Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/m/molmodel/molmodel_3.0.113.gd05a5b6-2_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/molmodel-3.0.113.gd05a5b6-2xxe4d1nt/molmodel_3.0.113.gd05a5b6-2_amd64.buildinfo Get source package info: molmodel=3.0.113.gd05a5b6-2 Source URL: http://snapshot.notset.fr/mr/package/molmodel/3.0.113.gd05a5b6-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.3 autopoint=0.21-6 autotools-dev=20220109.1 base-files=12.2 base-passwd=3.5.52 bash=5.1-6.1 binutils=2.38-4 binutils-common=2.38-4 binutils-x86-64-linux-gnu=2.38-4 bsdextrautils=2.38-4 bsdutils=1:2.38-4 build-essential=12.9 bzip2=1.0.8-5 cmake=3.23.2-1 cmake-data=3.23.2-1 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.3.0-3 dash=0.5.11+git20210903+057cd650a4ed-8 debconf=1.5.79 debhelper=13.7.1 debianutils=5.7-0.2 dh-autoreconf=20 dh-elpa-helper=2.0.10 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 dpkg=1.21.8 dpkg-dev=1.21.8 dwz=0.14-1 emacsen-common=3.0.4 file=1:5.41-4 findutils=4.9.0-3 freeglut3=2.8.1-6 freeglut3-dev=2.8.1-6 g++=4:11.2.0-2 g++-11=11.3.0-3 gcc=4:11.2.0-2 gcc-11=11.3.0-3 gcc-11-base=11.3.0-3 gcc-12-base=12.1.0-2 gemmi-dev=0.5.4+ds-1 gettext=0.21-6 gettext-base=0.21-6 grep=3.7-1 groff-base=1.22.4-8 gzip=1.12-1 hostname=3.23 init-system-helpers=1.63 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libarchive-zip-perl=1.68-1 libarchive13=3.6.0-1 libasan6=11.3.0-3 libatomic1=12.1.0-2 libattr1=1:2.5.1-1 libaudit-common=1:3.0.7-1 libaudit1=1:3.0.7-1+b1 libbinutils=2.38-4 libblas-dev=3.10.1-2 libblas3=3.10.1-2 libblkid1=2.38-4 libbrotli1=1.0.9-2+b3 libbsd0=0.11.6-1 libbz2-1.0=1.0.8-5 libc-bin=2.33-7 libc-dev-bin=2.33-7 libc6=2.33-7 libc6-dev=2.33-7 libcap-ng0=0.7.9-2.2+b2 libcap2=1:2.44-1 libcc1-0=12.1.0-2 libcom-err2=1.46.5-2 libcrypt-dev=1:4.4.27-1.1 libcrypt1=1:4.4.27-1.1 libctf-nobfd0=2.38-4 libctf0=2.38-4 libcurl4=7.83.1-1+b1 libdb5.3=5.3.28+dfsg1-0.9 libdebconfclient0=0.262 libdebhelper-perl=13.7.1 libdpkg-perl=1.21.8 libdrm-amdgpu1=2.4.110-1 libdrm-common=2.4.110-1 libdrm-nouveau2=2.4.110-1 libdrm-radeon1=2.4.110-1 libdrm2=2.4.110-1 libedit2=3.1-20210910-1 libegl-dev=1.4.0-1 libegl-mesa0=22.0.4-1 libegl1=1.4.0-1 libelf1=0.187-1 libexpat1=2.4.8-1 libffi8=3.4.2-4 libfile-stripnondeterminism-perl=1.13.0-1 libgbm1=22.0.4-1 libgcc-11-dev=11.3.0-3 libgcc-s1=12.1.0-2 libgcrypt20=1.10.1-2 libgdbm-compat4=1.23-1 libgdbm6=1.23-1 libgfortran5=12.1.0-2 libgl-dev=1.4.0-1 libgl1=1.4.0-1 libgl1-mesa-dev=22.0.4-1 libgl1-mesa-dri=22.0.4-1 libglapi-mesa=22.0.4-1 libgles-dev=1.4.0-1 libgles1=1.4.0-1 libgles2=1.4.0-1 libglu1-mesa=9.0.2-1 libglu1-mesa-dev=9.0.2-1 libglvnd-core-dev=1.4.0-1 libglvnd-dev=1.4.0-1 libglvnd0=1.4.0-1 libglx-dev=1.4.0-1 libglx-mesa0=22.0.4-1 libglx0=1.4.0-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.4-2 libgomp1=12.1.0-2 libgpg-error0=1.45-2 libgssapi-krb5-2=1.19.2-2+b2 libhogweed6=3.7.3-1 libice-dev=2:1.0.10-1 libice6=2:1.0.10-1 libicu71=71.1-3 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=12.1.0-2 libjsoncpp25=1.9.5-4 libk5crypto3=1.19.2-2+b2 libkeyutils1=1.6.1-3 libkrb5-3=1.19.2-2+b2 libkrb5support0=1.19.2-2+b2 liblapack-dev=3.10.1-2 liblapack3=3.10.1-2 libldap-2.5-0=2.5.12+dfsg-2 libllvm14=1:14.0.4-1 liblsan0=12.1.0-2 liblz4-1=1.9.3-2 liblzma5=5.2.5-2.1 libmagic-mgc=1:5.41-4 libmagic1=1:5.41-4 libmd0=1.0.4-1 libmmdb2-0=2.0.22-1 libmmdb2-dev=2.0.22-1 libmount1=2.38-4 libmpc3=1.2.1-2 libmpfr6=4.1.0-3 libncurses6=6.3+20220423-2 libncursesw6=6.3+20220423-2 libnettle8=3.7.3-1 libnghttp2-14=1.47.0-1+b1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libopengl-dev=1.4.0-1 libopengl0=1.4.0-1 libp11-kit0=0.24.1-1 libpam-modules=1.4.0-13 libpam-modules-bin=1.4.0-13 libpam-runtime=1.4.0-13 libpam0g=1.4.0-13 libpcre2-8-0=10.40-1 libpcre3=2:8.39-14 libperl5.34=5.34.0-4 libpipeline1=1.5.6-1 libprocps8=2:3.3.17-7+b1 libpsl5=0.21.0-1.2 libpthread-stubs0-dev=0.4-1 libquadmath0=12.1.0-2 librhash0=1.4.2-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.28+dfsg-6 libsasl2-modules-db=2.1.28+dfsg-6 libseccomp2=2.5.4-1 libselinux1=3.3-1+b2 libsensors-config=1:3.6.0-7 libsensors5=1:3.6.0-7 libsigsegv2=2.14-1 libsimbody-dev=3.6.1+dfsg-7 libsimbody3.6=3.6.1+dfsg-7 libsm-dev=2:1.2.3-1 libsm6=2:1.2.3-1 libsmartcols1=2.38-4 libssh2-1=1.10.0-3+b1 libssl3=3.0.3-5 libstdc++-11-dev=11.3.0-3 libstdc++6=12.1.0-2 libsub-override-perl=0.09-2 libsystemd0=251.1-1 libtasn1-6=4.18.0-4 libtinfo6=6.3+20220423-2 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.7-4 libtsan0=11.3.0-3 libubsan1=12.1.0-2 libuchardet0=0.0.7-1 libudev1=251.1-1 libunistring2=1.0-1 libuuid1=2.38-4 libuv1=1.44.1-2 libvulkan1=1.3.211.0-1 libwayland-client0=1.20.0-1 libwayland-server0=1.20.0-1 libx11-6=2:1.7.5-1 libx11-data=2:1.7.5-1 libx11-dev=2:1.7.5-1 libx11-xcb1=2:1.7.5-1 libxau-dev=1:1.0.9-1 libxau6=1:1.0.9-1 libxcb-dri2-0=1.14-3 libxcb-dri3-0=1.14-3 libxcb-glx0=1.14-3 libxcb-present0=1.14-3 libxcb-shm0=1.14-3 libxcb-sync1=1.14-3 libxcb-xfixes0=1.14-3 libxcb1=1.14-3 libxcb1-dev=1.14-3 libxdmcp-dev=1:1.1.2-3 libxdmcp6=1:1.1.2-3 libxext-dev=2:1.3.4-1 libxext6=2:1.3.4-1 libxfixes-dev=1:6.0.0-1 libxfixes3=1:6.0.0-1 libxi-dev=2:1.8-1 libxi6=2:1.8-1 libxml2=2.9.14+dfsg-1 libxmu-dev=2:1.1.3-3 libxmu-headers=2:1.1.3-3 libxmu6=2:1.1.3-3 libxshmfence1=1.3-1 libxt-dev=1:1.2.1-1 libxt6=1:1.2.1-1 libxxf86vm1=1:1.1.4-1+b2 libz3-4=4.8.12-1+b1 libzstd1=1.5.2+dfsg-1 linux-libc-dev=5.17.11-1 login=1:4.11.1+dfsg1-2 lsb-base=11.2 m4=1.4.18-5 make=4.3-4.1 man-db=2.10.2-1 mawk=1.3.4.20200120-3+b1 ncurses-base=6.3+20220423-2 ncurses-bin=6.3+20220423-2 patch=2.7.6-7 perl=5.34.0-4 perl-base=5.34.0-4 perl-modules-5.34=5.34.0-4 po-debconf=1.0.21+nmu1 procps=2:3.3.17-7+b1 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.03-1 tao-pegtl-dev=3.2.5-2 tar=1.34+dfsg-1 util-linux=2.38-4 util-linux-extra=2.38-4 x11-common=1:7.7+23 x11proto-dev=2022.1-1 xorg-sgml-doctools=1:1.11-1.1 xtrans-dev=1.4.0-1 xz-utils=5.2.5-2.1 zlib1g=1:1.2.11.dfsg-4 zlib1g-dev=1:1.2.11.dfsg-4 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220604T034817Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220604T034817Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220531T150835Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d molmodel=3.0.113.gd05a5b6-2 && mkdir -p /build/molmodel-zVWVFN && dpkg-source --no-check -x /*.dsc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 && chown -R builduser:builduser /build/molmodel-zVWVFN" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1653916122" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/molmodel-zVWVFN /tmp/molmodel-3.0.113.gd05a5b6-2xxe4d1nt bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220531T150835Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.DKwlFNUoop as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.DKwlFNUoop Reading package lists... Building dependency tree... util-linux is already the newest version (2.38-4). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 136 kB of archives. After this operation, 401 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220531T150835Z unstable/main amd64 libfakeroot amd64 1.29-1 [48.5 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220531T150835Z unstable/main amd64 fakeroot amd64 1.29-1 [87.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 136 kB in 0s (1055 kB/s) Selecting previously unselected package libfakeroot:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4629 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.29-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.29-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.29-1_amd64.deb ... Unpacking fakeroot (1.29-1) ... Setting up libfakeroot:amd64 (1.29-1) ... Setting up fakeroot (1.29-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-7) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220604T034817Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220604T034817Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220531T150835Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.DKwlFNUoop Get:1 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm InRelease [130 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20220531T150835Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main Sources [12.0 MB] Get:4 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main amd64 Packages [11.5 MB] Fetched 23.7 MB in 19s (1222 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.DKwlFNUoop I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d molmodel=3.0.113.gd05a5b6-2 && mkdir -p /build/molmodel-zVWVFN && dpkg-source --no-check -x /*.dsc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 && chown -R builduser:builduser /build/molmodel-zVWVFN"' exec /tmp/mmdebstrap.DKwlFNUoop Reading package lists... NOTICE: 'molmodel' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/debichem-team/molmodel.git Please use: git clone https://salsa.debian.org/debichem-team/molmodel.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 8560 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main molmodel 3.0.113.gd05a5b6-2 (dsc) [2182 B] Get:2 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main molmodel 3.0.113.gd05a5b6-2 (tar) [8555 kB] Get:3 http://snapshot.notset.fr/archive/debian/20220604T034817Z bookworm/main molmodel 3.0.113.gd05a5b6-2 (diff) [3116 B] Fetched 8560 kB in 7s (1284 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'molmodel_3.0.113.gd05a5b6-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting molmodel in /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 dpkg-source: info: unpacking molmodel_3.0.113.gd05a5b6.orig.tar.xz dpkg-source: info: unpacking molmodel_3.0.113.gd05a5b6-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying drop-CMAKE_CXX_STANDARD.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1653916122" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.DKwlFNUoop dpkg-buildpackage: info: source package molmodel dpkg-buildpackage: info: source version 3.0.113.gd05a5b6-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6' dh_auto_configure -- -DBUILD_EXAMPLES=OFF cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_EXAMPLES=OFF .. CMake Deprecation Warning at CMakeLists.txt:31 (CMAKE_MINIMUM_REQUIRED): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is GNU 11.3.0 -- The CXX compiler identification is GNU 11.3.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Could NOT find OpenMM (missing: OpenMM_INCLUDE_DIR OpenMM_LIBRARIES) CMake Deprecation Warning at cmake_modules/FindSimbody.cmake:74 (cmake_minimum_required): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. Call Stack (most recent call first): CMakeLists.txt:169 (find_package) -- Could not find 'svnversion' executable; 'about' will be wrong. (Cygwin provides one on Windows.) -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6' dh_auto_build -a cd obj-x86_64-linux-gnu && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 -B/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/CMakeFiles /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f sharedTarget/CMakeFiles/SimTKmolmodel.dir/build.make sharedTarget/CMakeFiles/SimTKmolmodel.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/sharedTarget /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget/CMakeFiles/SimTKmolmodel.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f sharedTarget/CMakeFiles/SimTKmolmodel.dir/build.make sharedTarget/CMakeFiles/SimTKmolmodel.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o [ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/About.cpp cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/AtomSubsystem.cpp [ 2%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o [ 3%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o [ 4%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o [ 5%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/Biotype.cpp cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/BondGeometry.cpp [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/Compound.cpp cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/CompoundSystem.cpp cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/DuMMForceFieldSubsystem.cpp [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystemRep.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY 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sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o [ 8%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/MolecularMechanicsSystem.cpp cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/Element.cpp [ 9%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/PDBReader.cpp [ 10%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/Pdb.cpp [ 10%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/PeriodicVmdReporter.cpp [ 11%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Representation.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Representation.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/Representation.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/Representation.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/Representation.cpp [ 12%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/RiboseMobilizer.cpp [ 13%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/TinkerAmber99.cpp [ 14%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/VanderWallSphere.cpp [ 15%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/VelocityRescalingThermostat.cpp [ 15%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/VmdConnection.cpp [ 16%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/CpuImplicitSolvent.cpp [ 17%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/CpuObc.cpp [ 18%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/ImplicitSolventParameters.cpp [ 19%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/ObcParameters.cpp [ 19%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/SimTKOpenMMCommon.cpp [ 20%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/SimTKOpenMMLog.cpp [ 21%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/SimTKOpenMMUtilities.cpp [ 22%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/gbsa/cpuObcInterface.cpp [ 23%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/imd.cpp [ 24%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -fPIC -MD -MT sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.cpp.o -MF CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.cpp.o.d -o CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src/vmdsock.cpp [ 24%] Linking CXX shared library ../libSimTKmolmodel.so cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimTKmolmodel.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -Wl,-z,relro -shared -Wl,-soname,libSimTKmolmodel.so.3.0 -o ../libSimTKmolmodel.so.3.0 CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystemRep.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/Representation.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.cpp.o /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 -lz /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/cmake -E cmake_symlink_library ../libSimTKmolmodel.so.3.0 ../libSimTKmolmodel.so.3.0 ../libSimTKmolmodel.so make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 24%] Built target SimTKmolmodel make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/depend make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/depend make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestDihedrals2.dir/build.make tests/CMakeFiles/TestDihedrals2.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestDihedrals2.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/depend make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestEthane.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/build make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/build make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/build [ 25%] Building CXX object tests/CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o -MF CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o.d -o CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestAtomTargetLocations.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/build [ 25%] Building CXX object tests/CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/build cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o -MF CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o.d -o CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestBiotypeSelfCode.cpp [ 26%] Building CXX object tests/CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o -MF CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o.d -o CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestBodyIds.cpp make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/build make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 27%] Building CXX object tests/CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/DependInfo.cmake --color= cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o -MF CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o.d -o CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestCompoundTransforms.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestDihedrals2.dir/build.make tests/CMakeFiles/TestDihedrals2.dir/build [ 28%] Building CXX object tests/CMakeFiles/TestEthane.dir/TestEthane.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestEthane.dir/TestEthane.cpp.o -MF CMakeFiles/TestEthane.dir/TestEthane.cpp.o.d -o CMakeFiles/TestEthane.dir/TestEthane.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestEthane.cpp make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/build [ 29%] Building CXX object tests/CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o -MF CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o.d -o CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestBiopolymer.cpp [ 30%] Building CXX object tests/CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/build cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o -MF CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o.d -o CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestDuMMForces.cpp [ 30%] Building CXX object tests/CMakeFiles/TestDihedrals2.dir/TestDihedrals2.cpp.o make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestDihedrals2.dir/TestDihedrals2.cpp.o -MF CMakeFiles/TestDihedrals2.dir/TestDihedrals2.cpp.o.d -o CMakeFiles/TestDihedrals2.dir/TestDihedrals2.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestDihedrals2.cpp [ 31%] Building CXX object tests/CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o -MF CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o.d -o CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestForeignBodyIds.cpp [ 32%] Building CXX object tests/CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o -MF CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o.d -o CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestFitMagnesiums.cpp [ 33%] Linking CXX executable ../TestDihedrals2 cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestDihedrals2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestDihedrals2.dir/TestDihedrals2.cpp.o -o ../TestDihedrals2 -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 33%] Built target TestDihedrals2 make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGbsa.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 34%] Building CXX object tests/CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o -MF CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o.d -o CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestGbsa.cpp [ 35%] Linking CXX executable ../TestCompoundTransforms cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestCompoundTransforms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o -o ../TestCompoundTransforms -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 35%] Built target TestCompoundTransforms make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 36%] Building CXX object tests/CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o -MF CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o.d -o CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestGetAtomName.cpp [ 37%] Linking CXX executable ../TestBiotypeSelfCode cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBiotypeSelfCode.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o -o ../TestBiotypeSelfCode -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 37%] Built target TestBiotypeSelfCode make -f tests/CMakeFiles/TestLoadPdb.dir/build.make tests/CMakeFiles/TestLoadPdb.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadPdb.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestLoadPdb.dir/build.make tests/CMakeFiles/TestLoadPdb.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 38%] Building CXX object tests/CMakeFiles/TestLoadPdb.dir/TestLoadPdb.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestLoadPdb.dir/TestLoadPdb.cpp.o -MF CMakeFiles/TestLoadPdb.dir/TestLoadPdb.cpp.o.d -o CMakeFiles/TestLoadPdb.dir/TestLoadPdb.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestLoadPdb.cpp [ 39%] Linking CXX executable ../TestBiopolymer cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBiopolymer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o -o ../TestBiopolymer -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 39%] Linking CXX executable ../TestForeignBodyIds cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestForeignBodyIds.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o -o ../TestForeignBodyIds -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 40%] Linking CXX executable ../TestAtomTargetLocations cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestAtomTargetLocations.dir/link.txt --verbose=1 [ 40%] Built target TestBiopolymer make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o -o ../TestAtomTargetLocations -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 41%] Building CXX object tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o -MF CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o.d -o CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestLoadVariantRnaAtomNames.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 41%] Built target TestForeignBodyIds [ 41%] Built target TestAtomTargetLocations make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 42%] Building CXX object tests/CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o -MF CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o.d -o CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestMethaneCartesian.cpp [ 43%] Building CXX object tests/CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o -MF CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o.d -o CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestLoneAtomCoordinates.cpp [ 44%] Linking CXX executable ../TestBodyIds cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBodyIds.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o -o ../TestBodyIds -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 44%] Built target TestBodyIds make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethanol.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 45%] Building CXX object tests/CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o -MF CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o.d -o CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestMethanol.cpp [ 45%] Linking CXX executable ../TestEthane cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestEthane.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestEthane.dir/TestEthane.cpp.o -o ../TestEthane -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 45%] Built target TestEthane make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 45%] Building CXX object tests/CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o -MF CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o.d -o CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestMgSolvationEnergy.cpp [ 46%] Linking CXX executable ../TestDuMMForces cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestDuMMForces.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o -o ../TestDuMMForces -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 47%] Linking CXX executable ../TestFitMagnesiums cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestFitMagnesiums.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o -o ../TestFitMagnesiums -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 47%] Built target TestDuMMForces make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 48%] Building CXX object tests/CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o -MF CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o.d -o CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestNoseHooverThermostat.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 48%] Built target TestFitMagnesiums make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 49%] Building CXX object tests/CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o -MF CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o.d -o CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestNucleotide2.cpp [ 50%] Linking CXX executable ../TestGbsa cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGbsa.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o -o ../TestGbsa -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 51%] Linking CXX executable ../TestGetAtomName cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGetAtomName.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o -o ../TestGetAtomName -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 52%] Linking CXX executable ../TestMethanol cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMethanol.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o -o ../TestMethanol -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 53%] Linking CXX executable ../TestMethaneCartesian cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMethaneCartesian.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o -o ../TestMethaneCartesian -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 53%] Built target TestGetAtomName make -f tests/CMakeFiles/TestOxygenMolecule.dir/build.make tests/CMakeFiles/TestOxygenMolecule.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestOxygenMolecule.dir/build.make tests/CMakeFiles/TestOxygenMolecule.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 54%] Building CXX object tests/CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o -MF CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o.d -o CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestOxygenMolecule.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 54%] Built target TestMethaneCartesian [ 54%] Built target TestGbsa make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/depend make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 55%] Building CXX object tests/CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o -MF CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o.d -o CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestPartitioner.cpp [ 55%] Linking CXX executable ../TestLoadPdb cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoadPdb.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 56%] Building CXX object tests/CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o -MF CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o.d -o CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestPartitionerDihedrals.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestLoadPdb.dir/TestLoadPdb.cpp.o -o ../TestLoadPdb -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 56%] Built target TestMethanol make -f tests/CMakeFiles/TestPdb.dir/build.make tests/CMakeFiles/TestPdb.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPdb.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPdb.dir/build.make tests/CMakeFiles/TestPdb.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 57%] Building CXX object tests/CMakeFiles/TestPdb.dir/TestPdb.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestPdb.dir/TestPdb.cpp.o -MF CMakeFiles/TestPdb.dir/TestPdb.cpp.o.d -o CMakeFiles/TestPdb.dir/TestPdb.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestPdb.cpp [ 58%] Linking CXX executable ../TestLoneAtomCoordinates cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoneAtomCoordinates.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o -o ../TestLoneAtomCoordinates -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 58%] Built target TestLoadPdb make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 59%] Building CXX object tests/CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o -MF CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o.d -o CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestPositiveControl.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 59%] Built target TestLoneAtomCoordinates make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProtein.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 59%] Building CXX object tests/CMakeFiles/TestProtein.dir/TestProtein.cpp.o [ 60%] Linking CXX executable ../TestMgSolvationEnergy cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMgSolvationEnergy.dir/link.txt --verbose=1 cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestProtein.dir/TestProtein.cpp.o -MF CMakeFiles/TestProtein.dir/TestProtein.cpp.o.d -o CMakeFiles/TestProtein.dir/TestProtein.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestProtein.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o -o ../TestMgSolvationEnergy -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 61%] Linking CXX executable ../TestPositiveControl cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPositiveControl.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o -o ../TestPositiveControl -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 61%] Built target TestPositiveControl make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 61%] Built target TestMgSolvationEnergy make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/DependInfo.cmake --color= [ 62%] Building CXX object tests/CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o -MF CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o.d -o CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestProteinDihedrals.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 63%] Building CXX object tests/CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o -MF CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o.d -o CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestRiboseMobilizer.cpp [ 63%] Linking CXX executable ../TestNucleotide2 cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNucleotide2.dir/link.txt --verbose=1 [ 64%] Linking CXX executable ../TestLoadVariantRnaAtomNames cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoadVariantRnaAtomNames.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o -o ../TestNucleotide2 -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o -o ../TestLoadVariantRnaAtomNames -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 64%] Built target TestNucleotide2 make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestRna.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 64%] Building CXX object tests/CMakeFiles/TestRna.dir/TestRna.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestRna.dir/TestRna.cpp.o -MF CMakeFiles/TestRna.dir/TestRna.cpp.o.d -o CMakeFiles/TestRna.dir/TestRna.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestRna.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 64%] Built target TestLoadVariantRnaAtomNames make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 65%] Building CXX object tests/CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o -MF CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o.d -o CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestSanityDuMM.cpp [ 66%] Linking CXX executable ../TestNoseHooverThermostat cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNoseHooverThermostat.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o -o ../TestNoseHooverThermostat -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 66%] Built target TestNoseHooverThermostat make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSerine.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 67%] Building CXX object tests/CMakeFiles/TestSerine.dir/TestSerine.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestSerine.dir/TestSerine.cpp.o -MF CMakeFiles/TestSerine.dir/TestSerine.cpp.o.d -o CMakeFiles/TestSerine.dir/TestSerine.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestSerine.cpp [ 68%] Linking CXX executable ../TestProteinDihedrals cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProteinDihedrals.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o -o ../TestProteinDihedrals -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 68%] Built target TestProteinDihedrals [ 69%] Linking CXX executable ../TestOxygenMolecule make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/DependInfo.cmake --color= cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestOxygenMolecule.dir/link.txt --verbose=1 [ 70%] Linking CXX executable ../TestProtein cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProtein.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o -o ../TestOxygenMolecule -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestProtein.dir/TestProtein.cpp.o -o ../TestProtein -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 71%] Building CXX object tests/CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o -MF CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o.d -o CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestSetTorsion.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 71%] Built target TestOxygenMolecule make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 72%] Building CXX object tests/CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o -MF CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o.d -o CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestShortPdbLines.cpp [ 72%] Linking CXX executable ../TestPartitionerDihedrals cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPartitionerDihedrals.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o -o ../TestPartitionerDihedrals -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 73%] Linking CXX executable ../TestRiboseMobilizer cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestRiboseMobilizer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o -o ../TestRiboseMobilizer -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 73%] Built target TestProtein make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 74%] Linking CXX executable ../TestSanityDuMM cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSanityDuMM.dir/link.txt --verbose=1 [ 74%] Building CXX object tests/CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o -MF CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o.d -o CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestTinkerAmber.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o -o ../TestSanityDuMM -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 74%] Built target TestRiboseMobilizer make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 75%] Building CXX object tests/CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o -MF CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o.d -o CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestTorsionPartitioner.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 75%] Built target TestSanityDuMM make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 76%] Building CXX object tests/CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o -MF CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o.d -o CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestVelocityRescalingThermostat.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 76%] Built target TestPartitionerDihedrals make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 76%] Building CXX object tests/CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o -MF CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o.d -o CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestWriteDefaultPdb.cpp [ 77%] Linking CXX executable ../TestPdb cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestPdb.dir/TestPdb.cpp.o -o ../TestPdb -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 77%] Built target TestPdb make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 78%] Building CXX object tests/CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o -MF CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o.d -o CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/TestWriteSimtimePdb.cpp [ 79%] Linking CXX executable ../TestPartitioner cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPartitioner.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o -o ../TestPartitioner -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 79%] Built target TestPartitioner make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 79%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o -MF CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o.d -o CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/RemoveMassCenterDrift.cpp [ 79%] Linking CXX executable ../TestSerine cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSerine.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestSerine.dir/TestSerine.cpp.o -o ../TestSerine -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 80%] Linking CXX executable ../TestRna cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestRna.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestRna.dir/TestRna.cpp.o -o ../TestRna -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 80%] Built target TestSerine make -f tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 81%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o -MF CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o.d -o CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/RemoveMassCenterDriftWithOptimizer.cpp make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 81%] Built target TestRna make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 82%] Building CXX object tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o -MF CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o.d -o CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestEthaneFromSimbody.cpp [ 83%] Linking CXX executable ../TestVelocityRescalingThermostat cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestVelocityRescalingThermostat.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o -o ../TestVelocityRescalingThermostat -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 84%] Linking CXX executable ../TestTinkerAmber cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTinkerAmber.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o -o ../TestTinkerAmber -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 84%] Built target TestTinkerAmber make -f tests/adhoc/CMakeFiles/TestMemoryUse.dir/build.make tests/adhoc/CMakeFiles/TestMemoryUse.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestMemoryUse.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestMemoryUse.dir/build.make tests/adhoc/CMakeFiles/TestMemoryUse.dir/build [ 84%] Built target TestVelocityRescalingThermostat make -f tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/DependInfo.cmake --color= [ 84%] Building CXX object tests/adhoc/CMakeFiles/TestMemoryUse.dir/TestMemoryUse.cpp.o make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/TestMemoryUse.dir/TestMemoryUse.cpp.o -MF CMakeFiles/TestMemoryUse.dir/TestMemoryUse.cpp.o.d -o CMakeFiles/TestMemoryUse.dir/TestMemoryUse.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestMemoryUse.cpp [ 85%] Building CXX object tests/adhoc/CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o -MF CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o.d -o CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestSerineWithViz.cpp [ 86%] Linking CXX executable ../TestWriteDefaultPdb cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteDefaultPdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o -o ../TestWriteDefaultPdb -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 86%] Built target TestWriteDefaultPdb make -f tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build.make tests/adhoc/CMakeFiles/TestSimpleProtein.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build.make tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 87%] Building CXX object tests/adhoc/CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o -MF CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o.d -o CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestSimpleProtein.cpp [ 87%] Linking CXX executable ../TestShortPdbLines cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestShortPdbLines.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o -o ../TestShortPdbLines -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 87%] Built target TestShortPdbLines make -f tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 88%] Building CXX object tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o -MF CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o.d -o CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestSodiumWithViz.cpp [ 89%] Linking CXX executable ../TestWriteSimtimePdb cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteSimtimePdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o -o ../TestWriteSimtimePdb -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 89%] Built target TestWriteSimtimePdb make -f tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build.make tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/depend make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build.make tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build make[3]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 90%] Building CXX object tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/src -I/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/./include -isystem /usr/include/simbody -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o -MF CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o.d -o CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o -c /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestWriteLargerPdb.cpp [ 91%] Linking CXX executable ../TestTorsionPartitioner cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTorsionPartitioner.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o -o ../TestTorsionPartitioner -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 91%] Built target TestTorsionPartitioner [ 92%] Linking CXX executable ../../RemoveMassCenterDrift cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDrift.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o -o ../../RemoveMassCenterDrift -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 92%] Built target RemoveMassCenterDrift [ 93%] Linking CXX executable ../TestSetTorsion cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSetTorsion.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o -o ../TestSetTorsion -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 93%] Built target TestSetTorsion /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestMemoryUse.cpp: In function ‘size_t memory_used(bool)’: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestMemoryUse.cpp:36:25: warning: format ‘%u’ expects argument of type ‘unsigned int*’, but argument 3 has type ‘long unsigned int*’ [-Wformat=] 36 | fscanf (file, "%ul", &vm); // Just need the first num: vm size | ~^ ~~~ | | | | | long unsigned int* | unsigned int* | %lu [ 94%] Linking CXX executable ../../TestEthaneFromSimbody cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestEthaneFromSimbody.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o -o ../../TestEthaneFromSimbody -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 95%] Linking CXX executable ../../RemoveMassCenterDriftWithOptimizer cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o -o ../../RemoveMassCenterDriftWithOptimizer -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/tests/adhoc/TestMemoryUse.cpp:36:16: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 36 | fscanf (file, "%ul", &vm); // Just need the first num: vm size | ~~~~~~~^~~~~~~~~~~~~~~~~~ [ 95%] Built target TestEthaneFromSimbody make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 95%] Built target RemoveMassCenterDriftWithOptimizer [ 96%] Linking CXX executable ../../TestSerineWithViz cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSerineWithViz.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o -o ../../TestSerineWithViz -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 96%] Built target TestSerineWithViz [ 97%] Linking CXX executable ../../TestMemoryUse cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMemoryUse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestMemoryUse.dir/TestMemoryUse.cpp.o -o ../../TestMemoryUse -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm [ 98%] Linking CXX executable ../../TestSodiumWithViz cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSodiumWithViz.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o -o ../../TestSodiumWithViz -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 98%] Built target TestMemoryUse [ 98%] Built target TestSodiumWithViz [ 99%] Linking CXX executable ../../TestWriteLargerPdb cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteLargerPdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o -o ../../TestWriteLargerPdb -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [ 99%] Built target TestWriteLargerPdb [100%] Linking CXX executable ../../TestSimpleProtein cd /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSimpleProtein.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -rdynamic CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o -o ../../TestSimpleProtein -Wl,-rpath,/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm make[3]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' [100%] Built target TestSimpleProtein make[2]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a cd obj-x86_64-linux-gnu && make -j10 install DESTDIR=/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6 -B/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/doc/api/Molmodel/html -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/doc/MolmodelAPI.html -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/Molmodel.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/SimTKmolmodel.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/AtomSubsystem.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Biotype.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Clonable.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Compound.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/CompoundModeler.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/CompoundSystem.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/DNA.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/DuMMForceFieldSubsystem.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Element.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Exceptions.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/GrinPointer.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Ions.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Ligands.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Linkage.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/MassCenterMotionRemover.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/MolecularMechanicsSystem.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/NA.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/NoseHooverThermostat.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/PDBReader.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Pdb.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/PeriodicPdbWriter.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/PeriodicVmdReporter.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Protein.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/RNA.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/RiboseMobilizer.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Superpose.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/VanDerWaalsForce.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/VanderWallSphere.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/VelocityRescalingThermostat.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/VmdConnection.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/VoxelHash.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/Water.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/bondGeometry.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/common.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/include/molmodel/internal/units.h -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/doc/MolmodelUsersGuide.pdf -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/lib/libSimTKmolmodel.so.3.0 -- Installing: /build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/debian/tmp/usr/lib/libSimTKmolmodel.so make[1]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6' dh_install dh_install -plibsimtkmolmodel3.0 debian/tmp/usr/lib/libSimTKmolmodel.so.* usr/lib/x86_64-linux-gnu dh_install -plibsimtkmolmodel-dev debian/tmp/usr/lib/libSimTKmolmodel.so usr/lib/x86_64-linux-gnu rm -rf debian/tmp/usr/examples # not installing examples for now make[1]: Leaving directory '/build/molmodel-zVWVFN/molmodel-3.0.113.gd05a5b6' dh_installdocs -a dh_installchangelogs -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'libsimtkmolmodel-dev' in '../libsimtkmolmodel-dev_3.0.113.gd05a5b6-2_amd64.deb'. dpkg-deb: building package 'libsimtkmolmodel3.0' in '../libsimtkmolmodel3.0_3.0.113.gd05a5b6-2_amd64.deb'. dpkg-deb: building package 'libsimtkmolmodel3.0-dbgsym' in '../libsimtkmolmodel3.0-dbgsym_3.0.113.gd05a5b6-2_amd64.deb'. dpkg-genbuildinfo --build=any -O../molmodel_3.0.113.gd05a5b6-2_amd64.buildinfo dpkg-genchanges --build=any -O../molmodel_3.0.113.gd05a5b6-2_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/molmodel-zVWVFN /tmp/molmodel-3.0.113.gd05a5b6-2xxe4d1nt I: cleaning package lists and apt cache... I: removing tempdir /tmp/mmdebstrap.DKwlFNUoop... I: success in 867.5725 seconds md5: libsimtkmolmodel-dev_3.0.113.gd05a5b6-2_amd64.deb: OK md5: libsimtkmolmodel3.0-dbgsym_3.0.113.gd05a5b6-2_amd64.deb: OK md5: libsimtkmolmodel3.0_3.0.113.gd05a5b6-2_amd64.deb: OK sha1: libsimtkmolmodel-dev_3.0.113.gd05a5b6-2_amd64.deb: OK sha1: libsimtkmolmodel3.0-dbgsym_3.0.113.gd05a5b6-2_amd64.deb: OK sha1: libsimtkmolmodel3.0_3.0.113.gd05a5b6-2_amd64.deb: OK sha256: libsimtkmolmodel-dev_3.0.113.gd05a5b6-2_amd64.deb: OK sha256: libsimtkmolmodel3.0-dbgsym_3.0.113.gd05a5b6-2_amd64.deb: OK sha256: libsimtkmolmodel3.0_3.0.113.gd05a5b6-2_amd64.deb: OK Checksums: OK