning: implicit declaration of function 'input_dataset' is invalid in C99 [-Wimplicit-function-declaration] input_dataset(filename); ^ surf.c:38:6: warning: implicit declaration of function 'begin_output_dataset' is invalid in C99 [-Wimplicit-function-declaration] begin_output_dataset(outfile); ^ surf.c:46:4: warning: implicit declaration of function 'init_and_compute' is invalid in C99 [-Wimplicit-function-declaration] init_and_compute(); ^ surf.c:56:27: warning: implicit declaration of function 'output_dataset' is invalid in C99 [-Wimplicit-function-declaration] if (Write_Option == 2) output_dataset(); ^ surf.c:58:22: warning: implicit declaration of function 'end_output_dataset' is invalid in C99 [-Wimplicit-function-declaration] if (Write_Option) end_output_dataset(); ^ surf.c:65:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] usage(prog_name) ^ surf.c:83:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] deal_wif_options(ac,av, filename) ^ surf.c:130:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 10 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c io.c io.c:21:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] input_dataset(filename) ^ io.c:57:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ io.c:72:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] begin_output_dataset(outfilename) ^ io.c:85:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ io.c:90:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] output_dataset() ^ io.c:100:5: warning: implicit declaration of function 'write_archive_tri' is invalid in C99 [-Wimplicit-function-declaration] write_archive_tri(&verts[i][0], &verts[i][1], &verts[i][2], (int)atom_type[i]); ^ io.c:102:1: warning: non-void function does not return a value [-Wreturn-type] } ^ io.c:108:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] write_archive_tri(pt0, pt1, pt2, atype) ^ io.c:150:1: warning: non-void function does not return a value [-Wreturn-type] } ^ io.c:155:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] end_output_dataset() ^ io.c:163:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 11 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c compute.c compute.c:29:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] init_and_compute() ^ compute.c:44:5: warning: implicit declaration of function 'compute_extents' is invalid in C99 [-Wimplicit-function-declaration] compute_extents(); ^ compute.c:47:5: warning: implicit declaration of function 'compute_bounding_tetra' is invalid in C99 [-Wimplicit-function-declaration] compute_bounding_tetra(); ^ compute.c:53:8: warning: implicit declaration of function 'compute_components' is invalid in C99 [-Wimplicit-function-declaration] { compute_components(i, Constraints); ^ compute.c:61:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ compute.c:67:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_extents() ^ compute.c:132:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ compute.c:138:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_bounding_tetra() ^ compute.c:198:1: warning: non-void function does not return a value [-Wreturn-type] } ^ compute.c:205:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_components(atom_id, constraints) ^ compute.c:213:8: warning: implicit declaration of function 'compute_neighbors' is invalid in C99 [-Wimplicit-function-declaration] if (!compute_neighbors(atom_id, &num_constraints)) return 0; ^ compute.c:215:3: warning: implicit declaration of function 'compute_planes' is invalid in C99 [-Wimplicit-function-declaration] compute_planes(atom_id, num_constraints,constraints); ^ compute.c:220:7: warning: implicit declaration of function 'find_origin' is invalid in C99 [-Wimplicit-function-declaration] if (find_origin(atom_id, constraints, num_constraints)) ^ compute.c:222:5: warning: implicit declaration of function 'transform_and_add_extents' is invalid in C99 [-Wimplicit-function-declaration] transform_and_add_extents(atom_id, constraints, &num_constraints); ^ compute.c:227:5: warning: implicit declaration of function 'dualize_planes_to_points' is invalid in C99 [-Wimplicit-function-declaration] dualize_planes_to_points(constraints, num_constraints); ^ compute.c:230:5: warning: implicit declaration of function 'init_tet' is invalid in C99 [-Wimplicit-function-declaration] init_tet(); ^ compute.c:233:5: warning: implicit declaration of function 'complete_hull' is invalid in C99 [-Wimplicit-function-declaration] complete_hull(); ^ compute.c:236:5: warning: implicit declaration of function 'dualize_hull' is invalid in C99 [-Wimplicit-function-declaration] dualize_hull(atom_id, constraints); ^ compute.c:245:5: warning: implicit declaration of function 'find_tes_origin' is invalid in C99 [-Wimplicit-function-declaration] find_tes_origin(atom_id, constraints); ^ compute.c:248:5: warning: implicit declaration of function 'find_components' is invalid in C99 [-Wimplicit-function-declaration] find_components(atom_id, constraints); ^ compute.c:251:5: warning: implicit declaration of function 'clean_fc' is invalid in C99 [-Wimplicit-function-declaration] clean_fc(); ^ compute.c:252:5: warning: implicit declaration of function 'meta_clean' is invalid in C99 [-Wimplicit-function-declaration] meta_clean(); ^ compute.c:254:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ compute.c:342:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_planes(atom_id, num_cons, cons) ^ compute.c:375:1: warning: non-void function does not return a value [-Wreturn-type] } ^ compute.c:446:7: warning: implicit declaration of function 'find_sol_cons' is invalid in C99 [-Wimplicit-function-declaration] find_sol_cons(cons, num_cons, sol_cons, sol); ^ compute.c:505:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_sol_cons(cons, num_cons, sol_cons, sol) ^ compute.c:536:1: warning: non-void function does not return a value [-Wreturn-type] } ^ compute.c:544:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] transform_and_add_extents(atom_id, cons, num_cons) ^ compute.c:561:3: warning: implicit declaration of function 'quick_sort_planes' is invalid in C99 [-Wimplicit-function-declaration] quick_sort_planes(cons, 0, *num_cons-1); ^ compute.c:578:1: warning: non-void function does not return a value [-Wreturn-type] } ^ compute.c:585:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_components(atom_id, cons) ^ compute.c:598:7: warning: implicit declaration of function 'all_verts_in_sphere' is invalid in C99 [-Wimplicit-function-declaration] if (all_verts_in_sphere(rvertices, rvertices_count, sq_radius)) ^ compute.c:614:16: warning: implicit declaration of function 'gen_component' is invalid in C99 [-Wimplicit-function-declaration] edge_int = gen_component(atom_id, i, cons); ^ compute.c:617:7: warning: implicit declaration of function 'gen_case_III_IV' is invalid in C99 [-Wimplicit-function-declaration] gen_case_III_IV(atom_id, i, cons); ^ compute.c:620:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ compute.c:630:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_tes_origin(atom_id, cons) ^ compute.c:677:25: warning: implicit declaration of function 'point_in_region' is invalid in C99 [-Wimplicit-function-declaration] if ((fac > GP_EPS) && (point_in_region(temp_center, cons))) ^ compute.c:708:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ compute.c:793:7: warning: implicit declaration of function 'get_torus_elt' is invalid in C99 [-Wimplicit-function-declaration] get_torus_elt(atom_id, face_id, &j, cons, temp_torus); ^ compute.c:805:7: warning: implicit declaration of function 'gen_case_I_II' is invalid in C99 [-Wimplicit-function-declaration] gen_case_I_II(temp_torus, cons); ^ compute.c:825:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] get_torus_elt(atom_id, face_id, edge_id, cons, torus_elt) ^ compute.c:863:1: warning: non-void function does not return a value [-Wreturn-type] } ^ compute.c:870:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] quick_sort_planes(cons, m, n) ^ compute.c:904:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 45 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c dual.c dual.c:19:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] dualize_hull(atom_id, cons) ^ dual.c:30:3: warning: implicit declaration of function 'alloc_fc_verts' is invalid in C99 [-Wimplicit-function-declaration] alloc_fc_verts(); ^ dual.c:31:3: warning: implicit declaration of function 'alloc_fc_faces' is invalid in C99 [-Wimplicit-function-declaration] alloc_fc_faces(); ^ dual.c:32:3: warning: implicit declaration of function 'alloc_fc_edges' is invalid in C99 [-Wimplicit-function-declaration] alloc_fc_edges(); ^ dual.c:39:5: warning: implicit declaration of function 'dualize_face_to_point' is invalid in C99 [-Wimplicit-function-declaration] { dualize_face_to_point(atom_id, temp_f, cons); ^ dual.c:53:9: warning: implicit declaration of function 'gen_fc_face' is invalid in C99 [-Wimplicit-function-declaration] gen_fc_face(temp_v, temp_f); ^ dual.c:61:3: warning: implicit declaration of function 'setup_vert_edge_ptrs' is invalid in C99 [-Wimplicit-function-declaration] setup_vert_edge_ptrs(); ^ dual.c:65:5: warning: implicit declaration of function 'find_edge_sphere_intersection' is invalid in C99 [-Wimplicit-function-declaration] find_edge_sphere_intersection(atom_id, &redges[i]); ^ dual.c:66:1: warning: non-void function does not return a value [-Wreturn-type] } ^ dual.c:72:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] alloc_fc_verts() ^ dual.c:82:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ dual.c:86:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] alloc_fc_faces() ^ dual.c:117:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ dual.c:124:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] alloc_fc_edges() ^ dual.c:148:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ dual.c:153:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] setup_vert_edge_ptrs() ^ dual.c:166:1: warning: non-void function does not return a value [-Wreturn-type] } ^ dual.c:171:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] clean_fc() ^ dual.c:183:1: warning: non-void function does not return a value [-Wreturn-type] } ^ dual.c:189:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_fc_face(ch_vert, ch_face) ^ dual.c:249:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ dual.c:255:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] dualize_face_to_point(atom_id, face_ptr, cons) ^ dual.c:267:3: warning: implicit declaration of function 'compute_tri_plane_int' is invalid in C99 [-Wimplicit-function-declaration] compute_tri_plane_int(cons[i], cons[j], cons[k], result); ^ dual.c:278:1: warning: non-void function does not return a value [-Wreturn-type] } ^ dual.c:284:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] dualize_planes_to_points(plane, num_planes) ^ dual.c:317:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ dual.c:331:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_edge_sphere_intersection(atom_id, edge_ptr) ^ dual.c:393:1: warning: non-void function does not return a value [-Wreturn-type] } ^ dual.c:398:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] print_cell() ^ dual.c:405:1: warning: non-void function does not return a value [-Wreturn-type] } ^ dual.c:410:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] display_face(atom_id, region_face, cons) ^ dual.c:431:5: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_tris(&pt0, &pt1, ¢er); ^ dual.c:433:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 33 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c utils.c utils.c:23:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_plane_eq(pt0, pt1, pt2, plane_eq) ^ utils.c:37:1: warning: non-void function does not return a value [-Wreturn-type] } ^ utils.c:43:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_tri_plane_int(plane0, plane1, plane2, result) ^ utils.c:71:1: warning: non-void function does not return a value [-Wreturn-type] } ^ utils.c:79:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_ray_sphere_int(int_point, ray_pt, ray_dir, center, radius) ^ utils.c:110:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ utils.c:119:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_line_plane_int(int_point, line_pt, line_dir, plane_eq) ^ utils.c:130:1: warning: non-void function does not return a value [-Wreturn-type] } ^ utils.c:137:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_line_seg_plane_int(int_point, point0, point1, plane_eq) ^ utils.c:147:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 10 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c lp.c cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c chull.c chull.c:38:9: warning: implicit declaration of function 'make_ccw' is invalid in C99 [-Wimplicit-function-declaration] make_ccw( new_face, e, p ); ^ chull.c:39:9: warning: implicit declaration of function 'pre_vol' is invalid in C99 [-Wimplicit-function-declaration] pre_vol( new_face ); ^ chull.c:60:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] make_ccw( f, e, p ) ^ chull.c:108:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:159:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] init_tet() ^ chull.c:171:10: warning: implicit declaration of function 'co_linear' is invalid in C99 [-Wimplicit-function-declaration] while ( co_linear( v1, v1->next, v1->next->next ) ) ^ chull.c:199:2: warning: implicit declaration of function 'pre_vol' is invalid in C99 [-Wimplicit-function-declaration] pre_vol (f); ^ chull.c:226:2: warning: implicit declaration of function 'clean_up' is invalid in C99 [-Wimplicit-function-declaration] clean_up(); ^ chull.c:228:16: warning: implicit declaration of function 'print_out' is invalid in C99 [-Wimplicit-function-declaration] if ( debug ) print_out( v4 ); ^ chull.c:230:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ chull.c:245:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] co_linear( a, b, c ) ^ chull.c:261:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] pre_vol( f ) ^ chull.c:282:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:294:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] complete_hull() ^ chull.c:302:22: warning: implicit declaration of function 'add_on' is invalid in C99 [-Wimplicit-function-declaration] if (add_on( v )) ^ chull.c:303:33: warning: implicit declaration of function 'print_out' is invalid in C99 [-Wimplicit-function-declaration] { if ( debug ) print_out( v ); ^ chull.c:304:20: warning: implicit declaration of function 'clean_up' is invalid in C99 [-Wimplicit-function-declaration] clean_up(); ^ chull.c:317:3: warning: implicit declaration of function 'clean_up' is invalid in C99 [-Wimplicit-function-declaration] clean_up(); ^ chull.c:318:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:378:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] print_out( v ) ^ chull.c:381:46: warning: format specifies type 'unsigned int' but the argument has type 'struct tvertex *' [-Wformat] fprintf( stderr, "\nAdding vertex %6x :\n", v ); ~~~ ^ chull.c:382:2: warning: implicit declaration of function 'print_verts' is invalid in C99 [-Wimplicit-function-declaration] print_verts(); ^ chull.c:383:2: warning: implicit declaration of function 'print_edges' is invalid in C99 [-Wimplicit-function-declaration] print_edges(); ^ chull.c:384:2: warning: implicit declaration of function 'print_fs' is invalid in C99 [-Wimplicit-function-declaration] print_fs(); ^ chull.c:385:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:394:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] print_verts() ^ chull.c:401:44: warning: format specifies type 'unsigned int' but the argument has type 'struct tvertex *' [-Wformat] fprintf(stderr," addr %6x\t", vertices ); ~~~ ^~~~~~~~ chull.c:405:48: warning: format specifies type 'unsigned int' but the argument has type 'struct tedge *' [-Wformat] fprintf(stderr," duplicate:%5x", vertices->duplicate ); ~~~ ^~~~~~~~~~~~~~~~~~~ chull.c:410:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:419:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] print_edges() ^ chull.c:427:47: warning: format specifies type 'unsigned int' but the argument has type 'struct tedge *' [-Wformat] fprintf( stderr, " addr: %6x\t", edges ); ~~~ ^~~~~ chull.c:430:42: warning: format specifies type 'unsigned int' but the argument has type 'struct tface *' [-Wformat] fprintf( stderr, "%6x", edges->adjface[i] ); ~~~ ^~~~~~~~~~~~~~~~~ chull.c:433:42: warning: format specifies type 'unsigned int' but the argument has type 'struct tvertex *' [-Wformat] fprintf( stderr, "%8x", edges->endpts[i]); ~~~ ^~~~~~~~~~~~~~~~ chull.c:438:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:447:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] print_fs() ^ chull.c:455:46: warning: format specifies type 'unsigned int' but the argument has type 'struct tface *' [-Wformat] fprintf(stderr, " addr: %6x\t", faces ); ~~~ ^~~~~ chull.c:458:41: warning: format specifies type 'unsigned int' but the argument has type 'struct tedge *' [-Wformat] fprintf(stderr, "%6x", faces->edg[i] ); ~~~ ^~~~~~~~~~~~~ chull.c:461:42: warning: format specifies type 'unsigned int' but the argument has type 'struct tvertex *' [-Wformat] fprintf(stderr, "%6x", faces->vert[i] ); ~~~ ^~~~~~~~~~~~~~ chull.c:466:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:478:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] read_vertices() ^ chull.c:499:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ chull.c:504:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] copy_vertices() ^ chull.c:516:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ chull.c:526:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] print() ^ chull.c:555:40: warning: format specifies type 'int' but the argument has type 'int *' [-Wformat] printf("3%5d%6d%6d\n", temp_f->vert[0]->vnum, ~~~ ^~~~~~~~~~~~~~~~~~~~~ chull.c:556:25: warning: format specifies type 'int' but the argument has type 'int *' [-Wformat] temp_f->vert[1]->vnum, temp_f->vert[2]->vnum ); ^~~~~~~~~~~~~~~~~~~~~ chull.c:556:48: warning: format specifies type 'int' but the argument has type 'int *' [-Wformat] temp_f->vert[1]->vnum, temp_f->vert[2]->vnum ); ^~~~~~~~~~~~~~~~~~~~~ chull.c:559:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:569:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] meta_clean() ^ chull.c:589:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:598:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] clean_up() ^ chull.c:601:2: warning: implicit declaration of function 'clean_edges' is invalid in C99 [-Wimplicit-function-declaration] clean_edges(); ^ chull.c:602:2: warning: implicit declaration of function 'clean_faces' is invalid in C99 [-Wimplicit-function-declaration] clean_faces(); ^ chull.c:603:2: warning: implicit declaration of function 'clean_vertices' is invalid in C99 [-Wimplicit-function-declaration] clean_vertices(); ^ chull.c:605:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:613:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] clean_edges() ^ chull.c:618:9: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] if ( e = edges ) ~~^~~~~~~ chull.c:618:9: note: place parentheses around the assignment to silence this warning if ( e = edges ) ^ ( ) chull.c:618:9: note: use '==' to turn this assignment into an equality comparison if ( e = edges ) ^ == chull.c:647:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:653:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] clean_faces() ^ chull.c:673:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:681:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] clean_vertices() ^ chull.c:688:9: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] if ( e = edges ) ~~^~~~~~~ chull.c:688:9: note: place parentheses around the assignment to silence this warning if ( e = edges ) ^ ( ) chull.c:688:9: note: use '==' to turn this assignment into an equality comparison if ( e = edges ) ^ == chull.c:702:16: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] if ( v = vertices ) { ~~^~~~~~~~~~ chull.c:702:16: note: place parentheses around the assignment to silence this warning if ( v = vertices ) { ^ ( ) chull.c:702:16: note: use '==' to turn this assignment into an equality comparison if ( v = vertices ) { ^ == chull.c:714:9: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] if ( v = vertices ) ~~^~~~~~~~~~ chull.c:714:9: note: place parentheses around the assignment to silence this warning if ( v = vertices ) ^ ( ) chull.c:714:9: note: use '==' to turn this assignment into an equality comparison if ( v = vertices ) ^ == chull.c:721:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:732:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] consistency() ^ chull.c:761:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:768:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] convexity() ^ chull.c:791:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:797:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] check_faces(cvertices, cfaces ) ^ chull.c:804:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:810:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] check_edges( cvertices, cedges ) ^ chull.c:816:1: warning: non-void function does not return a value [-Wreturn-type] } ^ chull.c:818:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] checks() ^ chull.c:822:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 75 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c tessel_cases.c tessel_cases.c:59:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_case_I_II(temp_torus, cons) ^ tessel_cases.c:117:7: warning: implicit declaration of function 'compute_transf_mat_I_II' is invalid in C99 [-Wimplicit-function-declaration] compute_transf_mat_I_II(comp_verts[0], comp_verts[i], ^ tessel_cases.c:123:7: warning: implicit declaration of function 'compute_transf_mat_I_II' is invalid in C99 [-Wimplicit-function-declaration] compute_transf_mat_I_II(comp_verts[0], comp_verts[num_int_verts+1], ^ tessel_cases.c:131:5: warning: implicit declaration of function 'find_concave_center' is invalid in C99 [-Wimplicit-function-declaration] find_concave_center(face_atoms,end_atoms[0],comp_verts[0],&con_center[0]); ^ tessel_cases.c:136:5: warning: implicit declaration of function 'gen_patches_I_II' is invalid in C99 [-Wimplicit-function-declaration] gen_patches_I_II(face_atoms, comp_verts, num_int_verts+2, con_center, cir_radius, ^ tessel_cases.c:141:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_cases.c:148:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_case_III_IV(atom_id, face_id, cons) ^ tessel_cases.c:190:9: warning: implicit declaration of function 'gen_case_III' is invalid in C99 [-Wimplicit-function-declaration] gen_case_III(atom_id, face_id, cons); ^ tessel_cases.c:192:9: warning: implicit declaration of function 'gen_case_IV' is invalid in C99 [-Wimplicit-function-declaration] gen_case_IV(atom_id, face_id, cons); ^ tessel_cases.c:195:6: warning: implicit declaration of function 'gen_case_IV' is invalid in C99 [-Wimplicit-function-declaration] gen_case_IV(atom_id, face_id, cons); ^ tessel_cases.c:200:5: warning: implicit declaration of function 'gen_case_IV' is invalid in C99 [-Wimplicit-function-declaration] gen_case_IV(atom_id, face_id, cons); ^ tessel_cases.c:201:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_cases.c:206:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_case_III(atom_id, face_id, cons) ^ tessel_cases.c:234:3: warning: implicit declaration of function 'compute_transf_mat_III' is invalid in C99 [-Wimplicit-function-declaration] compute_transf_mat_III(half_space, inv_transf, cir_center, cir_radius); ^ tessel_cases.c:241:3: warning: implicit declaration of function 'gen_patches_III' is invalid in C99 [-Wimplicit-function-declaration] gen_patches_III(face_atoms, comp_verts,n+1,cir_center, cir_radius, ^ tessel_cases.c:245:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_cases.c:251:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_case_IV(atom_id, face_id, cons) ^ tessel_cases.c:275:3: warning: implicit declaration of function 'gen_patches_IV' is invalid in C99 [-Wimplicit-function-declaration] gen_patches_IV(atom_id, comp_verts, n); ^ tessel_cases.c:278:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_cases.c:286:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_transf_mat_I_II(pt0, pt1, inv_transf,center,radius, acute) ^ tessel_cases.c:324:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_cases.c:332:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] compute_transf_mat_III(constraint, inv_transf, center, radius) ^ tessel_cases.c:398:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_cases.c:521:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_concave_center(face_atoms, k, probe_pos, concave_center) ^ tessel_cases.c:548:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 25 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c tessel_patches.c tessel_patches.c:14:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_patches_I_II(face_atoms, comp_verts, num_verts, concave_center, cir_radius, inv_transf, ^ tessel_patches.c:45:5: warning: implicit declaration of function 'find_sphere_points' is invalid in C99 [-Wimplicit-function-declaration] find_sphere_points(sph_pts, j, comp_verts[j], atom_ptr[0]); ^ tessel_patches.c:88:3: warning: implicit declaration of function 'find_torus_points' is invalid in C99 [-Wimplicit-function-declaration] find_torus_points(tor_pts, cusp_pts, num_tor_verts, atom_ptr, ^ tessel_patches.c:98:16: warning: implicit declaration of function 'find_order' is invalid in C99 [-Wimplicit-function-declaration] flip_verts = find_order(comp_verts, num_verts, face_atoms); ^ tessel_patches.c:100:3: warning: implicit declaration of function 'gen_torus' is invalid in C99 [-Wimplicit-function-declaration] gen_torus(tor_pts, probe_centers, num_tor_verts, flip_verts, Probe_radius, torus_cusp); ^ tessel_patches.c:105:3: warning: implicit declaration of function 'gen_convex' is invalid in C99 [-Wimplicit-function-declaration] gen_convex(comp_verts + 1, &sph_pts[1], probe_centers, tor_pts[0], num_verts-2, ^ tessel_patches.c:110:3: warning: implicit declaration of function 'gen_concave' is invalid in C99 [-Wimplicit-function-declaration] gen_concave(tor_pts, concave_center, flip_verts, cusp_pts, ^ tessel_patches.c:117:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_patches.c:124:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_patches_III(face_atoms, comp_verts, num_verts, cir_center, cir_radius, ^ tessel_patches.c:154:5: warning: implicit declaration of function 'find_sphere_points' is invalid in C99 [-Wimplicit-function-declaration] find_sphere_points(sph_pts, j, comp_verts[j], atom_ptr[0]); ^ tessel_patches.c:184:3: warning: implicit declaration of function 'find_torus_points' is invalid in C99 [-Wimplicit-function-declaration] find_torus_points(tor_pts, cusp_pts, num_tor_verts, atom_ptr, probe_centers, ^ tessel_patches.c:201:16: warning: implicit declaration of function 'find_order' is invalid in C99 [-Wimplicit-function-declaration] flip_verts = find_order(comp_verts, num_verts, face_atoms); ^ tessel_patches.c:204:3: warning: implicit declaration of function 'gen_torus' is invalid in C99 [-Wimplicit-function-declaration] gen_torus(tor_pts, probe_centers, num_tor_verts, flip_verts, Probe_radius, torus_cusp); ^ tessel_patches.c:206:3: warning: implicit declaration of function 'gen_convex' is invalid in C99 [-Wimplicit-function-declaration] gen_convex(comp_verts, sph_pts, probe_centers, tor_pts[0], ^ tessel_patches.c:214:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_patches.c:220:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_patches_IV(atom_id, comp_verts, num_verts) ^ tessel_patches.c:239:5: warning: implicit declaration of function 'find_sphere_points' is invalid in C99 [-Wimplicit-function-declaration] { find_sphere_points(&(comp_sph_pts[i].vt),0,comp_verts[i], &atoms[atom_id]); ^ tessel_patches.c:249:5: warning: implicit declaration of function 'gen_arc_recurse' is invalid in C99 [-Wimplicit-function-declaration] gen_arc_recurse(&comp_sph_pts[j], &comp_sph_pts[i], sp_points,&k,atom_id, 1); ^ tessel_patches.c:262:3: warning: implicit declaration of function 'find_sphere_points' is invalid in C99 [-Wimplicit-function-declaration] find_sphere_points(&(center.vt), 0, ave_center, &atoms[atom_id]); ^ tessel_patches.c:286:7: warning: implicit declaration of function 'new_gen_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] new_gen_sphere_tris(&sp_points[i+1], &sp_points[i], ¢er, atom_id); ^ tessel_patches.c:294:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_patches.c:300:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_arc_recurse(bp0, bp1, sp_points, j, atom_id, convex) ^ tessel_patches.c:312:5: warning: implicit declaration of function 'find_mid_pt' is invalid in C99 [-Wimplicit-function-declaration] find_mid_pt(&new_bp, bp0, bp1, atom_id); ^ tessel_patches.c:321:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_patches.c:327:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_sphere_points(sph_pts, j, comp_vert, atom_ptr) ^ tessel_patches.c:342:3: warning: implicit declaration of function 'find_ray_sphere_int' is invalid in C99 [-Wimplicit-function-declaration] find_ray_sphere_int(sph_pts[j].Coord,tempv,ray_dir,atom_ptr->center,ext_rad); ^ tessel_patches.c:351:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_patches.c:360:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_torus_points(tor_pts, mid_cusp_pts, num_pts, atom_ptr, probe_centers, ^ tessel_patches.c:421:1: warning: non-void function does not return a value [-Wreturn-type] } ^ 29 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c tessel_convex.c tessel_convex.c:18:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_convex(comp_verts, p, probe_centers, q, num_p, num_q, same_order, flip, atom_id, full_torus) ^ tessel_convex.c:67:3: warning: implicit declaration of function 'initialize_r' is invalid in C99 [-Wimplicit-function-declaration] initialize_r(big_p, sph_side, q, num_p, &num_sph_side, num_q, same_order, atom_id, full_torus); ^ tessel_convex.c:82:5: warning: implicit declaration of function 'get_full_torus_mesh' is invalid in C99 [-Wimplicit-function-declaration] get_full_torus_mesh(sph_side, num_sph_side, torus_side, num_q, ^ tessel_convex.c:85:5: warning: implicit declaration of function 'get_partial_torus_mesh' is invalid in C99 [-Wimplicit-function-declaration] get_partial_torus_mesh(sph_side, num_sph_side, torus_side, num_q, ^ tessel_convex.c:90:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_convex.c:97:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] initialize_r(big_p, r, q, num_p, num_r, num_q, same_order, atom_id, full_torus) ^ tessel_convex.c:112:7: warning: implicit declaration of function 'gen_arc_recurse' is invalid in C99 [-Wimplicit-function-declaration] gen_arc_recurse(&big_p[i], &big_p[i+1], r, &j, atom_id, 1); ^ tessel_convex.c:117:7: warning: implicit declaration of function 'gen_arc_recurse' is invalid in C99 [-Wimplicit-function-declaration] gen_arc_recurse(&big_p[i], &big_p[i-1], r, &j, atom_id, 1); ^ tessel_convex.c:130:5: warning: implicit declaration of function 'find_plane_eq' is invalid in C99 [-Wimplicit-function-declaration] find_plane_eq(q[0].Coord, q[1].Coord, q[2].Coord, plane_eq); ^ tessel_convex.c:158:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_convex.c:166:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_linear_recurse(p0, p1, r, j, center, radius, convex) ^ tessel_convex.c:196:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_convex.c:202:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_flipped_sphere_tris(p0, p1, p2, atom_id, flip) ^ tessel_convex.c:208:5: warning: implicit declaration of function 'new_gen_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] new_gen_sphere_tris(p0, p1, p2, atom_id); ^ tessel_convex.c:211:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_convex.c:217:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] new_gen_sphere_tris(bp0, bp1, bp2, atom_id) ^ tessel_convex.c:238:7: warning: implicit declaration of function 'multi_gen_spherical_recurse' is invalid in C99 [-Wimplicit-function-declaration] multi_gen_spherical_recurse(bp0, bp1, &mid_pt, atom_id); ^ tessel_convex.c:243:7: warning: implicit declaration of function 'multi_gen_spherical_recurse' is invalid in C99 [-Wimplicit-function-declaration] multi_gen_spherical_recurse(bp0, bp1, bp2, atom_id); ^ tessel_convex.c:245:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_convex.c:252:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] multi_gen_spherical_recurse(pt0, pt1, pt2, atom_id) ^ tessel_convex.c:275:5: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_tris(&(tri_pt[0]->vt), &(tri_pt[1]->vt), &(tri_pt[2]->vt)); ^ tessel_convex.c:278:30: warning: implicit declaration of function 'find_mid_pt' is invalid in C99 [-Wimplicit-function-declaration] { if(valid_point&flags[0]) find_mid_pt(&mid_pt[0],tri_pt[0],tri_pt[1],atom_id); ^ tessel_convex.c:309:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_convex.c:314:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] find_mid_pt(mid_pt, tri_pt0, tri_pt1, atom_id) ^ tessel_convex.c:352:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_convex.c:359:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_tris(pt0, pt1, pt2) ^ tessel_convex.c:362:4: warning: implicit declaration of function 'add_tri' is invalid in C99 [-Wimplicit-function-declaration] add_tri(pt0, pt1, pt2, Current_atom); ^ tessel_convex.c:363:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_convex.c:369:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] add_tri(pt0, pt1, pt2, atype) ^ tessel_convex.c:376:5: warning: implicit declaration of function 'write_archive_tri' is invalid in C99 [-Wimplicit-function-declaration] write_archive_tri(pt0, pt1, pt2, atype); ^ tessel_convex.c:394:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ 31 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c tessel_concave.c tessel_concave.c:18:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_concave(tor_pts, center, flip_verts, cusp_pts, probe, n, cur_torus, torus_cusp) ^ tessel_concave.c:42:5: warning: implicit declaration of function 'gen_cuspy_concave_tri' is invalid in C99 [-Wimplicit-function-declaration] gen_cuspy_concave_tri(tor_pts[0][0],tor_pts[1][0],center[0], flip_verts, probe[0], ^ tessel_concave.c:51:5: warning: implicit declaration of function 'gen_concave_tri' is invalid in C99 [-Wimplicit-function-declaration] { gen_concave_tri(tor_pts[0][0],tor_pts[1][0],center[0], flip_verts, probe[0], ^ tessel_concave.c:62:5: warning: implicit declaration of function 'gen_cuspy_concave_tri' is invalid in C99 [-Wimplicit-function-declaration] gen_cuspy_concave_tri(tor_pts[1][n-1],tor_pts[0][n-1],center[1],flip_verts,probe[1], ^ tessel_concave.c:71:5: warning: implicit declaration of function 'gen_concave_tri' is invalid in C99 [-Wimplicit-function-declaration] { gen_concave_tri(tor_pts[1][n-1],tor_pts[0][n-1],center[1],flip_verts,probe[1], ^ tessel_concave.c:79:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_concave.c:85:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_concave_tri(point0, point1, point2, flip, center, radius) ^ tessel_concave.c:97:5: warning: implicit declaration of function 'gen_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_sphere_tris(&point2, &point1, &point0, fcenter, radius, 0); ^ tessel_concave.c:100:5: warning: implicit declaration of function 'gen_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_sphere_tris(&point0, &point1, &point2, fcenter, radius, 0); ^ tessel_concave.c:101:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_concave.c:108:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_cuspy_concave_tri(point0, point1, point2, flip, center, radius, plane_eq) ^ tessel_concave.c:127:5: warning: implicit declaration of function 'gen_cuspy_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_cuspy_sphere_tris(point2, point1, point0, fcenter, radius, plane_eq); ^ tessel_concave.c:130:5: warning: implicit declaration of function 'gen_cuspy_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_cuspy_sphere_tris(point0, point1, point2, fcenter, radius, plane_eq); ^ tessel_concave.c:132:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_concave.c:139:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_cuspy_sphere_tris(pt0, pt1, pt2, center, radius, plane_eq) ^ tessel_concave.c:156:3: warning: implicit declaration of function 'gen_cuspy_spherical_recurse' is invalid in C99 [-Wimplicit-function-declaration] gen_cuspy_spherical_recurse(points, sq_side_len, center, plane_eq, radius); ^ tessel_concave.c:157:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_concave.c:164:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_cuspy_spherical_recurse(points, sq_side_len, center, plane_eq, radius) ^ tessel_concave.c:204:7: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_tris(points[0], points[1], points[2]); ^ tessel_concave.c:213:5: warning: implicit declaration of function 'find_line_seg_plane_int' is invalid in C99 [-Wimplicit-function-declaration] find_line_seg_plane_int(new_point1.Coord,points[i]->Coord,points[j]->Coord,plane_eq->coeff); ^ tessel_concave.c:227:7: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_tris(points[i], &new_point1, &new_point2); ^ tessel_concave.c:259:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ tessel_concave.c:265:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_sphere_tris(pt0, pt1, pt2, center, radius, convex) ^ tessel_concave.c:281:3: warning: implicit declaration of function 'gen_spherical_recurse' is invalid in C99 [-Wimplicit-function-declaration] gen_spherical_recurse(points, sq_side_len, center, radius, convex); ^ tessel_concave.c:282:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_concave.c:288:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_spherical_recurse(points, sq_side_len, center, radius, convex) ^ tessel_concave.c:341:5: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] gen_tris(points[0], points[1], points[2]); ^ tessel_concave.c:342:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ 28 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. -c tessel_torus.c tessel_torus.c:22:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] get_full_torus_mesh(sph, num_sph, torus, num_torus, flip, atom_id) ^ tessel_torus.c:41:3: warning: implicit declaration of function 'find_plane_eq' is invalid in C99 [-Wimplicit-function-declaration] find_plane_eq(torus[0].vt.Coord,torus[1].vt.Coord,torus[2].vt.Coord,plane_eq); ^ tessel_torus.c:52:9: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&torus[t_index], &sph[next_s_index], &sph[s_index], atom_id, flip); ^ tessel_torus.c:56:9: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&sph[s_index], &torus[t_index], &torus[next_t_index], atom_id, flip); ^ tessel_torus.c:74:9: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&sph[s_index], &torus[t_index], &torus[next_t_index], atom_id, flip); ^ tessel_torus.c:87:9: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&torus[t_index], &sph[next_s_index], &sph[s_index], atom_id, flip); ^ tessel_torus.c:95:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_torus.c:106:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] get_partial_torus_mesh(sph, num_sph, torus, num_torus, flip, atom_id) ^ tessel_torus.c:117:4: warning: implicit declaration of function 'find_plane_eq' is invalid in C99 [-Wimplicit-function-declaration] find_plane_eq(torus[0].vt.Coord,torus[1].vt.Coord,torus[2].vt.Coord,plane_eq); ^ tessel_torus.c:127:10: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&torus[t_index], &sph[next_s_index], &sph[s_index], atom_id, flip); ^ tessel_torus.c:131:10: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&sph[s_index], &torus[t_index], &torus[next_t_index], atom_id, flip); ^ tessel_torus.c:140:8: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&sph[s_index], &torus[i], &torus[i+1], atom_id, flip); ^ tessel_torus.c:145:8: warning: implicit declaration of function 'gen_flipped_sphere_tris' is invalid in C99 [-Wimplicit-function-declaration] { gen_flipped_sphere_tris(&torus[t_index], &sph[i+1], &sph[i], atom_id, flip); ^ tessel_torus.c:148:1: warning: non-void function does not return a value [-Wreturn-type] } ^ tessel_torus.c:154:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] gen_torus(tor_pts, probe_centers, num_verts, flip, radius, cusp) ^ tessel_torus.c:190:3: warning: implicit declaration of function 'gen_linear_recurse' is invalid in C99 [-Wimplicit-function-declaration] gen_linear_recurse(tor_pts[0][0],tor_pts[1][0],r[0],&j,fcenter,fradius,0); ^ tessel_torus.c:209:17: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] { if (flip) gen_tris(&r[l][m], &r[k][m+1], &r[k][m]); ^ tessel_torus.c:219:19: warning: implicit declaration of function 'gen_tris' is invalid in C99 [-Wimplicit-function-declaration] { if (flip) gen_tris(&r[l][m], &r[l][m+1], &r[k][j-1]); ^ tessel_torus.c:230:1: warning: non-void function does not return a value in all control paths [-Wreturn-type] } ^ 19 warnings generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -I. surf.o io.o compute.o dual.o utils.o lp.o chull.o tessel_cases.o tessel_patches.o tessel_convex.o tessel_concave.o tessel_torus.o -o surf -lm gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf' /bin/mv /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf/surf /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/surf/surf_FREEBSDAMD64 /usr/bin/env EXPATINC=-I/usr/local/include EXPATLIB=-L/usr/local/lib EXPATLDFLAGS=-lexpat EXPATDYNAMIC=1 NETCDFINC=-I/usr/local/include NETCDFLIB=-L/usr/local/lib NETCDFLDFLAGS=-lnetcdf SQLITEINC=-I/usr/local/include SQLITELIB=-L/usr/local/lib SQLITELDFLAGS=-lsqlite3 SQLITEDYNAMIC=1 TCLLIB=-L/usr/local/lib TCLINC=-I/usr/local/include/tcl8.6 TCLLDFLAGS=-ltcl86 TKLDFLAGS="-ltk86 -lX11" PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/vmd/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/vmd/work/.cache HOME=/wrkdirs/usr/ports/science/vmd/work TMPDIR="/tmp" PATH=/ccache/libexec/ccache:/wrkdirs/usr/ports/science/vmd/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/vmd/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CCACHE_DIR="/root/.ccache" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" gmake -C /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride gmake[1]: Entering directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride' cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c stride.c -o stride.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c splitstr.c -o splitstr.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c rdpdb.c -o rdpdb.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c initchn.c -o initchn.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c geometry.c -o geometry.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c thr2one.c -o thr2one.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c one2thr.c -o one2thr.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c filename.c -o filename.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c tolostr.c -o tolostr.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c strutil.c -o strutil.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c place_h.c -o place_h.o place_h.c:19:2: warning: ignoring return value of function declared with pure attribute [-Wunused-value] strcmp(r->AtomType[H],"H"); ^~~~~~ ~~~~~~~~~~~~~~~~~~ 1 warning generated. cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c hbenergy.c -o hbenergy.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c memory.c -o memory.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c helix.c -o helix.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c sheet.c -o sheet.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c rdmap.c -o rdmap.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c phipsi.c -o phipsi.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c command.c -o command.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c molscr.c -o molscr.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c die.c -o die.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c hydrbond.c -o hydrbond.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c mergepat.c -o mergepat.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c fillasn.c -o fillasn.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c escape.c -o escape.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_jrnl.c -o p_jrnl.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_rem.c -o p_rem.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_atom.c -o p_atom.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_helix.c -o p_helix.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_sheet.c -o p_sheet.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_turn.c -o p_turn.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_ssbond.c -o p_ssbond.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_expdta.c -o p_expdta.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_model.c -o p_model.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_compnd.c -o p_compnd.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c report.c -o report.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c nsc.c -o nsc.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c area.c -o area.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c ssbond.c -o ssbond.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c chk_res.c -o chk_res.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c chk_atom.c -o chk_atom.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c turn.c -o turn.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c pdbasn.c -o pdbasn.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c dssp.c -o dssp.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c outseq.c -o outseq.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c chkchain.c -o chkchain.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c elem.c -o elem.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c measure.c -o measure.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c asngener.c -o asngener.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c p_endmdl.c -o p_endmdl.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c stred.c -o stred.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c contact_order.c -o contact_order.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -c contact_map.c -o contact_map.o cc -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 stride.o splitstr.o rdpdb.o initchn.o geometry.o thr2one.o one2thr.o filename.o tolostr.o strutil.o place_h.o hbenergy.o memory.o helix.o sheet.o rdmap.o phipsi.o command.o molscr.o die.o hydrbond.o mergepat.o fillasn.o escape.o p_jrnl.o p_rem.o p_atom.o p_helix.o p_sheet.o p_turn.o p_ssbond.o p_expdta.o p_model.o p_compnd.o report.o nsc.o area.o ssbond.o chk_res.o chk_atom.o turn.o pdbasn.o dssp.o outseq.o chkchain.o elem.o measure.o asngener.o p_endmdl.o stred.o contact_order.o contact_map.o -lm -o ./stride gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride' /bin/mv /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride/stride /wrkdirs/usr/ports/science/vmd/work/vmd-1.9.4a57/lib/stride/stride_FREEBSDAMD64 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> vmd-1.9.4_1 depends on package: py39-numpy>=1.16,1<1.26,1 - found ===> vmd-1.9.4_1 depends on file: /usr/local/bin/python3.9 - found ===> vmd-1.9.4_1 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for vmd-1.9.4_1 ===> Generating temporary packing list if [ ! -d "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ]; then \ mkdir -p "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; \ fi ; \ if [ ! -d "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/bin" ]; then \ mkdir -p "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/bin" ; \ fi ; \ if [ ! -d "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/doc ]; then \ mkdir -p "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/doc; \ fi cp ../Announcement "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" cp ../README "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" cp ../LICENSE "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" cp ../doc/ug.pdf "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/doc if [ -f /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/vmd_FREEBSDAMD64 ]; then \ mv -f "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/vmd_FREEBSDAMD64" "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/OLD_vmd_FREEBSDAMD64" ; rm -f "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/OLD_vmd_FREEBSDAMD64" ; fi cp ../FREEBSDAMD64/vmd_FREEBSDAMD64 "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" if [ -d "../lib/redistrib/lib_FREEBSDAMD64" ]; then \ cd ../lib/redistrib/lib_FREEBSDAMD64; tar -cf - ./* | \ (cd "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -) \ fi ; cp ../lib/stride/stride_FREEBSDAMD64 ../lib/surf/surf_FREEBSDAMD64 ../lib/tachyon/tachyon_FREEBSDAMD64 "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" cd ..; tar -cf - scripts | \ (cd "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -) cd ../lib; tar -cf - scripts | \ (cd "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -) cd ..; tar -cf - python | \ (cd "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/scripts ; tar -xf -) cd ..; tar -cf - plugins | \ (cd "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -) cd ..; tar -cf - shaders | \ (cd "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -) if [ -f ../FREEBSDAMD64/OptiXShaders.ptx ]; then \ cp ../FREEBSDAMD64/OptiXShaders.ptx "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/shaders"; \ fi; cp ../data/.vmdrc ../data/.vmdsensors ../data/vmd_completion.dat "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" cd ../bin ; \ if [ -f run_vmd_tmp ]; then rm -f run_vmd_tmp; fi ; \ if [ ! -x "/bin/csh" ]; then \ echo "Info: /bin/csh shell not found, installing Bourne shell startup script instead" ; \ echo '#!/bin/sh' >> run_vmd_tmp ; \ echo 'defaultvmddir="/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"' >> run_vmd_tmp ; \ echo 'vmdbasename=vmd' >> run_vmd_tmp ; \ cat vmd.sh >> run_vmd_tmp ; \ else \ echo '#!/bin/csh' >> run_vmd_tmp ; \ echo 'set defaultvmddir="/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"' >> run_vmd_tmp ; \ echo 'set vmdbasename=vmd' >> run_vmd_tmp ; \ cat vmd.csh >> run_vmd_tmp ; \ fi ; \ chmod +x run_vmd_tmp ; \ cp run_vmd_tmp "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/bin"/vmd ; \ rm -f run_vmd_tmp echo Make sure "/wrkdirs/usr/ports/science/vmd/work/stage/usr/local/bin"/vmd is in your path. Make sure /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/bin/vmd is in your path. echo "VMD installation complete. Enjoy!" VMD installation complete. Enjoy! /usr/bin/sed -i.bak -i '' -e 's|/wrkdirs/usr/ports/science/vmd/work/stage||g' /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/bin/vmd /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/*FREEBSDAMD64 /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/molfile/*.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/autopsf1.8/psfcheck.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/mutator1.5/libalchemify.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/pmepot1.0/libpmepot.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/psfgen2.0/libpsfgen.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/rnaview1.1/rnaview /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/signalproc1.1/specden.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/signalproc1.1/fftcmds.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/volutil1.3/volutil /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/clustalw1.1/clustalw /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/q /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/seqqr /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/structqr /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/qpair /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/rmsd /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/percid /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/phylotree1.2/upgmaclu /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/stamp1.2/stamp /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/bossconvert1.0/Topology /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/bin/catdcd5.2/catdcd /usr/bin/strip /wrkdirs/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/bin/cionize1.0/cionize ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===== env: 'PKG_NOTES=build_timestamp ports_top_git_hash ports_top_checkout_unclean port_git_hash port_checkout_unclean built_by' 'PKG_NOTE_build_timestamp=2024-04-01T16:40:59+0000' 'PKG_NOTE_ports_top_git_hash=c2c35d895e' 'PKG_NOTE_ports_top_checkout_unclean=yes' 'PKG_NOTE_port_git_hash=8d3e020ed0' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.99.20240122_1' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for vmd-1.9.4_1 ===> Building vmd-1.9.4_1 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for vmd-1.9.4_1 build of science/vmd | vmd-1.9.4_1 ended at Mon Apr 1 20:16:13 BST 2024 build time: 02:35:14