I: pbuilder: network access will be disabled during build I: Current time: Fri Jun 4 18:57:12 +14 2021 I: pbuilder-time-stamp: 1622782632 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [molmodel_3.0~svn842-2.dsc] I: copying [./molmodel_3.0~svn842.orig.tar.xz] I: copying [./molmodel_3.0~svn842-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.k2cEh8k_/trustedkeys.kbx': General error gpgv: Signature made Thu Jun 18 18:27:13 2020 +14 gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 gpgv: issuer "merkys@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./molmodel_3.0~svn842-2.dsc dpkg-source: info: extracting molmodel in 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: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/26336/tmp/hooks/D01_modify_environment starting debug: Running on ionos12-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/26336/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/26336/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=10' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=ee39f846728647eabeb4e290442c1e62 LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=26336 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.WEOyOi3Xxn/pbuilderrc_MB2C --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.WEOyOi3Xxn/b2 --logfile b2/build.log --extrapackages usrmerge molmodel_3.0~svn842-2.dsc' SUDO_GID=112 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 4.19.0-16-686-pae #1 SMP Debian 4.19.181-1 (2021-03-19) i686 GNU/Linux I: ls -l /bin total 5776 -rwxr-xr-x 1 root root 1367848 Feb 25 10:57 bash -rwxr-xr-x 3 root root 38280 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 23 2020 cat -rwxr-xr-x 1 root root 71624 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 23 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 23 2020 chown -rwxr-xr-x 1 root root 157960 Sep 23 2020 cp -rwxr-xr-x 1 root root 128724 Dec 11 03:23 dash -rwxr-xr-x 1 root root 124904 Sep 23 2020 date -rwxr-xr-x 1 root root 92172 Sep 23 2020 dd -rwxr-xr-x 1 root root 100752 Sep 23 2020 df -rwxr-xr-x 1 root root 153964 Sep 23 2020 dir -rwxr-xr-x 1 root root 83644 Feb 8 04:38 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 71928 Feb 8 04:38 findmnt -rwsr-xr-x 1 root root 30112 Feb 27 06:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 3 13:30 gzip -rwxr-xr-x 1 root root 21916 Nov 8 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 23 2020 ln -rwxr-xr-x 1 root root 55572 Feb 8 2020 login -rwxr-xr-x 1 root root 153964 Sep 23 2020 ls -rwxr-xr-x 1 root root 153124 Feb 8 04:38 lsblk -rwxr-xr-x 1 root root 96328 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 23 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 58920 Feb 8 04:38 more -rwsr-xr-x 1 root root 50720 Feb 8 04:38 mount -rwxr-xr-x 1 root root 13856 Feb 8 04:38 mountpoint -rwxr-xr-x 1 root root 157996 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Feb 25 10:57 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 23 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 23 2020 rm -rwxr-xr-x 1 root root 46984 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jun 4 18:58 sh -> bash lrwxrwxrwx 1 root root 4 Jun 2 23:26 sh.distrib -> dash -rwxr-xr-x 1 root root 34696 Sep 23 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 23 2020 stty -rwsr-xr-x 1 root root 79396 Feb 8 04:38 su -rwxr-xr-x 1 root root 34696 Sep 23 2020 sync -rwxr-xr-x 1 root root 602584 Feb 17 23:55 tar -rwxr-xr-x 1 root root 13860 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 23 2020 touch -rwxr-xr-x 1 root root 34664 Sep 23 2020 true -rwxr-xr-x 1 root root 17768 Feb 27 06:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Feb 8 04:38 umount -rwxr-xr-x 1 root root 34664 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63024 Feb 8 04:38 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew I: user script /srv/workspace/pbuilder/26336/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: cmake, debhelper-compat (= 13), libmmdb2-dev, libsimbody-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19675 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libmmdb2-dev; however: Package libmmdb2-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimbody-dev; however: Package libsimbody-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} freeglut3{a} freeglut3-dev{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbsd0{a} libcurl4{a} libdebhelper-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libegl-dev{a} libegl-mesa0{a} libegl1{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgbm1{a} libgfortran5{a} libgl-dev{a} libgl1{a} libgl1-mesa-dev{a} libgl1-mesa-dri{a} libglapi-mesa{a} libgles-dev{a} libgles1{a} libgles2{a} libglu1-mesa{a} libglu1-mesa-dev{a} libglvnd-dev{a} libglvnd0{a} libglx-dev{a} libglx-mesa0{a} libglx0{a} libice-dev{a} libice6{a} libicu67{a} libjsoncpp24{a} liblapack-dev{a} liblapack3{a} libldap-2.4-2{a} libllvm11{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmmdb2-0{a} libmmdb2-dev{a} libncurses6{a} libnghttp2-14{a} libopengl-dev{a} libopengl0{a} libpciaccess0{a} libpipeline1{a} libprocps8{a} libpsl5{a} libpthread-stubs0-dev{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsimbody-dev{a} libsimbody3.6{a} libsm-dev{a} libsm6{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libvulkan1{a} libwayland-client0{a} libwayland-server0{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes-dev{a} libxfixes3{a} libxi-dev{a} libxi6{a} libxml2{a} libxmu-dev{a} libxmu-headers{a} libxmu6{a} libxshmfence1{a} libxt-dev{a} libxt6{a} libxxf86vm1{a} libz3-4{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} x11-common{a} x11proto-dev{a} x11proto-input-dev{a} x11proto-xext-dev{a} xorg-sgml-doctools{a} xtrans-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx mesa-vulkan-drivers psmisc publicsuffix wget 0 packages upgraded, 141 newly installed, 0 to remove and 0 not upgraded. Need to get 87.2 MB of archives. After unpacking 336 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-7 [148 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libncurses6 i386 6.2+20201114-2 [110 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 libprocps8 i386 2:3.3.17-5 [64.2 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 procps i386 2:3.3.17-5 [501 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 cmake-data all 3.18.4-2 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-6 [8776 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 libarchive13 i386 3.4.3-2+b1 [384 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libsasl2-modules-db i386 2.1.27+dfsg-2.1 [70.0 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 libsasl2-2 i386 2.1.27+dfsg-2.1 [110 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 libldap-2.4-2 i386 2.4.57+dfsg-3 [244 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 libnghttp2-14 i386 1.43.0-1 [85.7 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 libpsl5 i386 0.21.0-1.2 [57.9 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 libssh2-1 i386 1.9.0-2 [164 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 libcurl4 i386 7.74.0-1.2 [372 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2 [98.8 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libjsoncpp24 i386 1.9.4-4 [86.1 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 librhash0 i386 1.4.1-2 [144 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libuv1 i386 1.40.0-1 [139 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 cmake i386 3.18.4-2 [7029 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 libglvnd0 i386 1.3.2-1 [44.1 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libmd0 i386 1.0.3-3 [28.9 kB] Get: 54 http://deb.debian.org/debian bullseye/main i386 libbsd0 i386 0.11.3-1 [111 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 libxcb1 i386 1.14-3 [144 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libx11-data all 2:1.7.1-1 [310 kB] Get: 58 http://deb.debian.org/debian bullseye/main i386 libx11-6 i386 2:1.7.1-1 [796 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 libdrm-common all 2.4.104-1 [14.9 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 libdrm2 i386 2.4.104-1 [44.3 kB] Get: 61 http://deb.debian.org/debian bullseye/main i386 libglapi-mesa i386 20.3.4-1 [71.6 kB] Get: 62 http://deb.debian.org/debian bullseye/main i386 libx11-xcb1 i386 2:1.7.1-1 [203 kB] Get: 63 http://deb.debian.org/debian bullseye/main i386 libxcb-dri2-0 i386 1.14-3 [103 kB] Get: 64 http://deb.debian.org/debian bullseye/main i386 libxcb-dri3-0 i386 1.14-3 [103 kB] Get: 65 http://deb.debian.org/debian bullseye/main i386 libxcb-glx0 i386 1.14-3 [120 kB] Get: 66 http://deb.debian.org/debian bullseye/main i386 libxcb-present0 i386 1.14-3 [101 kB] Get: 67 http://deb.debian.org/debian bullseye/main i386 libxcb-shm0 i386 1.14-3 [102 kB] Get: 68 http://deb.debian.org/debian bullseye/main i386 libxcb-sync1 i386 1.14-3 [105 kB] Get: 69 http://deb.debian.org/debian bullseye/main i386 libxcb-xfixes0 i386 1.14-3 [105 kB] Get: 70 http://deb.debian.org/debian bullseye/main i386 libxdamage1 i386 1:1.1.5-2 [15.9 kB] Get: 71 http://deb.debian.org/debian bullseye/main i386 libxext6 i386 2:1.3.3-1.1 [55.2 kB] Get: 72 http://deb.debian.org/debian bullseye/main i386 libxfixes3 i386 1:5.0.3-2 [22.6 kB] Get: 73 http://deb.debian.org/debian bullseye/main i386 libxshmfence1 i386 1.3-1 [8976 B] Get: 74 http://deb.debian.org/debian bullseye/main i386 libxxf86vm1 i386 1:1.1.4-1+b2 [21.7 kB] Get: 75 http://deb.debian.org/debian bullseye/main i386 libdrm-amdgpu1 i386 2.4.104-1 [31.5 kB] Get: 76 http://deb.debian.org/debian bullseye/main i386 libpciaccess0 i386 0.16-1 [55.7 kB] Get: 77 http://deb.debian.org/debian bullseye/main i386 libdrm-intel1 i386 2.4.104-1 [74.5 kB] Get: 78 http://deb.debian.org/debian bullseye/main i386 libdrm-nouveau2 i386 2.4.104-1 [28.5 kB] Get: 79 http://deb.debian.org/debian bullseye/main i386 libdrm-radeon1 i386 2.4.104-1 [31.4 kB] Get: 80 http://deb.debian.org/debian bullseye/main i386 libedit2 i386 3.1-20191231-2+b1 [101 kB] Get: 81 http://deb.debian.org/debian bullseye/main i386 libz3-4 i386 4.8.10-1 [7737 kB] Get: 82 http://deb.debian.org/debian bullseye/main i386 libllvm11 i386 1:11.0.1-2 [17.7 MB] Get: 83 http://deb.debian.org/debian bullseye/main i386 libsensors-config all 1:3.6.0-7 [32.3 kB] Get: 84 http://deb.debian.org/debian bullseye/main i386 libsensors5 i386 1:3.6.0-7 [53.2 kB] Get: 85 http://deb.debian.org/debian bullseye/main i386 libvulkan1 i386 1.2.162.0-1 [110 kB] Get: 86 http://deb.debian.org/debian bullseye/main i386 libgl1-mesa-dri i386 20.3.4-1 [9945 kB] Get: 87 http://deb.debian.org/debian bullseye/main i386 libglx-mesa0 i386 20.3.4-1 [195 kB] Get: 88 http://deb.debian.org/debian bullseye/main i386 libglx0 i386 1.3.2-1 [39.1 kB] Get: 89 http://deb.debian.org/debian bullseye/main i386 libgl1 i386 1.3.2-1 [83.6 kB] Get: 90 http://deb.debian.org/debian bullseye/main i386 libxi6 i386 2:1.7.10-1 [85.1 kB] Get: 91 http://deb.debian.org/debian bullseye/main i386 freeglut3 i386 2.8.1-6 [124 kB] Get: 92 http://deb.debian.org/debian bullseye/main i386 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 93 http://deb.debian.org/debian bullseye/main i386 x11proto-dev all 2020.1-1 [594 kB] Get: 94 http://deb.debian.org/debian bullseye/main i386 libxau-dev i386 1:1.0.9-1 [23.3 kB] Get: 95 http://deb.debian.org/debian bullseye/main i386 libxdmcp-dev i386 1:1.1.2-3 [42.7 kB] Get: 96 http://deb.debian.org/debian bullseye/main i386 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 97 http://deb.debian.org/debian bullseye/main i386 libpthread-stubs0-dev i386 0.4-1 [5340 B] Get: 98 http://deb.debian.org/debian bullseye/main i386 libxcb1-dev i386 1.14-3 [181 kB] Get: 99 http://deb.debian.org/debian bullseye/main i386 libx11-dev i386 2:1.7.1-1 [875 kB] Get: 100 http://deb.debian.org/debian bullseye/main i386 libglx-dev i386 1.3.2-1 [16.3 kB] Get: 101 http://deb.debian.org/debian bullseye/main i386 libgl-dev i386 1.3.2-1 [100 kB] Get: 102 http://deb.debian.org/debian bullseye/main i386 libwayland-server0 i386 1.18.0-2~exp1.1 [36.0 kB] Get: 103 http://deb.debian.org/debian bullseye/main i386 libgbm1 i386 20.3.4-1 [74.7 kB] Get: 104 http://deb.debian.org/debian bullseye/main i386 libwayland-client0 i386 1.18.0-2~exp1.1 [27.7 kB] Get: 105 http://deb.debian.org/debian bullseye/main i386 libegl-mesa0 i386 20.3.4-1 [148 kB] Get: 106 http://deb.debian.org/debian bullseye/main i386 libegl1 i386 1.3.2-1 [36.7 kB] Get: 107 http://deb.debian.org/debian bullseye/main i386 libegl-dev i386 1.3.2-1 [19.5 kB] Get: 108 http://deb.debian.org/debian bullseye/main i386 libgles1 i386 1.3.2-1 [12.5 kB] Get: 109 http://deb.debian.org/debian bullseye/main i386 libgles2 i386 1.3.2-1 [17.3 kB] Get: 110 http://deb.debian.org/debian bullseye/main i386 libgles-dev i386 1.3.2-1 [50.3 kB] Get: 111 http://deb.debian.org/debian bullseye/main i386 libopengl0 i386 1.3.2-1 [29.9 kB] Get: 112 http://deb.debian.org/debian bullseye/main i386 libopengl-dev i386 1.3.2-1 [5868 B] Get: 113 http://deb.debian.org/debian bullseye/main i386 libglvnd-dev i386 1.3.2-1 [13.9 kB] Get: 114 http://deb.debian.org/debian bullseye/main i386 libgl1-mesa-dev i386 20.3.4-1 [51.1 kB] Get: 115 http://deb.debian.org/debian bullseye/main i386 libglu1-mesa i386 9.0.1-1 [178 kB] Get: 116 http://deb.debian.org/debian bullseye/main i386 libglu1-mesa-dev i386 9.0.1-1 [223 kB] Get: 117 http://deb.debian.org/debian bullseye/main i386 x11proto-xext-dev all 2020.1-1 [3404 B] Get: 118 http://deb.debian.org/debian bullseye/main i386 libxext-dev i386 2:1.3.3-1.1 [111 kB] Get: 119 http://deb.debian.org/debian bullseye/main i386 x11-common all 1:7.7+22 [252 kB] Get: 120 http://deb.debian.org/debian bullseye/main i386 libice6 i386 2:1.0.10-1 [60.8 kB] Get: 121 http://deb.debian.org/debian bullseye/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 122 http://deb.debian.org/debian bullseye/main i386 libxt6 i386 1:1.2.0-1 [195 kB] Get: 123 http://deb.debian.org/debian bullseye/main i386 libice-dev i386 2:1.0.10-1 [70.5 kB] Get: 124 http://deb.debian.org/debian bullseye/main i386 libsm-dev i386 2:1.2.3-1 [38.8 kB] Get: 125 http://deb.debian.org/debian bullseye/main i386 libxt-dev i386 1:1.2.0-1 [421 kB] Get: 126 http://deb.debian.org/debian bullseye/main i386 freeglut3-dev i386 2.8.1-6 [182 kB] Get: 127 http://deb.debian.org/debian bullseye/main i386 libblas3 i386 3.9.0-3 [147 kB] Get: 128 http://deb.debian.org/debian bullseye/main i386 libblas-dev i386 3.9.0-3 [157 kB] Get: 129 http://deb.debian.org/debian bullseye/main i386 libgfortran5 i386 10.2.1-6 [643 kB] Get: 130 http://deb.debian.org/debian bullseye/main i386 liblapack3 i386 3.9.0-3 [1960 kB] Get: 131 http://deb.debian.org/debian bullseye/main i386 liblapack-dev i386 3.9.0-3 [3759 kB] Get: 132 http://deb.debian.org/debian bullseye/main i386 libmmdb2-0 i386 2.0.5-1 [359 kB] Get: 133 http://deb.debian.org/debian bullseye/main i386 libmmdb2-dev i386 2.0.5-1 [91.9 kB] Get: 134 http://deb.debian.org/debian bullseye/main i386 libxfixes-dev i386 1:5.0.3-2 [24.7 kB] Get: 135 http://deb.debian.org/debian bullseye/main i386 x11proto-input-dev all 2020.1-1 [3412 B] Get: 136 http://deb.debian.org/debian bullseye/main i386 libxi-dev i386 2:1.7.10-1 [245 kB] Get: 137 http://deb.debian.org/debian bullseye/main i386 libxmu6 i386 2:1.1.2-2+b3 [62.8 kB] Get: 138 http://deb.debian.org/debian bullseye/main i386 libxmu-headers all 2:1.1.2-2 [51.9 kB] Get: 139 http://deb.debian.org/debian bullseye/main i386 libxmu-dev i386 2:1.1.2-2+b3 [70.3 kB] Get: 140 http://deb.debian.org/debian bullseye/main i386 libsimbody3.6 i386 3.6.1+dfsg-7 [3230 kB] Get: 141 http://deb.debian.org/debian bullseye/main i386 libsimbody-dev i386 3.6.1+dfsg-7 [2726 kB] Fetched 87.2 MB in 21s (4193 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19675 files and directories currently installed.) Preparing to unpack .../000-bsdextrautils_2.36.1-7_i386.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../001-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../002-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../003-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../004-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../005-libncurses6_6.2+20201114-2_i386.deb ... Unpacking libncurses6:i386 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:i386. Preparing to unpack .../006-libprocps8_2%3a3.3.17-5_i386.deb ... Unpacking libprocps8:i386 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../007-procps_2%3a3.3.17-5_i386.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../008-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../009-libmagic-mgc_1%3a5.39-3_i386.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../010-libmagic1_1%3a5.39-3_i386.deb ... Unpacking libmagic1:i386 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../011-file_1%3a5.39-3_i386.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../012-gettext-base_0.21-4_i386.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../013-libsigsegv2_2.13-1_i386.deb ... Unpacking libsigsegv2:i386 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../014-m4_1.4.18-5_i386.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../015-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../016-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../017-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../018-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../019-cmake-data_3.18.4-2_all.deb ... Unpacking cmake-data (3.18.4-2) ... Selecting previously unselected package libicu67:i386. Preparing to unpack .../020-libicu67_67.1-6_i386.deb ... Unpacking libicu67:i386 (67.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../021-libxml2_2.9.10+dfsg-6.7_i386.deb ... Unpacking libxml2:i386 (2.9.10+dfsg-6.7) ... Selecting previously unselected package libarchive13:i386. Preparing to unpack .../022-libarchive13_3.4.3-2+b1_i386.deb ... Unpacking libarchive13:i386 (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:i386. Preparing to unpack .../023-libbrotli1_1.0.9-2+b2_i386.deb ... Unpacking libbrotli1:i386 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../024-libsasl2-modules-db_2.1.27+dfsg-2.1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../025-libsasl2-2_2.1.27+dfsg-2.1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../026-libldap-2.4-2_2.4.57+dfsg-3_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../027-libnghttp2-14_1.43.0-1_i386.deb ... Unpacking libnghttp2-14:i386 (1.43.0-1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../028-libpsl5_0.21.0-1.2_i386.deb ... Unpacking libpsl5:i386 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../029-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../030-libssh2-1_1.9.0-2_i386.deb ... Unpacking libssh2-1:i386 (1.9.0-2) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../031-libcurl4_7.74.0-1.2_i386.deb ... Unpacking libcurl4:i386 (7.74.0-1.2) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../032-libexpat1_2.2.10-2_i386.deb ... Unpacking libexpat1:i386 (2.2.10-2) ... Selecting previously unselected package libjsoncpp24:i386. Preparing to unpack .../033-libjsoncpp24_1.9.4-4_i386.deb ... Unpacking libjsoncpp24:i386 (1.9.4-4) ... Selecting previously unselected package librhash0:i386. Preparing to unpack .../034-librhash0_1.4.1-2_i386.deb ... Unpacking librhash0:i386 (1.4.1-2) ... Selecting previously unselected package libuv1:i386. Preparing to unpack .../035-libuv1_1.40.0-1_i386.deb ... Unpacking libuv1:i386 (1.40.0-1) ... Selecting previously unselected package cmake. Preparing to unpack .../036-cmake_3.18.4-2_i386.deb ... Unpacking cmake (3.18.4-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../037-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../038-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../039-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../040-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../041-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../042-libfile-stripnondeterminism-perl_1.11.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.11.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../043-dh-strip-nondeterminism_1.11.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.11.0-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../044-libelf1_0.183-1_i386.deb ... Unpacking libelf1:i386 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../045-dwz_0.13+20210201-1_i386.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package gettext. Preparing to unpack .../046-gettext_0.21-4_i386.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../047-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../048-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../049-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package libglvnd0:i386. Preparing to unpack .../050-libglvnd0_1.3.2-1_i386.deb ... Unpacking libglvnd0:i386 (1.3.2-1) ... Selecting previously unselected package libxau6:i386. Preparing to unpack .../051-libxau6_1%3a1.0.9-1_i386.deb ... Unpacking libxau6:i386 (1:1.0.9-1) ... Selecting previously unselected package libmd0:i386. Preparing to unpack .../052-libmd0_1.0.3-3_i386.deb ... Unpacking libmd0:i386 (1.0.3-3) ... Selecting previously unselected package libbsd0:i386. Preparing to unpack .../053-libbsd0_0.11.3-1_i386.deb ... Unpacking libbsd0:i386 (0.11.3-1) ... Selecting previously unselected package libxdmcp6:i386. Preparing to unpack .../054-libxdmcp6_1%3a1.1.2-3_i386.deb ... Unpacking libxdmcp6:i386 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:i386. Preparing to unpack .../055-libxcb1_1.14-3_i386.deb ... Unpacking libxcb1:i386 (1.14-3) ... Selecting previously unselected package libx11-data. Preparing to unpack .../056-libx11-data_2%3a1.7.1-1_all.deb ... Unpacking libx11-data (2:1.7.1-1) ... Selecting previously unselected package libx11-6:i386. Preparing to unpack .../057-libx11-6_2%3a1.7.1-1_i386.deb ... Unpacking libx11-6:i386 (2:1.7.1-1) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../058-libdrm-common_2.4.104-1_all.deb ... Unpacking libdrm-common (2.4.104-1) ... Selecting previously unselected package libdrm2:i386. Preparing to unpack .../059-libdrm2_2.4.104-1_i386.deb ... Unpacking libdrm2:i386 (2.4.104-1) ... Selecting previously unselected package libglapi-mesa:i386. Preparing to unpack .../060-libglapi-mesa_20.3.4-1_i386.deb ... Unpacking libglapi-mesa:i386 (20.3.4-1) ... Selecting previously unselected package libx11-xcb1:i386. Preparing to unpack .../061-libx11-xcb1_2%3a1.7.1-1_i386.deb ... Unpacking libx11-xcb1:i386 (2:1.7.1-1) ... Selecting previously unselected package libxcb-dri2-0:i386. Preparing to unpack .../062-libxcb-dri2-0_1.14-3_i386.deb ... Unpacking libxcb-dri2-0:i386 (1.14-3) ... Selecting previously unselected package libxcb-dri3-0:i386. Preparing to unpack .../063-libxcb-dri3-0_1.14-3_i386.deb ... Unpacking libxcb-dri3-0:i386 (1.14-3) ... Selecting previously unselected package libxcb-glx0:i386. Preparing to unpack .../064-libxcb-glx0_1.14-3_i386.deb ... Unpacking libxcb-glx0:i386 (1.14-3) ... Selecting previously unselected package libxcb-present0:i386. Preparing to unpack .../065-libxcb-present0_1.14-3_i386.deb ... Unpacking libxcb-present0:i386 (1.14-3) ... Selecting previously unselected package libxcb-shm0:i386. Preparing to unpack .../066-libxcb-shm0_1.14-3_i386.deb ... Unpacking libxcb-shm0:i386 (1.14-3) ... Selecting previously unselected package libxcb-sync1:i386. Preparing to unpack .../067-libxcb-sync1_1.14-3_i386.deb ... Unpacking libxcb-sync1:i386 (1.14-3) ... Selecting previously unselected package libxcb-xfixes0:i386. Preparing to unpack .../068-libxcb-xfixes0_1.14-3_i386.deb ... Unpacking libxcb-xfixes0:i386 (1.14-3) ... Selecting previously unselected package libxdamage1:i386. Preparing to unpack .../069-libxdamage1_1%3a1.1.5-2_i386.deb ... Unpacking libxdamage1:i386 (1:1.1.5-2) ... Selecting previously unselected package libxext6:i386. 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Setting up libpciaccess0:i386 (0.16-1) ... Setting up libxau6:i386 (1:1.0.9-1) ... Setting up libpsl5:i386 (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:i386 (67.1-6) ... Setting up libmmdb2-0:i386 (2.0.5-1) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglvnd0:i386 (1.3.2-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:i386 (1.0.9-2+b2) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libsensors-config (1:3.6.0-7) ... Setting up libnghttp2-14:i386 (1.43.0-1) ... Setting up libmagic1:i386 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libpthread-stubs0-dev:i386 (0.4-1) ... Setting up libopengl0:i386 (1.3.2-1) ... Setting up libsasl2-modules-db:i386 (2.1.27+dfsg-2.1) ... Setting up xtrans-dev (1.4.0-1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libz3-4:i386 (4.8.10-1) ... Setting up libblas3:i386 (3.9.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libuv1:i386 (1.40.0-1) ... Setting up libgles2:i386 (1.3.2-1) ... Setting up libx11-data (2:1.7.1-1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:i386 (6.2+20201114-2) ... Setting up libgles1:i386 (1.3.2-1) ... Setting up libsigsegv2:i386 (2.13-1) ... Setting up libmmdb2-dev (2.0.5-1) ... Setting up autopoint (0.21-4) ... Setting up libsensors5:i386 (1:3.6.0-7) ... Setting up libglapi-mesa:i386 (20.3.4-1) ... Setting up libsasl2-2:i386 (2.1.27+dfsg-2.1) ... Setting up libgfortran5:i386 (10.2.1-6) ... Setting up libvulkan1:i386 (1.2.162.0-1) ... Setting up libjsoncpp24:i386 (1.9.4-4) ... Setting up libmd0:i386 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libxshmfence1:i386 (1.3-1) ... Setting up librhash0:i386 (1.4.1-2) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:i386 (1.9.0-2) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up cmake-data (3.18.4-2) ... Setting up libopengl-dev:i386 (1.3.2-1) ... Setting up libbsd0:i386 (0.11.3-1) ... Setting up libdrm-common (2.4.104-1) ... Setting up libelf1:i386 (0.183-1) ... Setting up libxml2:i386 (2.9.10+dfsg-6.7) ... Setting up libprocps8:i386 (2:3.3.17-5) ... Setting up libblas-dev:i386 (3.9.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so to provide /usr/lib/i386-linux-gnu/libblas.so (libblas.so-i386-linux-gnu) in auto mode Setting up libwayland-client0:i386 (1.18.0-2~exp1.1) ... Setting up x11proto-dev (2020.1-1) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up libice6:i386 (2:1.0.10-1) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up liblapack3:i386 (3.9.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up libxcb1:i386 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up libxcb-xfixes0:i386 (1.14-3) ... Setting up libxau-dev:i386 (1:1.0.9-1) ... Setting up libice-dev:i386 (2:1.0.10-1) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:i386 (3.4.3-2+b1) ... Setting up libxcb-glx0:i386 (1.14-3) ... Setting up libedit2:i386 (3.1-20191231-2+b1) ... Setting up libldap-2.4-2:i386 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libxcb-shm0:i386 (1.14-3) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxcb-present0:i386 (1.14-3) ... Setting up libxdmcp-dev:i386 (1:1.1.2-3) ... Setting up libllvm11:i386 (1:11.0.1-2) ... Setting up libxcb-sync1:i386 (1.14-3) ... Setting up liblapack-dev:i386 (3.9.0-3) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so to provide /usr/lib/i386-linux-gnu/liblapack.so (liblapack.so-i386-linux-gnu) in auto mode Setting up x11proto-input-dev (2020.1-1) ... Setting up autoconf (2.69-14) ... Setting up libxcb-dri2-0:i386 (1.14-3) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up x11proto-xext-dev (2020.1-1) ... Setting up libdrm2:i386 (2.4.104-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:i386 (7.74.0-1.2) ... Setting up libx11-6:i386 (2:1.7.1-1) ... Setting up libsm6:i386 (2:1.2.3-1) ... Setting up libdrm-amdgpu1:i386 (2.4.104-1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libxcb-dri3-0:i386 (1.14-3) ... Setting up libx11-xcb1:i386 (2:1.7.1-1) ... Setting up libdrm-nouveau2:i386 (2.4.104-1) ... Setting up libxdamage1:i386 (1:1.1.5-2) ... Setting up libxcb1-dev:i386 (1.14-3) ... Setting up libgbm1:i386 (20.3.4-1) ... Setting up libsm-dev:i386 (2:1.2.3-1) ... Setting up libdrm-radeon1:i386 (2.4.104-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libdrm-intel1:i386 (2.4.104-1) ... Setting up libgl1-mesa-dri:i386 (20.3.4-1) ... Setting up libx11-dev:i386 (2:1.7.1-1) ... Setting up libxext6:i386 (2:1.3.3-1.1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxxf86vm1:i386 (1:1.1.4-1+b2) ... Setting up dh-autoreconf (20) ... Setting up libegl-mesa0:i386 (20.3.4-1) ... Setting up libxfixes3:i386 (1:5.0.3-2) ... Setting up libxt6:i386 (1:1.2.0-1) ... Setting up libxext-dev:i386 (2:1.3.3-1.1) ... Setting up libegl1:i386 (1.3.2-1) ... Setting up cmake (3.18.4-2) ... Setting up libxmu-headers (2:1.1.2-2) ... Setting up libxmu6:i386 (2:1.1.2-2+b3) ... Setting up libglx-mesa0:i386 (20.3.4-1) ... Setting up libxi6:i386 (2:1.7.10-1) ... Setting up libglx0:i386 (1.3.2-1) ... Setting up debhelper (13.3.4) ... Setting up libxfixes-dev:i386 (1:5.0.3-2) ... Setting up libgl1:i386 (1.3.2-1) ... Setting up libxt-dev:i386 (1:1.2.0-1) ... Setting up libglx-dev:i386 (1.3.2-1) ... Setting up libglu1-mesa:i386 (9.0.1-1) ... Setting up libxi-dev:i386 (2:1.7.10-1) ... Setting up libgl-dev:i386 (1.3.2-1) ... Setting up freeglut3:i386 (2.8.1-6) ... Setting up libegl-dev:i386 (1.3.2-1) ... Setting up libxmu-dev:i386 (2:1.1.2-2+b3) ... Setting up libglu1-mesa-dev:i386 (9.0.1-1) ... Setting up libsimbody3.6:i386 (3.6.1+dfsg-7) ... Setting up libgles-dev:i386 (1.3.2-1) ... Setting up libglvnd-dev:i386 (1.3.2-1) ... Setting up libgl1-mesa-dev:i386 (20.3.4-1) ... Setting up freeglut3-dev:i386 (2.8.1-6) ... Setting up libsimbody-dev:i386 (3.6.1+dfsg-7) ... Processing triggers for libc-bin (2.31-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl The following NEW packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 59.5 kB of archives. After this operation, 157 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main i386 libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main i386 libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main i386 usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (1464 kB/s) Selecting previously unselected package libnumber-compare-perl. (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 ... 26763 files and directories currently installed.) Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... Unpacking libnumber-compare-perl (0.03-1.1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... Unpacking libtext-glob-perl (0.11-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package usrmerge. Preparing to unpack .../archives/usrmerge_25_all.deb ... Unpacking usrmerge (25) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (25) ... The system has been successfully converted. Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package I: Running cd /build/molmodel-3.0~svn842/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b 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 i386 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-i686-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/i386-linux-gnu .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Could NOT find OpenMM (missing: OpenMM_INCLUDE_DIR OpenMM_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-3.0~svn842/obj-i686-linux-gnu dh_auto_build cd obj-i686-linux-gnu && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' /usr/bin/cmake -S"/build/molmodel-3.0~svn842" -B"/build/molmodel-3.0~svn842/obj-i686-linux-gnu" --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/CMakeFiles" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu//CMakeFiles/progress.marks" make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f sharedTarget/CMakeFiles/SimTKmolmodel.dir/build.make sharedTarget/CMakeFiles/SimTKmolmodel.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/sharedTarget" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget/CMakeFiles/SimTKmolmodel.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget/CMakeFiles/SimTKmolmodel.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget/CMakeFiles/SimTKmolmodel.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget/CMakeFiles/SimTKmolmodel.dir/depend.internal". Scanning dependencies of target SimTKmolmodel make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f sharedTarget/CMakeFiles/SimTKmolmodel.dir/build.make sharedTarget/CMakeFiles/SimTKmolmodel.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Compound.cpp.o [ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o [ 2%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o [ 3%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/Compound.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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/About.cpp.o -c "/build/molmodel-3.0~svn842/src/About.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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/AtomSubsystem.cpp.o -c "/build/molmodel-3.0~svn842/src/AtomSubsystem.cpp" [ 4%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystem.cpp.o [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystemRep.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/Biotype.cpp" [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/CompoundSystem.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/BondGeometry.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/DuMMForceFieldSubsystem.cpp" [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/CompoundSystem.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/DuMMForceFieldSubsystemRep.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/Element.cpp" [ 7%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/MolecularMechanicsSystem.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/MolecularMechanicsSystem.cpp" [ 8%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PDBReader.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/PDBReader.cpp" [ 9%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" 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-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/PeriodicVmdReporter.cpp" [ 10%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/RiboseMobilizer.cpp" [ 11%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/TinkerAmber99.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/TinkerAmber99.cpp" [ 11%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VanderWallSphere.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/VanderWallSphere.cpp" [ 12%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VelocityRescalingThermostat.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/VelocityRescalingThermostat.cpp" [ 13%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/VmdConnection.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/VmdConnection.cpp" [ 14%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuImplicitSolvent.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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/CpuImplicitSolvent.cpp.o -c "/build/molmodel-3.0~svn842/src/gbsa/CpuImplicitSolvent.cpp" [ 14%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/CpuObc.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/CpuObc.cpp" [ 15%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ImplicitSolventParameters.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/ImplicitSolventParameters.cpp" [ 16%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/ObcParameters.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/ObcParameters.cpp" [ 16%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMCommon.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/SimTKOpenMMCommon.cpp" [ 17%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMLog.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/SimTKOpenMMLog.cpp" [ 18%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/SimTKOpenMMUtilities.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/SimTKOpenMMUtilities.cpp" [ 19%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/gbsa/cpuObcInterface.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/gbsa/cpuObcInterface.cpp" [ 19%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/imd.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/imd.cpp" [ 20%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/mol.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/mol.cpp" [ 21%] Building C object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/vmdsock.c.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/src/vmdsock.c" /build/molmodel-3.0~svn842/src/mol.cpp: In function 'void mol_DbGromacsRead(MolModel*, FILE*)': /build/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++/10/cstdio:42, from /build/molmodel-3.0~svn842/src/mol.h:14, from /build/molmodel-3.0~svn842/src/mol.cpp:15: /usr/include/i386-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 ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/molmodel-3.0~svn842/src/Biotype.cpp: In static member function 'static void SimTK::Biotype::initializePopularBiotypes()': /build/molmodel-3.0~svn842/src/Biotype.cpp:473:19: note: variable tracking size limit exceeded with '-fvar-tracking-assignments', retrying without 473 | /* static */ void Biotype::initializePopularBiotypes() | ^~~~~~~ [ 21%] Linking CXX shared library ../libSimTKmolmodel.so cd "/build/molmodel-3.0~svn842/obj-i686-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-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/i386-linux-gnu/libSimTKsimbody.so.3.6 -lmmdb2 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/obj-i686-linux-gnu' [ 21%] Built target SimTKmolmodel make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/depend make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/depend make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/depend make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make examples/CMakeFiles/MolmodelInstallTest.dir/depend make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/depend make -f examples/CMakeFiles/ExampleTwoArgonAtoms.dir/build.make examples/CMakeFiles/ExampleTwoArgonAtoms.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/DependInfo.cmake" --color= cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleFoldPolyalanine.dir/DependInfo.cmake" --color= make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/depend make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/depend make -f examples/CMakeFiles/ExampleSimpleRNA.dir/build.make examples/CMakeFiles/ExampleSimpleRNA.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/DependInfo.cmake" --color= cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleCreatePropane.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleFoldPolyalanine.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleFoldPolyalanine.dir/depend.internal". 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Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleCreatePropane.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleCreatePropane.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleCreatePropane.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/depend.internal". Scanning dependencies of target ExampleAdenylateMobilitiesViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build Scanning dependencies of target ExampleSimpleRNA make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleSimpleRNA.dir/build.make examples/CMakeFiles/ExampleSimpleRNA.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target ExampleSimpleProtein make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/build Scanning dependencies of target ExampleLoadPdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/build Scanning dependencies of target ExampleTwoArgonAtoms make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleTwoArgonAtoms.dir/build.make examples/CMakeFiles/ExampleTwoArgonAtoms.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target MolmodelInstallTest [ 22%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/ExampleAdenylateMobilitiesViz.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleAdenylateMobilitiesViz.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 23%] Building CXX object examples/CMakeFiles/ExampleSimpleRNA.dir/ExampleSimpleRNA.cpp.o make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make examples/CMakeFiles/MolmodelInstallTest.dir/build cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleSimpleRNA.cpp" make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target ExampleFoldPolyalanine [ 24%] Building CXX object examples/CMakeFiles/ExampleTwoArgonAtoms.dir/ExampleTwoArgonAtoms.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleTwoArgonAtoms.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/build Scanning dependencies of target ExampleAdenylateMobilitiesVMD [ 24%] Building CXX object examples/CMakeFiles/ExampleSimpleProtein.dir/ExampleSimpleProtein.cpp.o [ 24%] Building CXX object examples/CMakeFiles/ExampleLoadPdb2.dir/ExampleLoadPdb2.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleLoadPdb2.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleSimpleProtein.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target ExampleRigidProtein Scanning dependencies of target ExampleCreatePropane make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/build [ 25%] Building CXX object examples/CMakeFiles/MolmodelInstallTest.dir/MolmodelInstallTest.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/MolmodelInstallTest.cpp" make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 25%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/ExampleAdenylateMobilitiesVMD.cpp.o [ 26%] Building CXX object examples/CMakeFiles/ExampleFoldPolyalanine.dir/ExampleFoldPolyalanine.cpp.o make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleFoldPolyalanine.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleAdenylateMobilitiesVMD.cpp" [ 27%] Building CXX object examples/CMakeFiles/ExampleCreatePropane.dir/ExampleCreatePropane.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleCreatePropane.cpp" [ 28%] Building CXX object examples/CMakeFiles/ExampleRigidProtein.dir/ExampleRigidProtein.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleRigidProtein.cpp" [ 29%] Linking CXX executable ../ExampleTwoArgonAtoms cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 30%] Linking CXX executable ../ExampleLoadPdb2 cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 30%] Built target ExampleTwoArgonAtoms make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/depend.internal". Scanning dependencies of target ExampleTwoEthanes make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 31%] Building CXX object examples/CMakeFiles/ExampleTwoEthanes.dir/ExampleTwoEthanes.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleTwoEthanes.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 31%] Built target ExampleLoadPdb2 make -f examples/CMakeFiles/ExampleLoadPdb.dir/build.make examples/CMakeFiles/ExampleLoadPdb.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/depend.internal". Scanning dependencies of target ExampleLoadPdb make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/ExampleLoadPdb.dir/build.make examples/CMakeFiles/ExampleLoadPdb.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 32%] Building CXX object examples/CMakeFiles/ExampleLoadPdb.dir/ExampleLoadPdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/ExampleLoadPdb.cpp" [ 33%] Linking CXX executable ../ExampleCreatePropane cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 33%] Built target ExampleCreatePropane make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend.internal". Scanning dependencies of target MolmodelInstallTestNoViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 33%] Building CXX object examples/CMakeFiles/MolmodelInstallTestNoViz.dir/MolmodelInstallTestNoViz.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/examples/MolmodelInstallTestNoViz.cpp" [ 34%] Linking CXX executable ../ExampleSimpleProtein cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 34%] Linking CXX executable ../ExampleAdenylateMobilitiesViz cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 34%] Linking CXX executable ../ExampleSimpleRNA cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 35%] Linking CXX executable ../ExampleAdenylateMobilitiesVMD cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wl,-z,relro -rdynamic CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/ExampleAdenylateMobilitiesVMD.cpp.o -o ../ExampleAdenylateMobilitiesVMD -Wl,-rpath,"/build/molmodel-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 35%] Built target ExampleSimpleProtein make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/depend.internal". Scanning dependencies of target TestWriteSimtimePdb make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 36%] Building CXX object tests/CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestWriteSimtimePdb.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 36%] Built target ExampleAdenylateMobilitiesViz make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/depend.internal". [ 36%] Built target ExampleSimpleRNA make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/depend.internal". Scanning dependencies of target TestTorsionPartitioner make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 37%] Building CXX object tests/CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestTorsionPartitioner.cpp" Scanning dependencies of target TestTinkerAmber make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 38%] Building CXX object tests/CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestTinkerAmber.cpp" [ 38%] Built target ExampleAdenylateMobilitiesVMD make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend.internal". [ 39%] Linking CXX executable ../ExampleRigidProtein cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleRigidProtein.dir/link.txt --verbose=1 Scanning dependencies of target TestVelocityRescalingThermostat make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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/ExampleRigidProtein.dir/ExampleRigidProtein.cpp.o -o ../ExampleRigidProtein -Wl,-rpath,"/build/molmodel-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 40%] Building CXX object tests/CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestVelocityRescalingThermostat.cpp" [ 40%] Linking CXX executable ../ExampleFoldPolyalanine cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 41%] Linking CXX executable ../MolmodelInstallTest cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 41%] Built target ExampleRigidProtein make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/depend.internal". Scanning dependencies of target TestShortPdbLines make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 41%] Building CXX object tests/CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestShortPdbLines.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 41%] Built target MolmodelInstallTest make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGbsa.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGbsa.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGbsa.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGbsa.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 41%] Built target ExampleFoldPolyalanine make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/depend.internal". Scanning dependencies of target TestGbsa make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/build Scanning dependencies of target TestGetAtomName make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 42%] Building CXX object tests/CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o [ 42%] Building CXX object tests/CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestGetAtomName.cpp" cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestGbsa.cpp" [ 42%] Linking CXX executable ../ExampleTwoEthanes cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 43%] Linking CXX executable ../ExampleLoadPdb cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 43%] Built target ExampleTwoEthanes make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/depend.internal". Scanning dependencies of target TestProteinDihedrals make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 43%] Building CXX object tests/CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestProteinDihedrals.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 43%] Built target ExampleLoadPdb make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/depend.internal". Scanning dependencies of target TestDuMMForces make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 43%] Building CXX object tests/CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestDuMMForces.cpp" [ 44%] Linking CXX executable ../TestShortPdbLines cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 44%] Linking CXX executable ../TestTinkerAmber cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 44%] Built target TestShortPdbLines make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/depend.internal". Scanning dependencies of target TestForeignBodyIds make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 45%] Building CXX object tests/CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestForeignBodyIds.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 45%] Built target TestTinkerAmber make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRna.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRna.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRna.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRna.dir/depend.internal". Scanning dependencies of target TestRna make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 45%] Building CXX object tests/CMakeFiles/TestRna.dir/TestRna.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestRna.cpp" [ 46%] Linking CXX executable ../MolmodelInstallTestNoViz cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 46%] Linking CXX executable ../TestVelocityRescalingThermostat cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 46%] Built target MolmodelInstallTestNoViz make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend.internal". Scanning dependencies of target TestLoneAtomCoordinates make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 47%] Building CXX object tests/CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestLoneAtomCoordinates.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 47%] Built target TestVelocityRescalingThermostat make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/depend.internal". Scanning dependencies of target TestCompoundTransforms make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 48%] Building CXX object tests/CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestCompoundTransforms.cpp" [ 49%] Linking CXX executable ../TestWriteSimtimePdb cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 49%] Built target TestWriteSimtimePdb make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProtein.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestProtein.dir/depend.internal". Scanning dependencies of target TestProtein make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 50%] Building CXX object tests/CMakeFiles/TestProtein.dir/TestProtein.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestProtein.cpp" [ 51%] Linking CXX executable ../TestGetAtomName cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 51%] Built target TestGetAtomName make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/depend.internal". Scanning dependencies of target TestBiotypeSelfCode make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 52%] Building CXX object tests/CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestBiotypeSelfCode.cpp" [ 53%] Linking CXX executable ../TestGbsa cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 54%] Linking CXX executable ../TestProteinDihedrals cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProteinDihedrals.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 55%] Linking CXX executable ../TestTorsionPartitioner cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTorsionPartitioner.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 55%] Built target TestGbsa make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/depend.internal". Scanning dependencies of target TestWriteDefaultPdb make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 56%] Building CXX object tests/CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestWriteDefaultPdb.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 56%] Built target TestProteinDihedrals make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestEthane.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestEthane.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestEthane.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestEthane.dir/depend.internal". Scanning dependencies of target TestEthane make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 57%] Building CXX object tests/CMakeFiles/TestEthane.dir/TestEthane.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestEthane.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 57%] Built target TestTorsionPartitioner make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend.internal". Scanning dependencies of target TestLoadVariantRnaAtomNames make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 57%] Building CXX object tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestLoadVariantRnaAtomNames.cpp" [ 58%] Linking CXX executable ../TestCompoundTransforms cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 59%] Linking CXX executable ../TestForeignBodyIds cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 59%] Linking CXX executable ../TestLoneAtomCoordinates cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 60%] Linking CXX executable ../TestDuMMForces cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 60%] Built target TestCompoundTransforms make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/depend.internal". Scanning dependencies of target TestBiopolymer make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 61%] Building CXX object tests/CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestBiopolymer.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 61%] Built target TestLoneAtomCoordinates make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 61%] Built target TestForeignBodyIds make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/depend.internal". Scanning dependencies of target TestBodyIds make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target TestAtomTargetLocations make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 61%] Building CXX object tests/CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestBodyIds.cpp" [ 62%] Building CXX object tests/CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestAtomTargetLocations.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 62%] Built target TestDuMMForces make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/depend.internal". Scanning dependencies of target TestMethaneCartesian make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 63%] Building CXX object tests/CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestMethaneCartesian.cpp" [ 64%] Linking CXX executable ../TestBiotypeSelfCode cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 64%] Built target TestBiotypeSelfCode make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/depend.internal". Scanning dependencies of target TestPartitionerDihedrals make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 65%] Building CXX object tests/CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestPartitionerDihedrals.cpp" [ 66%] Linking CXX executable ../TestRna cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 67%] Linking CXX executable ../TestProtein cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 67%] Built target TestRna make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 67%] Built target TestProtein make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/DependInfo.cmake" --color= Scanning dependencies of target TestSetTorsion make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/depend.internal". [ 68%] Building CXX object tests/CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestSetTorsion.cpp" Scanning dependencies of target TestNoseHooverThermostat make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 68%] Building CXX object tests/CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestNoseHooverThermostat.cpp" [ 69%] Linking CXX executable ../TestWriteDefaultPdb cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 69%] Built target TestWriteDefaultPdb make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/depend.internal". Scanning dependencies of target TestNucleotide2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 70%] Building CXX object tests/CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestNucleotide2.cpp" [ 71%] Linking CXX executable ../TestLoadVariantRnaAtomNames cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 72%] Linking CXX executable ../TestMethaneCartesian cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 72%] Built target TestLoadVariantRnaAtomNames make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/depend.internal". Scanning dependencies of target TestRiboseMobilizer make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 73%] Building CXX object tests/CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestRiboseMobilizer.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 73%] Built target TestMethaneCartesian make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethanol.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethanol.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethanol.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMethanol.dir/depend.internal". Scanning dependencies of target TestMethanol make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 74%] Building CXX object tests/CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestMethanol.cpp" [ 74%] Linking CXX executable ../TestBiopolymer cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 74%] Built target TestBiopolymer make -f tests/CMakeFiles/TestOxygenMolecule.dir/build.make tests/CMakeFiles/TestOxygenMolecule.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/depend.internal". Scanning dependencies of target TestOxygenMolecule make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestOxygenMolecule.dir/build.make tests/CMakeFiles/TestOxygenMolecule.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 74%] Building CXX object tests/CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestOxygenMolecule.cpp" [ 75%] Linking CXX executable ../TestBodyIds cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 76%] Linking CXX executable ../TestAtomTargetLocations cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 76%] Built target TestBodyIds make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 76%] Built target TestAtomTargetLocations make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/depend.internal". Scanning dependencies of target TestPartitioner make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target TestFitMagnesiums make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 77%] Building CXX object tests/CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestPartitioner.cpp" [ 78%] Building CXX object tests/CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o [ 78%] Linking CXX executable ../TestEthane cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestEthane.dir/link.txt --verbose=1 cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestFitMagnesiums.cpp" /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 78%] Built target TestEthane make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/depend.internal". Scanning dependencies of target TestPositiveControl make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 79%] Building CXX object tests/CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestPositiveControl.cpp" [ 80%] Linking CXX executable ../TestPartitionerDihedrals [ 80%] Linking CXX executable ../TestPositiveControl cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPositiveControl.dir/link.txt --verbose=1 cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 80%] Built target TestPositiveControl make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/depend.internal". Scanning dependencies of target TestMgSolvationEnergy make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 81%] Building CXX object tests/CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestMgSolvationEnergy.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 81%] Built target TestPartitionerDihedrals make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/depend.internal". Scanning dependencies of target TestSanityDuMM make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 82%] Building CXX object tests/CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestSanityDuMM.cpp" [ 83%] Linking CXX executable ../TestNoseHooverThermostat cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 83%] Built target TestNoseHooverThermostat make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSerine.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSerine.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSerine.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/CMakeFiles/TestSerine.dir/depend.internal". Scanning dependencies of target TestSerine make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 84%] Building CXX object tests/CMakeFiles/TestSerine.dir/TestSerine.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/TestSerine.cpp" [ 85%] Linking CXX executable ../TestOxygenMolecule [ 86%] Linking CXX executable ../TestNucleotide2 cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestOxygenMolecule.dir/link.txt --verbose=1 cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 86%] Linking CXX executable ../TestMethanol cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 87%] Linking CXX executable ../TestSetTorsion cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 88%] Linking CXX executable ../TestRiboseMobilizer cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 88%] Built target TestOxygenMolecule make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/depend make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/DependInfo.cmake" --color= [ 88%] Built target TestMethanol Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/depend.internal". make -f tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build.make tests/adhoc/CMakeFiles/TestSimpleProtein.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target RemoveMassCenterDrift make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 88%] Built target TestNucleotide2 make -f tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/DependInfo.cmake" --color= Scanning dependencies of target TestSimpleProtein make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 89%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o make -f tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build.make tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/RemoveMassCenterDrift.cpp" make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/depend.internal". [ 90%] Building CXX object tests/adhoc/CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/TestSimpleProtein.cpp" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Scanning dependencies of target RemoveMassCenterDriftWithOptimizer make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 90%] Built target TestRiboseMobilizer make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/DependInfo.cmake" --color= [ 90%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/RemoveMassCenterDriftWithOptimizer.cpp" [ 90%] Built target TestSetTorsion make -f tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build.make tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/depend Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend.internal". make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/DependInfo.cmake" --color= Scanning dependencies of target TestSerineWithViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/depend.internal". make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 91%] Building CXX object tests/adhoc/CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/TestSerineWithViz.cpp" Scanning dependencies of target TestWriteLargerPdb make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build.make tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 91%] Building CXX object tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/TestWriteLargerPdb.cpp" [ 91%] Linking CXX executable ../TestSanityDuMM cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 91%] Built target TestSanityDuMM make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend.internal". Scanning dependencies of target TestEthaneFromSimbody make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 92%] Building CXX object tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/TestEthaneFromSimbody.cpp" [ 93%] Linking CXX executable ../TestMgSolvationEnergy cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 93%] Built target TestMgSolvationEnergy make -f tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" && /usr/bin/cmake -E cmake_depends "Unix Makefiles" "/build/molmodel-3.0~svn842" "/build/molmodel-3.0~svn842/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend.internal". Scanning dependencies of target TestSodiumWithViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 93%] Building CXX object tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o cd "/build/molmodel-3.0~svn842/obj-i686-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-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/tests/adhoc/TestSodiumWithViz.cpp" [ 93%] Linking CXX executable ../TestFitMagnesiums cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 93%] Built target TestFitMagnesiums [ 93%] Linking CXX executable ../TestPartitioner cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 93%] Built target TestPartitioner [ 94%] Linking CXX executable ../TestSerine cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 94%] Linking CXX executable ../../TestSerineWithViz cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 94%] Built target TestSerine make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 94%] Built target TestSerineWithViz [ 95%] Linking CXX executable ../../TestSodiumWithViz cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 95%] Built target TestSodiumWithViz [ 96%] Linking CXX executable ../../TestWriteLargerPdb cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 97%] Linking CXX executable ../../RemoveMassCenterDrift cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 [ 98%] Linking CXX executable ../../TestEthaneFromSimbody cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [ 98%] Built target RemoveMassCenterDrift [ 98%] Built target TestWriteLargerPdb [ 99%] Linking CXX executable ../../RemoveMassCenterDriftWithOptimizer [100%] Linking CXX executable ../../TestSimpleProtein cd "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/link.txt --verbose=1 cd "/build/molmodel-3.0~svn842/obj-i686-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-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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/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-3.0~svn842/obj-i686-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/i386-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/i386-linux-gnu/libSimTKmath.so.3.6 /usr/lib/i386-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [100%] Built target TestEthaneFromSimbody make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [100%] Built target TestSimpleProtein make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' [100%] Built target RemoveMassCenterDriftWithOptimizer make[2]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start "/build/molmodel-3.0~svn842/obj-i686-linux-gnu/CMakeFiles" 0 make[1]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-i686-linux-gnu && make -j10 install DESTDIR=/build/molmodel-3.0\~svn842/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' /usr/bin/cmake -S"/build/molmodel-3.0~svn842" -B"/build/molmodel-3.0~svn842/obj-i686-linux-gnu" --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/doc/api/Molmodel/html -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/doc/MolmodelAPI.html -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/Molmodel.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/SimTKmolmodel.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/AtomSubsystem.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Biotype.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Clonable.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Compound.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/CompoundModeler.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/CompoundSystem.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/DNA.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/DuMMForceFieldSubsystem.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Element.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/GrinPointer.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Ions.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Ligands.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/MassCenterMotionRemover.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/MolecularMechanicsSystem.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/NA.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/NoseHooverThermostat.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/PDBReader.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Pdb.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/PeriodicPdbWriter.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/PeriodicVmdReporter.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Protein.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/RNA.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/RiboseMobilizer.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Superpose.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/VanDerWaalsForce.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/VanderWallSphere.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/VelocityRescalingThermostat.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/VmdConnection.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/VoxelHash.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/Water.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/bondGeometry.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/common.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/include/molmodel/internal/units.h -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/doc/MolmodelUsersGuide.pdf -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/lib/libSimTKmolmodel.so.3.0 -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/lib/libSimTKmolmodel.so -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesVMD -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesVMD" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesViz -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleAdenylateMobilitiesViz" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleCreatePropane -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleCreatePropane" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleFoldPolyalanine -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleFoldPolyalanine" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb2 -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleLoadPdb2" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleRigidProtein -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleRigidProtein" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleProtein -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleProtein" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleRNA -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleSimpleRNA" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoArgonAtoms -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoArgonAtoms" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoEthanes -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ExampleTwoEthanes" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTest -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTest" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTestNoViz -- Set runtime path of "/build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/MolmodelInstallTestNoViz" to "" -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/1AKG.pdb -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/1AKG.pdb -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/1AKGtrim.pdb -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/1AKGtrim.pdb -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ThreeAdenylates.pdb -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/ThreeAdenylates.pdb -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/adenylates.vmd -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/bin/adenylates.vmd -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleAdenylateMobilitiesVMD.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleAdenylateMobilitiesViz.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleCreatePropane.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleFoldPolyalanine.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleLoadPdb.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleLoadPdb2.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleRigidProtein.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleSimpleProtein.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleSimpleRNA.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleTwoArgonAtoms.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleTwoEthanes.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/MolmodelInstallTest.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/MolmodelInstallTestNoViz.cpp -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/ExampleAdenylateMobilitiesVMD_Notes.txt -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/README.txt -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/README_Makefile.txt -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/README_VisualStudio.txt -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/CMakeLists.txt -- Installing: /build/molmodel-3.0~svn842/debian/tmp/usr/examples/molmodel/src/Makefile make[1]: Leaving directory '/build/molmodel-3.0~svn842/obj-i686-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/molmodel-3.0~svn842' dh_install dh_install -plibsimtkmolmodel3.0 debian/tmp/usr/lib/libSimTKmolmodel.so.* usr/lib/i386-linux-gnu dh_install -plibsimtkmolmodel-dev debian/tmp/usr/lib/libSimTKmolmodel.so usr/lib/i386-linux-gnu rm -rf debian/tmp/usr/examples # not installing examples for now make[1]: Leaving directory '/build/molmodel-3.0~svn842' dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libsimtkmolmodel-dev' in '../libsimtkmolmodel-dev_3.0~svn842-2_i386.deb'. dpkg-deb: building package 'libsimtkmolmodel3.0-dbgsym' in '../libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_i386.deb'. dpkg-deb: building package 'libsimtkmolmodel3.0' in '../libsimtkmolmodel3.0_3.0~svn842-2_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../molmodel_3.0~svn842-2_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/26336/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/26336/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/26336 and its subdirectories I: Current time: Fri Jun 4 19:06:57 +14 2021 I: pbuilder-time-stamp: 1622783217