Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/m/molmodel/molmodel_3.0~svn842-2_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/molmodel-3.0~svn842-2co8vqco9/molmodel_3.0~svn842-2_amd64.buildinfo Get source package info: molmodel=3.0~svn842-2 Source URL: http://snapshot.notset.fr/mr/package/molmodel/3.0~svn842-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.2-1 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.47 bash=5.0-6 binutils=2.34-8 binutils-common=2.34-8 binutils-x86-64-linux-gnu=2.34-8 bsdmainutils=11.1.2+b1 bsdutils=1:2.35.2-2 build-essential=12.8 bzip2=1.0.8-3 cmake=3.16.3-3 cmake-data=3.16.3-3 coreutils=8.30-3+b1 cpp=4:9.2.1-3.1 cpp-9=9.3.0-13 dash=0.5.10.2-7 debconf=1.5.74 debhelper=13.1 debianutils=4.11 dh-autoreconf=19 dh-strip-nondeterminism=1.8.1-1 diffutils=1:3.7-3 dpkg=1.19.7 dpkg-dev=1.19.7 dwz=0.13-5 file=1:5.38-5 findutils=4.7.0-1 freeglut3=2.8.1-6 freeglut3-dev=2.8.1-6 g++=4:9.2.1-3.1 g++-9=9.3.0-13 gcc=4:9.2.1-3.1 gcc-10-base=10.1.0-4 gcc-9=9.3.0-13 gcc-9-base=9.3.0-13 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.4-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.57 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-1 libasan5=9.3.0-13 libatomic1=10.1.0-4 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3 libaudit1=1:2.8.5-3+b1 libbinutils=2.34-8 libblas-dev=3.9.0-2 libblas3=3.9.0-2 libblkid1=2.35.2-2 libbrotli1=1.0.7-6.1 libbsd0=0.10.0-1 libbz2-1.0=1.0.8-3 libc-bin=2.30-8 libc-dev-bin=2.30-8 libc6=2.30-8 libc6-dev=2.30-8 libcap-ng0=0.7.9-2.2 libcc1-0=10.1.0-4 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.16-1 libcrypt1=1:4.4.16-1 libctf-nobfd0=2.34-8 libctf0=2.34-8 libcurl4=7.68.0-1 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.252 libdebhelper-perl=13.1 libdpkg-perl=1.19.7 libdrm-amdgpu1=2.4.101-2 libdrm-common=2.4.101-2 libdrm-intel1=2.4.101-2 libdrm-nouveau2=2.4.101-2 libdrm-radeon1=2.4.101-2 libdrm2=2.4.101-2 libedit2=3.1-20191231-1 libegl-dev=1.3.1-1 libegl-mesa0=20.1.1-1 libegl1=1.3.1-1 libelf1=0.176-1.1 libexpat1=2.2.9-1 libffi7=3.3-4 libfile-stripnondeterminism-perl=1.8.1-1 libgbm1=20.1.1-1 libgcc-9-dev=9.3.0-13 libgcc-s1=10.1.0-4 libgcrypt20=1.8.5-5 libgdbm-compat4=1.18.1-5 libgdbm6=1.18.1-5 libgfortran5=10.1.0-4 libgl-dev=1.3.1-1 libgl1=1.3.1-1 libgl1-mesa-dev=20.1.1-1 libgl1-mesa-dri=20.1.1-1 libglapi-mesa=20.1.1-1 libgles-dev=1.3.1-1 libgles1=1.3.1-1 libgles2=1.3.1-1 libglib2.0-0=2.64.3-1 libglu1-mesa=9.0.1-1 libglu1-mesa-dev=9.0.1-1 libglvnd-dev=1.3.1-1 libglvnd0=1.3.1-1 libglx-dev=1.3.1-1 libglx-mesa0=20.1.1-1 libglx0=1.3.1-1 libgmp10=2:6.2.0+dfsg-6 libgnutls30=3.6.14-2 libgomp1=10.1.0-4 libgpg-error0=1.38-1 libgssapi-krb5-2=1.17-10 libhogweed5=3.5.1+really3.5.1-2 libice-dev=2:1.0.9-2 libice6=2:1.0.9-2 libicu67=67.1-2 libidn2-0=2.3.0-1 libisl22=0.22.1-1 libitm1=10.1.0-4 libjsoncpp1=1.7.4-3.1 libk5crypto3=1.17-10 libkeyutils1=1.6.1-2 libkrb5-3=1.17-10 libkrb5support0=1.17-10 liblapack-dev=3.9.0-2 liblapack3=3.9.0-2 libldap-2.4-2=2.4.50+dfsg-1 libldap-common=2.4.50+dfsg-1 libllvm10=1:10.0.0-4 liblsan0=10.1.0-4 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.38-5 libmagic1=1:5.38-5 libmmdb2-0=2.0.5-1 libmmdb2-dev=2.0.5-1 libmount1=2.35.2-2 libmpc3=1.1.0-1 libmpfr6=4.0.2-1 libncurses6=6.2-1 libncursesw6=6.2-1 libnettle7=3.5.1+really3.5.1-2 libnghttp2-14=1.41.0-2 libopengl-dev=1.3.1-1 libopengl0=1.3.1-1 libp11-kit0=0.23.20-1 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpciaccess0=0.14-1 libpcre2-8-0=10.34-7 libpcre3=2:8.39-12+b1 libperl5.30=5.30.3-4 libpipeline1=1.5.2-2 libprocps8=2:3.3.16-5 libpsl5=0.21.0-1.1 libpthread-stubs0-dev=0.4-1 libquadmath0=10.1.0-4 librhash0=1.3.9-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.4.3-1+b1 libselinux1=3.0-1+b3 libsensors-config=1:3.6.0-2 libsensors5=1:3.6.0-2 libsigsegv2=2.12-2 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=2.35.2-2 libssh2-1=1.8.0-2.1 libssl1.1=1.1.1g-1 libstdc++-9-dev=9.3.0-13 libstdc++6=10.1.0-4 libsub-override-perl=0.09-2 libsystemd0=245.6-1 libtasn1-6=4.16.0-2 libtinfo6=6.2-1 libtool=2.4.6-14 libtsan0=10.1.0-4 libubsan1=10.1.0-4 libuchardet0=0.0.7-1 libudev1=245.6-1 libunistring2=0.9.10-4 libuuid1=2.35.2-2 libuv1=1.38.0-2 libvulkan1=1.2.141.0-1 libwayland-client0=1.18.0-1 libwayland-server0=1.18.0-1 libx11-6=2:1.6.9-2+b1 libx11-data=2:1.6.9-2 libx11-dev=2:1.6.9-2+b1 libx11-xcb1=2:1.6.9-2+b1 libxau-dev=1:1.0.8-1+b2 libxau6=1:1.0.8-1+b2 libxcb-dri2-0=1.14-2 libxcb-dri3-0=1.14-2 libxcb-glx0=1.14-2 libxcb-present0=1.14-2 libxcb-sync1=1.14-2 libxcb-xfixes0=1.14-2 libxcb1=1.14-2 libxcb1-dev=1.14-2 libxdamage1=1:1.1.5-2 libxdmcp-dev=1:1.1.2-3 libxdmcp6=1:1.1.2-3 libxext-dev=2:1.3.3-1+b2 libxext6=2:1.3.3-1+b2 libxfixes-dev=1:5.0.3-2 libxfixes3=1:5.0.3-2 libxi-dev=2:1.7.10-1 libxi6=2:1.7.10-1 libxml2=2.9.10+dfsg-5+b1 libxmu-dev=2:1.1.2-2+b3 libxmu-headers=2:1.1.2-2 libxmu6=2:1.1.2-2+b3 libxshmfence1=1.3-1 libxt-dev=1:1.1.5-1+b3 libxt6=1:1.1.5-1+b3 libxxf86vm1=1:1.1.4-1+b2 libz3-4=4.8.8-1 libzstd1=1.4.5+dfsg-2 linux-libc-dev=5.6.14-2 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 make=4.3-3 man-db=2.9.2-1 mawk=1.3.4.20200120-2 ncurses-base=6.2-1 ncurses-bin=6.2-1 patch=2.7.6-6 perl=5.30.3-4 perl-base=5.30.3-4 perl-modules-5.30=5.30.3-4 po-debconf=1.0.21 procps=2:3.3.16-5 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-3 tar=1.30+dfsg-7 util-linux=2.35.2-2 x11-common=1:7.7+20 x11proto-core-dev=2020.1-1 x11proto-dev=2020.1-1 x11proto-input-dev=2020.1-1 x11proto-xext-dev=2020.1-1 xorg-sgml-doctools=1:1.11-1 xtrans-dev=1.4.0-1 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 --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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20200617T204558Z/ 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~svn842-2 && mkdir -p /build/molmodel-K0jV27 && dpkg-source --no-check -x /*.dsc /build/molmodel-K0jV27/molmodel-3.0-svn842 && chown -R builduser:builduser /build/molmodel-K0jV27" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/molmodel-K0jV27/molmodel-3.0-svn842 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1592392884" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/molmodel-K0jV27 /tmp/molmodel-3.0~svn842-2co8vqco9 bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20200617T204558Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.IOncA5CPhD 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.IOncA5CPhD Reading package lists... Building dependency tree... util-linux is already the newest version (2.35.2-2). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 132 kB of archives. After this operation, 393 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20200617T204558Z unstable/main amd64 libfakeroot amd64 1.24-1 [45.7 kB] Get:2 http://snapshot.notset.fr/archive/debian/20200617T204558Z unstable/main amd64 fakeroot amd64 1.24-1 [85.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 132 kB in 0s (672 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 ... 4482 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.24-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.24-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.24-1_amd64.deb ... Unpacking fakeroot (1.24-1) ... Setting up libfakeroot:amd64 (1.24-1) ... Setting up fakeroot (1.24-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.30-8) ... 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20200617T204558Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.IOncA5CPhD Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20200617T204558Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 20s (1109 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.IOncA5CPhD I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d molmodel=3.0~svn842-2 && mkdir -p /build/molmodel-K0jV27 && dpkg-source --no-check -x /*.dsc /build/molmodel-K0jV27/molmodel-3.0-svn842 && chown -R builduser:builduser /build/molmodel-K0jV27"' exec /tmp/mmdebstrap.IOncA5CPhD 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 8569 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main molmodel 3.0~svn842-2 (dsc) [2102 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main molmodel 3.0~svn842-2 (tar) [8559 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main molmodel 3.0~svn842-2 (diff) [7784 B] Fetched 8569 kB in 7s (1257 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'molmodel_3.0~svn842-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting molmodel in /build/molmodel-K0jV27/molmodel-3.0-svn842 dpkg-source: info: unpacking molmodel_3.0~svn842.orig.tar.xz dpkg-source: info: unpacking molmodel_3.0~svn842-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying remove-failing-tests.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/molmodel-K0jV27/molmodel-3.0-svn842 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1592392884" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.IOncA5CPhD dpkg-buildpackage: info: source package molmodel dpkg-buildpackage: info: source version 3.0~svn842-2 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 dh_auto_configure -a 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_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 .. -- The C compiler identification is GNU 9.3.0 -- The CXX compiler identification is GNU 9.3.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Could NOT find OpenMM (missing: OpenMM_INCLUDE_DIR OpenMM_LIBRARY OpenMM_LIBRARIES) -- 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_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu dh_auto_build -a cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/molmodel-K0jV27/molmodel-3.0-svn842 -B/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/CMakeFiles /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f sharedTarget/CMakeFiles/SimTKmolmodel.dir/build.make sharedTarget/CMakeFiles/SimTKmolmodel.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/sharedTarget /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget/CMakeFiles/SimTKmolmodel.dir/DependInfo.cmake --color= Scanning dependencies of target SimTKmolmodel make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f sharedTarget/CMakeFiles/SimTKmolmodel.dir/build.make sharedTarget/CMakeFiles/SimTKmolmodel.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 2%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o [ 3%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o [ 3%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o [ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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 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-I/build/molmodel-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/Biotype.cpp cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/BondGeometry.cpp [ 4%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/Compound.cpp [ 4%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/CompoundSystem.cpp [ 5%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/DuMMForceFieldSubsystem.cpp [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystemRep.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystemRep.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/DuMMForceFieldSubsystemRep.cpp [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/Element.cpp [ 7%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/MolecularMechanicsSystem.cpp [ 8%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/PDBReader.cpp [ 9%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/Pdb.cpp [ 9%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/PeriodicVmdReporter.cpp [ 10%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/RiboseMobilizer.cpp [ 11%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/TinkerAmber99.cpp [ 11%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/VanderWallSphere.cpp [ 12%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/VelocityRescalingThermostat.cpp [ 13%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/VmdConnection.cpp [ 14%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o cd 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sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/CpuObc.cpp [ 15%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/ImplicitSolventParameters.cpp [ 16%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/ObcParameters.cpp [ 16%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/SimTKOpenMMCommon.cpp [ 17%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/SimTKOpenMMLog.cpp [ 18%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/SimTKOpenMMUtilities.cpp [ 19%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/gbsa/cpuObcInterface.cpp [ 19%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/imd.cpp [ 20%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/mol.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/mol.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp: In function ‘void mol_msg(const char*, ...)’: /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:2290:26: warning: ‘%s’ directive writing up to 999 bytes into a region of size between 1 and 1000 [-Wformat-overflow=] 2290 | sprintf (msg, "%s%s", msg, str); | ^~ ~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.h:14, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:15: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 1 and 1999 bytes into a destination of size 1000 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:2281:26: warning: ‘%s’ directive writing up to 999 bytes into a region of size between 1 and 1000 [-Wformat-overflow=] 2281 | sprintf (msg, "%s%s", msg, str); | ^~ ~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.h:14, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:15: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 1 and 1999 bytes into a destination of size 1000 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:2272:25: warning: ‘%s’ directive writing up to 999 bytes into a region of size between 1 and 1000 [-Wformat-overflow=] 2272 | sprintf (msg, "%s%s", msg, str); | ^~ ~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.h:14, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:15: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 1 and 1999 bytes into a destination of size 1000 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:2263:26: warning: ‘%s’ directive writing up to 999 bytes into a region of size between 1 and 1000 [-Wformat-overflow=] 2263 | sprintf (msg, "%s%s", msg, str); | ^~ ~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.h:14, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:15: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 1 and 1999 bytes into a destination of size 1000 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:2254:26: warning: ‘%s’ directive writing up to 999 bytes into a region of size between 1 and 1000 [-Wformat-overflow=] 2254 | sprintf (msg, "%s%s", msg, str); | ^~ ~~~ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.h:14, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:15: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 1 and 1999 bytes into a destination of size 1000 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Building C object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.c.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/sharedTarget && /usr/bin/cc -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.c.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/vmdsock.c /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp: In function ‘void mol_DbGromacsRead(MolModel*, FILE*)’: /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:1326:29: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 1326 | sprintf (atom_name, " %s", s); | ^ In file included from /usr/include/stdio.h:867, from /usr/include/c++/9/cstdio:42, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.h:14, from /build/molmodel-K0jV27/molmodel-3.0-svn842/src/mol.cpp:15: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 21%] Linking CXX shared library ../libSimTKmolmodel.so cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -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/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/mol.cpp.o CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.c.o /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 -lmmdb2 /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-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 21%] Built target SimTKmolmodel make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/depend make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/depend make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/depend make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleCreatePropane.dir/DependInfo.cmake --color= Scanning dependencies of target ExampleAdenylateMobilitiesVMD make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build Scanning dependencies of target ExampleLoadPdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' Scanning dependencies of target ExampleSimpleProtein make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/build [ 21%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/ExampleAdenylateMobilitiesVMD.cpp.o make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/ExampleAdenylateMobilitiesVMD.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleAdenylateMobilitiesVMD.cpp [ 21%] Building CXX object examples/CMakeFiles/ExampleLoadPdb2.dir/ExampleLoadPdb2.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleLoadPdb2.dir/ExampleLoadPdb2.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleLoadPdb2.cpp Scanning dependencies of target ExampleCreatePropane [ 21%] Building CXX object examples/CMakeFiles/ExampleSimpleProtein.dir/ExampleSimpleProtein.cpp.o make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/build cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleSimpleProtein.dir/ExampleSimpleProtein.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleSimpleProtein.cpp make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 22%] Building CXX object examples/CMakeFiles/ExampleCreatePropane.dir/ExampleCreatePropane.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleCreatePropane.dir/ExampleCreatePropane.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleCreatePropane.cpp [ 23%] Linking CXX executable ../ExampleLoadPdb2 cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleLoadPdb2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleLoadPdb2.dir/ExampleLoadPdb2.cpp.o -o ../ExampleLoadPdb2 -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 23%] Built target ExampleLoadPdb2 make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleFoldPolyalanine.dir/DependInfo.cmake --color= [ 24%] Linking CXX executable ../ExampleCreatePropane cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleCreatePropane.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleCreatePropane.dir/ExampleCreatePropane.cpp.o -o ../ExampleCreatePropane -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 Scanning dependencies of target ExampleFoldPolyalanine make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 25%] Building CXX object examples/CMakeFiles/ExampleFoldPolyalanine.dir/ExampleFoldPolyalanine.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleFoldPolyalanine.dir/ExampleFoldPolyalanine.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleFoldPolyalanine.cpp make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 25%] Built target ExampleCreatePropane make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/DependInfo.cmake --color= Scanning dependencies of target ExampleRigidProtein make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 26%] Building CXX object examples/CMakeFiles/ExampleRigidProtein.dir/ExampleRigidProtein.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleRigidProtein.dir/ExampleRigidProtein.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleRigidProtein.cpp [ 27%] Linking CXX executable ../ExampleAdenylateMobilitiesVMD cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic 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/build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/DependInfo.cmake --color= Scanning dependencies of target MolmodelInstallTestNoViz make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 27%] Building CXX object examples/CMakeFiles/MolmodelInstallTestNoViz.dir/MolmodelInstallTestNoViz.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/MolmodelInstallTestNoViz.dir/MolmodelInstallTestNoViz.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/MolmodelInstallTestNoViz.cpp [ 28%] Linking CXX executable ../ExampleSimpleProtein cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleSimpleProtein.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleSimpleProtein.dir/ExampleSimpleProtein.cpp.o -o ../ExampleSimpleProtein -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 28%] Built target ExampleSimpleProtein make -f examples/CMakeFiles/ExampleLoadPdb.dir/build.make examples/CMakeFiles/ExampleLoadPdb.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && 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-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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleLoadPdb.dir/ExampleLoadPdb.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleLoadPdb.cpp [ 30%] Linking CXX executable ../ExampleLoadPdb cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleLoadPdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleLoadPdb.dir/ExampleLoadPdb.cpp.o -o ../ExampleLoadPdb -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 30%] Built target ExampleLoadPdb make -f examples/CMakeFiles/ExampleSimpleRNA.dir/build.make examples/CMakeFiles/ExampleSimpleRNA.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/DependInfo.cmake --color= Scanning dependencies of target ExampleSimpleRNA make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleSimpleRNA.dir/build.make examples/CMakeFiles/ExampleSimpleRNA.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 31%] Building CXX object examples/CMakeFiles/ExampleSimpleRNA.dir/ExampleSimpleRNA.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleSimpleRNA.dir/ExampleSimpleRNA.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleSimpleRNA.cpp [ 31%] Linking CXX executable ../ExampleFoldPolyalanine cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleFoldPolyalanine.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleFoldPolyalanine.dir/ExampleFoldPolyalanine.cpp.o -o ../ExampleFoldPolyalanine -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 [ 32%] Linking CXX executable ../ExampleRigidProtein cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleRigidProtein.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic 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-DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I/build/molmodel-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleTwoArgonAtoms.dir/ExampleTwoArgonAtoms.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleTwoArgonAtoms.cpp [ 34%] Linking CXX executable ../MolmodelInstallTestNoViz cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolmodelInstallTestNoViz.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/MolmodelInstallTestNoViz.dir/MolmodelInstallTestNoViz.cpp.o -o ../MolmodelInstallTestNoViz -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 34%] Built target ExampleRigidProtein make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/DependInfo.cmake --color= Scanning dependencies of target ExampleTwoEthanes make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 35%] Building CXX object examples/CMakeFiles/ExampleTwoEthanes.dir/ExampleTwoEthanes.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleTwoEthanes.dir/ExampleTwoEthanes.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleTwoEthanes.cpp make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 35%] Built target MolmodelInstallTestNoViz make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/DependInfo.cmake --color= Scanning dependencies of target ExampleAdenylateMobilitiesViz make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 36%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/ExampleAdenylateMobilitiesViz.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/ExampleAdenylateMobilitiesViz.dir/ExampleAdenylateMobilitiesViz.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/ExampleAdenylateMobilitiesViz.cpp [ 37%] Linking CXX executable ../ExampleTwoArgonAtoms cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleTwoArgonAtoms.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleTwoArgonAtoms.dir/ExampleTwoArgonAtoms.cpp.o -o ../ExampleTwoArgonAtoms -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 37%] Built target ExampleTwoArgonAtoms make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make examples/CMakeFiles/MolmodelInstallTest.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake --color= Scanning dependencies of target MolmodelInstallTest make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make examples/CMakeFiles/MolmodelInstallTest.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 38%] Building CXX object examples/CMakeFiles/MolmodelInstallTest.dir/MolmodelInstallTest.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/MolmodelInstallTest.dir/MolmodelInstallTest.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/examples/MolmodelInstallTest.cpp [ 38%] Linking CXX executable ../ExampleSimpleRNA cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleSimpleRNA.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleSimpleRNA.dir/ExampleSimpleRNA.cpp.o -o ../ExampleSimpleRNA -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 [ 38%] Linking CXX executable ../ExampleTwoEthanes cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleTwoEthanes.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleTwoEthanes.dir/ExampleTwoEthanes.cpp.o -o ../ExampleTwoEthanes -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 38%] Built target ExampleSimpleRNA make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' Scanning dependencies of target TestWriteSimtimePdb make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 38%] Built target ExampleTwoEthanes make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake --color= [ 39%] Building CXX object tests/CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestWriteSimtimePdb.cpp Scanning dependencies of target TestTorsionPartitioner make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 40%] Building CXX object tests/CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestTorsionPartitioner.cpp [ 40%] Linking CXX executable ../ExampleAdenylateMobilitiesViz cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleAdenylateMobilitiesViz.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleAdenylateMobilitiesViz.dir/ExampleAdenylateMobilitiesViz.cpp.o -o ../ExampleAdenylateMobilitiesViz -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 40%] Built target ExampleAdenylateMobilitiesViz make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake --color= Scanning dependencies of target TestTinkerAmber make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 41%] Building CXX object tests/CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestTinkerAmber.cpp [ 41%] Linking CXX executable ../TestTinkerAmber cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o -o ../TestTinkerAmber -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 41%] Built target TestTinkerAmber make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/DependInfo.cmake --color= Scanning dependencies of target TestWriteDefaultPdb make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 42%] Building CXX object tests/CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestWriteDefaultPdb.cpp [ 43%] Linking CXX executable ../MolmodelInstallTest cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolmodelInstallTest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/MolmodelInstallTest.dir/MolmodelInstallTest.cpp.o -o ../MolmodelInstallTest -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 43%] Built target MolmodelInstallTest make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/DependInfo.cmake --color= Scanning dependencies of target TestShortPdbLines make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 43%] Building CXX object tests/CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestShortPdbLines.cpp [ 44%] Linking CXX executable ../TestWriteSimtimePdb cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o -o ../TestWriteSimtimePdb -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 44%] Built target TestWriteSimtimePdb make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/DependInfo.cmake --color= Scanning dependencies of target TestGetAtomName make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 45%] Building CXX object tests/CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestGetAtomName.cpp [ 46%] Linking CXX executable ../TestTorsionPartitioner cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o -o ../TestTorsionPartitioner -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 46%] Built target TestTorsionPartitioner make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/DependInfo.cmake --color= Scanning dependencies of target TestNoseHooverThermostat make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 46%] Building CXX object tests/CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestNoseHooverThermostat.cpp [ 47%] Linking CXX executable ../TestShortPdbLines cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o -o ../TestShortPdbLines -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 47%] Built target TestShortPdbLines make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGbsa.dir/DependInfo.cmake --color= Scanning dependencies of target TestGbsa make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 47%] Building CXX object tests/CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestGbsa.cpp [ 48%] Linking CXX executable ../TestWriteDefaultPdb cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o -o ../TestWriteDefaultPdb -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 48%] Built target TestWriteDefaultPdb make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/DependInfo.cmake --color= Scanning dependencies of target TestLoadVariantRnaAtomNames make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 48%] Building CXX object tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestLoadVariantRnaAtomNames.cpp [ 49%] Linking CXX executable ../TestGetAtomName cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o -o ../TestGetAtomName -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 49%] Built target TestGetAtomName make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/DependInfo.cmake --color= Scanning dependencies of target TestPositiveControl make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 50%] Building CXX object tests/CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestPositiveControl.cpp [ 50%] Linking CXX executable ../TestPositiveControl cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o -o ../TestPositiveControl -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 50%] Built target TestPositiveControl make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/DependInfo.cmake --color= Scanning dependencies of target TestBodyIds make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 50%] Building CXX object tests/CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestBodyIds.cpp [ 51%] Linking CXX executable ../TestNoseHooverThermostat cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o -o ../TestNoseHooverThermostat -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 51%] Built target TestNoseHooverThermostat make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestEthane.dir/DependInfo.cmake --color= Scanning dependencies of target TestEthane make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 52%] Building CXX object tests/CMakeFiles/TestEthane.dir/TestEthane.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestEthane.dir/TestEthane.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestEthane.cpp [ 53%] Linking CXX executable ../TestGbsa cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o -o ../TestGbsa -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 53%] Built target TestGbsa make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests 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-I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestBiopolymer.cpp [ 55%] Linking CXX executable ../TestLoadVariantRnaAtomNames cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o -o ../TestLoadVariantRnaAtomNames -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 55%] Built target TestLoadVariantRnaAtomNames make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/DependInfo.cmake --color= Scanning dependencies of target TestProteinDihedrals make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 55%] Building CXX object tests/CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestProteinDihedrals.cpp [ 56%] Linking CXX executable ../TestBodyIds cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o -o ../TestBodyIds -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 56%] Built target TestBodyIds make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake --color= Scanning dependencies of target TestBiotypeSelfCode make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 57%] Building CXX object tests/CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestBiotypeSelfCode.cpp [ 57%] Linking CXX executable ../TestEthane cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestEthane.dir/TestEthane.cpp.o -o ../TestEthane -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 57%] Built target TestEthane make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/DependInfo.cmake --color= Scanning dependencies of target TestForeignBodyIds make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 58%] Building CXX object tests/CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestForeignBodyIds.cpp [ 58%] Linking CXX executable ../TestBiopolymer cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o -o ../TestBiopolymer -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 58%] Built target TestBiopolymer make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/DependInfo.cmake --color= Scanning dependencies of target TestAtomTargetLocations make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 59%] Building CXX object tests/CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o [ 60%] Linking CXX executable ../TestProteinDihedrals cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProteinDihedrals.dir/link.txt --verbose=1 cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestAtomTargetLocations.cpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o -o ../TestProteinDihedrals -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 60%] Built target TestProteinDihedrals make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/DependInfo.cmake --color= Scanning dependencies of target TestSetTorsion make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 61%] Building CXX object tests/CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestSetTorsion.cpp [ 62%] Linking CXX executable ../TestBiotypeSelfCode cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o -o ../TestBiotypeSelfCode -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 62%] Built target TestBiotypeSelfCode make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/DependInfo.cmake --color= Scanning dependencies of target TestMethaneCartesian make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 63%] Building CXX object tests/CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestMethaneCartesian.cpp [ 64%] Linking CXX executable ../TestForeignBodyIds cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o -o ../TestForeignBodyIds -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 64%] Built target TestForeignBodyIds make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/DependInfo.cmake --color= Scanning dependencies of target TestMgSolvationEnergy make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 65%] Building CXX object tests/CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestMgSolvationEnergy.cpp [ 66%] Linking CXX executable ../TestMethaneCartesian cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o -o ../TestMethaneCartesian -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 66%] Built target TestMethaneCartesian make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/DependInfo.cmake --color= Scanning dependencies of target TestLoneAtomCoordinates make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 67%] Building CXX object tests/CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestLoneAtomCoordinates.cpp [ 68%] Linking CXX executable ../TestAtomTargetLocations cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestAtomTargetLocations.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o -o ../TestAtomTargetLocations -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 68%] Built target TestAtomTargetLocations make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethanol.dir/DependInfo.cmake --color= Scanning dependencies of target TestMethanol make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 69%] Building CXX object tests/CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestMethanol.cpp [ 70%] Linking CXX executable ../TestSetTorsion cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o -o ../TestSetTorsion -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 70%] Built target TestSetTorsion make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/DependInfo.cmake --color= Scanning dependencies of target TestNucleotide2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 71%] Building CXX object tests/CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestNucleotide2.cpp [ 72%] Linking CXX executable ../TestMgSolvationEnergy cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMgSolvationEnergy.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o -o ../TestMgSolvationEnergy -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 72%] Built target TestMgSolvationEnergy make -f tests/CMakeFiles/TestOxygenMolecule.dir/build.make tests/CMakeFiles/TestOxygenMolecule.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/DependInfo.cmake --color= Scanning dependencies of target 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-fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestOxygenMolecule.cpp [ 72%] Linking CXX executable ../TestLoneAtomCoordinates cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoneAtomCoordinates.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o -o ../TestLoneAtomCoordinates -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 72%] Built target TestLoneAtomCoordinates make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/DependInfo.cmake --color= Scanning dependencies of target TestVelocityRescalingThermostat make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 73%] Building CXX object tests/CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestVelocityRescalingThermostat.cpp [ 73%] Linking CXX executable ../TestMethanol cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o -o ../TestMethanol -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 73%] Built target TestMethanol make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/DependInfo.cmake --color= Scanning dependencies of target TestCompoundTransforms make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 74%] Building CXX object tests/CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestCompoundTransforms.cpp [ 75%] Linking CXX executable ../TestNucleotide2 cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNucleotide2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o -o ../TestNucleotide2 -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 75%] Built target TestNucleotide2 make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/DependInfo.cmake --color= Scanning dependencies of target TestPartitionerDihedrals make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 76%] Building CXX object tests/CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestPartitionerDihedrals.cpp [ 77%] Linking CXX executable ../TestOxygenMolecule cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestOxygenMolecule.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o -o ../TestOxygenMolecule -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 77%] Built target TestOxygenMolecule make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSerine.dir/DependInfo.cmake --color= Scanning dependencies of target TestSerine make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 78%] Building CXX object tests/CMakeFiles/TestSerine.dir/TestSerine.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestSerine.dir/TestSerine.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestSerine.cpp [ 78%] Linking CXX executable ../TestVelocityRescalingThermostat cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o -o ../TestVelocityRescalingThermostat -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 78%] Built target TestVelocityRescalingThermostat make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/DependInfo.cmake --color= Scanning dependencies of target TestPartitioner make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 79%] Building CXX object tests/CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestPartitioner.cpp [ 80%] Linking CXX executable ../TestCompoundTransforms cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o -o ../TestCompoundTransforms -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 80%] Built target TestCompoundTransforms make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProtein.dir/DependInfo.cmake --color= Scanning dependencies of target TestProtein make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 81%] Building CXX object tests/CMakeFiles/TestProtein.dir/TestProtein.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestProtein.dir/TestProtein.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestProtein.cpp [ 82%] Linking CXX executable ../TestPartitionerDihedrals cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o -o ../TestPartitionerDihedrals -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 82%] Built target TestPartitionerDihedrals make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/DependInfo.cmake --color= Scanning dependencies of target TestRiboseMobilizer make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 83%] Building CXX object tests/CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestRiboseMobilizer.cpp [ 84%] Linking CXX executable ../TestSerine cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestSerine.dir/TestSerine.cpp.o -o ../TestSerine -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 84%] Built target TestSerine make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestRna.dir/DependInfo.cmake --color= Scanning dependencies of target TestRna make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 84%] Building CXX object tests/CMakeFiles/TestRna.dir/TestRna.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestRna.dir/TestRna.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestRna.cpp [ 85%] Linking CXX executable ../TestProtein cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestProtein.dir/TestProtein.cpp.o -o ../TestProtein -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 85%] Built target TestProtein make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/DependInfo.cmake --color= Scanning dependencies of target TestFitMagnesiums make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 86%] Building CXX object tests/CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestFitMagnesiums.cpp [ 86%] Linking CXX executable ../TestPartitioner cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o -o ../TestPartitioner -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 86%] Built target TestPartitioner make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/DependInfo.cmake --color= Scanning dependencies of target TestDuMMForces make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 86%] Building CXX object tests/CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestDuMMForces.cpp [ 87%] Linking CXX executable ../TestRiboseMobilizer cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o -o ../TestRiboseMobilizer -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 87%] Built target TestRiboseMobilizer make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/DependInfo.cmake --color= Scanning dependencies of target TestSanityDuMM make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/build make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 88%] Building CXX object tests/CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/TestSanityDuMM.cpp [ 89%] Linking CXX executable ../TestRna cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestRna.dir/TestRna.cpp.o -o ../TestRna -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 [ 89%] Linking CXX executable ../TestSanityDuMM cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSanityDuMM.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o -o ../TestSanityDuMM -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 89%] Built target TestRna make -f tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 89%] Built target TestSanityDuMM make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend Scanning dependencies of target RemoveMassCenterDriftWithOptimizer make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 89%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/RemoveMassCenterDriftWithOptimizer.cpp Scanning dependencies of target TestEthaneFromSimbody make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 90%] Building CXX object tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/TestEthaneFromSimbody.cpp [ 90%] Linking CXX executable ../TestFitMagnesiums cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o -o ../TestFitMagnesiums -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 90%] Built target TestFitMagnesiums make -f tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/DependInfo.cmake --color= Scanning dependencies of target TestSerineWithViz make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 91%] Building CXX object tests/adhoc/CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/TestSerineWithViz.cpp [ 92%] Linking CXX executable ../TestDuMMForces cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o -o ../TestDuMMForces -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 92%] Built target TestDuMMForces make -f tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build.make tests/adhoc/CMakeFiles/TestSimpleProtein.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/DependInfo.cmake --color= Scanning dependencies of target TestSimpleProtein make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 93%] Building CXX object tests/adhoc/CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/TestSimpleProtein.cpp [ 94%] Linking CXX executable ../../TestEthaneFromSimbody cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o -o ../../TestEthaneFromSimbody -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 94%] Built target TestEthaneFromSimbody make -f tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build.make tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/depend [ 95%] Linking CXX executable ../../RemoveMassCenterDriftWithOptimizer cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/link.txt --verbose=1 make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o -o ../../RemoveMassCenterDriftWithOptimizer -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 Scanning dependencies of target TestWriteLargerPdb make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 95%] Building CXX object tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/TestWriteLargerPdb.cpp make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 95%] Built target RemoveMassCenterDriftWithOptimizer make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/DependInfo.cmake --color= Scanning dependencies of target RemoveMassCenterDrift make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 96%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/RemoveMassCenterDrift.cpp [ 96%] Linking CXX executable ../../TestSerineWithViz cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o -o ../../TestSerineWithViz -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 96%] Built target TestSerineWithViz make -f tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend make[3]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/molmodel-K0jV27/molmodel-3.0-svn842 /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/DependInfo.cmake --color= Scanning dependencies of target TestSodiumWithViz make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/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-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 96%] Building CXX object tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o cd /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/tests/adhoc && /usr/bin/c++ -DMMDB2_LIB_USAGE -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-K0jV27/molmodel-3.0-svn842/src -I/build/molmodel-K0jV27/molmodel-3.0-svn842/./include -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -o CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o -c /build/molmodel-K0jV27/molmodel-3.0-svn842/tests/adhoc/TestSodiumWithViz.cpp [ 97%] Linking CXX executable ../../TestSimpleProtein cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o -o ../../TestSimpleProtein -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 97%] Built target TestSimpleProtein [ 98%] Linking CXX executable ../../TestSodiumWithViz cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o -o ../../TestSodiumWithViz -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 98%] Built target TestSodiumWithViz [ 99%] Linking CXX executable ../../TestWriteLargerPdb cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o -o ../../TestWriteLargerPdb -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [ 99%] Built target TestWriteLargerPdb [100%] Linking CXX executable ../../RemoveMassCenterDrift cd /build/molmodel-K0jV27/molmodel-3.0-svn842/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 -fdebug-prefix-map=/build/molmodel-K0jV27/molmodel-3.0-svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o -o ../../RemoveMassCenterDrift -Wl,-rpath,/build/molmodel-K0jV27/molmodel-3.0-svn842/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 -lmmdb2 make[3]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' [100%] Built target RemoveMassCenterDrift make[2]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_testroot -a dh_prep -a dh_auto_install -a cd obj-x86_64-linux-gnu && make -j4 install DESTDIR=/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/molmodel-K0jV27/molmodel-3.0-svn842 -B/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/doc/api/Molmodel/html -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/doc/MolmodelAPI.html -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/Molmodel.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/SimTKmolmodel.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/AtomSubsystem.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Biotype.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Clonable.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Compound.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/CompoundModeler.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/CompoundSystem.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/DNA.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/DuMMForceFieldSubsystem.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Element.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/GrinPointer.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Ions.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Ligands.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/MassCenterMotionRemover.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/MolecularMechanicsSystem.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/NA.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/NoseHooverThermostat.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/PDBReader.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Pdb.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/PeriodicPdbWriter.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/PeriodicVmdReporter.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Protein.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/RNA.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/RiboseMobilizer.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Superpose.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/VanDerWaalsForce.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/VanderWallSphere.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/VelocityRescalingThermostat.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/VmdConnection.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/VoxelHash.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/Water.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/bondGeometry.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/common.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/include/molmodel/internal/units.h -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/doc/MolmodelUsersGuide.pdf -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/lib/libSimTKmolmodel.so.3.0 -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/lib/libSimTKmolmodel.so -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesVMD -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesVMD" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesViz -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesViz" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleCreatePropane -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleCreatePropane" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleFoldPolyalanine -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleFoldPolyalanine" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb2 -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb2" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleRigidProtein -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleRigidProtein" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleProtein -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleProtein" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleRNA -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleRNA" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoArgonAtoms -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoArgonAtoms" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoEthanes -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoEthanes" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTest -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTest" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTestNoViz -- Set runtime path of "/build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTestNoViz" to "" -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/1AKG.pdb -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/1AKG.pdb -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/1AKGtrim.pdb -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/1AKGtrim.pdb -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ThreeAdenylates.pdb -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/ThreeAdenylates.pdb -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/adenylates.vmd -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/bin/adenylates.vmd -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleAdenylateMobilitiesVMD.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleAdenylateMobilitiesViz.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleCreatePropane.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleFoldPolyalanine.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleLoadPdb.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleLoadPdb2.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleRigidProtein.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleSimpleProtein.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleSimpleRNA.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleTwoArgonAtoms.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleTwoEthanes.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/MolmodelInstallTest.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/MolmodelInstallTestNoViz.cpp -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/ExampleAdenylateMobilitiesVMD_Notes.txt -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/README.txt -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/README_Makefile.txt -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/README_VisualStudio.txt -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/CMakeLists.txt -- Installing: /build/molmodel-K0jV27/molmodel-3.0-svn842/debian/tmp/usr/examples/molmodel/src/Makefile make[1]: Leaving directory '/build/molmodel-K0jV27/molmodel-3.0-svn842/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/molmodel-K0jV27/molmodel-3.0-svn842' 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-K0jV27/molmodel-3.0-svn842' 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 -a dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'libsimtkmolmodel-dev' in '../libsimtkmolmodel-dev_3.0~svn842-2_amd64.deb'. dpkg-deb: building package 'libsimtkmolmodel3.0' in '../libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb'. dpkg-deb: building package 'libsimtkmolmodel3.0-dbgsym' in '../libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../molmodel_3.0~svn842-2_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-K0jV27 /tmp/molmodel-3.0~svn842-2co8vqco9 I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.IOncA5CPhD... I: success in 2166.7570 seconds md5: libsimtkmolmodel-dev_3.0~svn842-2_amd64.deb: OK md5: Value of 'md5' differs for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb md5: Size differs for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb md5: Value of 'md5' differs for libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb md5: Size differs for libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb sha1: libsimtkmolmodel-dev_3.0~svn842-2_amd64.deb: OK sha1: Value of 'sha1' differs for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb sha1: Size differs for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb sha1: Value of 'sha1' differs for libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb sha1: Size differs for libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb sha256: libsimtkmolmodel-dev_3.0~svn842-2_amd64.deb: OK sha256: Value of 'sha256' differs for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb sha256: Size differs for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb sha256: Value of 'sha256' differs for libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb sha256: Size differs for libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb Checksums: FAIL Cannot generate diffoscope for libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb: Cannot find URL: http://snapshot.notset.fr/mr/file/5d93c8ed3d73b2d23829fdf9bf39503a3f89769f7f85fd30dc386c92e4c079c6/download diffoscope run passed