Diff of the two buildlogs: -- --- b1/build.log 2021-12-31 03:36:12.084959275 +0000 +++ b2/build.log 2021-12-31 03:41:36.786811130 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Feb 1 21:42:06 -12 2023 -I: pbuilder-time-stamp: 1675330926 +I: Current time: Fri Dec 31 17:36:13 +14 2021 +I: pbuilder-time-stamp: 1640921773 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration @@ -16,8 +16,8 @@ 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.16bPhMZs/trustedkeys.kbx': General error -gpgv: Signature made Wed Jun 17 16:27:13 2020 -12 +gpgv: keyblock resource '/tmp/dpkg-verify-sig.zSlnG7Wk/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 @@ -29,135 +29,169 @@ 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/683074/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1097167/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +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/1097167/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1097167/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' - DISTRIBUTION='' - HOME='/root' - HOST_ARCH='amd64' + 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]="x86_64-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=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15' + DIRSTACK=() + DISTRIBUTION= + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='dd66a7ca265b4f7d869a1a51f639a7cc' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='683074' - PS1='# ' - PS2='> ' + INVOCATION_ID=4fda245a7ed544869678b9a62edf6c88 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-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=1097167 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.XuxDdBYEWd/pbuilderrc_psa7 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.XuxDdBYEWd/b1 --logfile b1/build.log molmodel_3.0~svn842-2.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://85.184.249.68:3128' + 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.XuxDdBYEWd/pbuilderrc_HmOm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.XuxDdBYEWd/b2 --logfile b2/build.log molmodel_3.0~svn842-2.dsc' + SUDO_GID=111 + SUDO_UID=106 + 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 ionos15-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-10-amd64 #1 SMP Debian 5.10.84-1 (2021-12-08) x86_64 GNU/Linux I: ls -l /bin total 5476 - -rwxr-xr-x 1 root root 1234376 Aug 4 2021 bash - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep - -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 - -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover - lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore - -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp - -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod - -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown - -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp - -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash - -rwxr-xr-x 1 root root 113664 Sep 23 2020 date - -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd - -rwxr-xr-x 1 root root 93936 Sep 23 2020 df - -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir - -rwxr-xr-x 1 root root 84440 Jul 28 2021 dmesg - lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname - -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo - -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep - -rwxr-xr-x 1 root root 39680 Sep 23 2020 false - -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep - -rwxr-xr-x 1 root root 69032 Jul 28 2021 findmnt - -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount - -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep - -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip - -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe - -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip - -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname - -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln - -rwxr-xr-x 1 root root 56952 Feb 7 2020 login - -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls - -rwxr-xr-x 1 root root 149736 Jul 28 2021 lsblk - -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir - -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod - -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp - -rwxr-xr-x 1 root root 59632 Jul 28 2021 more - -rwsr-xr-x 1 root root 55528 Jul 28 2021 mount - -rwxr-xr-x 1 root root 18664 Jul 28 2021 mountpoint - -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv - lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd - lrwxrwxrwx 1 root root 4 Aug 4 2021 rbash -> bash - -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink - -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm - -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir - -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts - -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed - lrwxrwxrwx 1 root root 4 Jan 23 03:47 sh -> dash - -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep - -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty - -rwsr-xr-x 1 root root 71912 Jul 28 2021 su - -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync - -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar - -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile - -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch - -rwxr-xr-x 1 root root 39680 Sep 23 2020 true - -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server - -rwsr-xr-x 1 root root 35040 Jul 28 2021 umount - -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname - -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress - -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir - -rwxr-xr-x 1 root root 63744 Jul 28 2021 wdctl - lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat - -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp - -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff - -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep - -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep - -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce - -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep - -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless - -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore - -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew -I: user script /srv/workspace/pbuilder/683074/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1234376 Aug 5 10:25 bash + -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 + -rwxr-xr-x 3 root root 38984 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 38984 Jul 21 2020 bzip2 + -rwxr-xr-x 1 root root 18424 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 43936 Sep 24 2020 cat + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp + -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod + -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown + -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp + -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash + -rwxr-xr-x 1 root root 113664 Sep 24 2020 date + -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd + -rwxr-xr-x 1 root root 93936 Sep 24 2020 df + -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir + -rwxr-xr-x 1 root root 84440 Jul 29 09:09 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 39712 Sep 24 2020 echo + -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep + -rwxr-xr-x 1 root root 39680 Sep 24 2020 false + -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep + -rwxr-xr-x 1 root root 69032 Jul 29 09:09 findmnt + -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount + -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep + -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip + -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe + -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip + -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname + -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln + -rwxr-xr-x 1 root root 56952 Feb 8 2020 login + -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls + -rwxr-xr-x 1 root root 149736 Jul 29 09:09 lsblk + -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir + -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod + -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp + -rwxr-xr-x 1 root root 59632 Jul 29 09:09 more + -rwsr-xr-x 1 root root 55528 Jul 29 09:09 mount + -rwxr-xr-x 1 root root 18664 Jul 29 09:09 mountpoint + -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv + lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd + lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash + -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink + -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm + -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir + -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts + -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed + lrwxrwxrwx 1 root root 4 Dec 31 17:36 sh -> bash + lrwxrwxrwx 1 root root 4 Dec 21 23:24 sh.distrib -> dash + -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep + -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty + -rwsr-xr-x 1 root root 71912 Jul 29 09:09 su + -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync + -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar + -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile + -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch + -rwxr-xr-x 1 root root 39680 Sep 24 2020 true + -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server + -rwsr-xr-x 1 root root 35040 Jul 29 09:09 umount + -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname + -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress + -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir + -rwxr-xr-x 1 root root 63744 Jul 29 09:09 wdctl + lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat + -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp + -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff + -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep + -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep + -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce + -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep + -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless + -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore + -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew +I: user script /srv/workspace/pbuilder/1097167/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -340,7 +374,7 @@ Get: 139 http://deb.debian.org/debian bullseye/main amd64 libxmu-dev amd64 2:1.1.2-2+b3 [66.3 kB] Get: 140 http://deb.debian.org/debian bullseye/main amd64 libsimbody3.6 amd64 3.6.1+dfsg-7 [3218 kB] Get: 141 http://deb.debian.org/debian bullseye/main amd64 libsimbody-dev amd64 3.6.1+dfsg-7 [2726 kB] -Fetched 85.0 MB in 4s (19.4 MB/s) +Fetched 85.0 MB in 2s (40.8 MB/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 ... 19655 files and directories currently installed.) @@ -926,7 +960,8 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/molmodel-3.0~svn842/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../molmodel_3.0~svn842-2_source.changes +hostname: Name or service not known +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 && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../molmodel_3.0~svn842-2_source.changes dpkg-buildpackage: info: source package molmodel dpkg-buildpackage: info: source version 3.0~svn842-2 dpkg-buildpackage: info: source distribution unstable @@ -971,7 +1006,7 @@ -- Build files have been written to: /build/molmodel-3.0~svn842/obj-x86_64-linux-gnu dh_auto_build - cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j15 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' /usr/bin/cmake -S"/build/molmodel-3.0~svn842" -B"/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu" --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/CMakeFiles" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu//CMakeFiles/progress.marks" @@ -988,31 +1023,31 @@ make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/About.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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" -[ 2%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o +[ 1%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/AtomSubsystem.cpp.o [ 2%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Biotype.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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" cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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" [ 3%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/BondGeometry.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-3.0~svn842/src" -I"/build/molmodel-3.0~svn842/./include" -isystem /usr/include/simbody -g -O2 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/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-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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 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"/build/molmodel-3.0~svn842/src/DuMMForceFieldSubsystem.cpp" [ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/DuMMForceFieldSubsystemRep.cpp.o -[ 6%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Element.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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 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-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-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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" [ 9%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/Pdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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" cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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/Pdb.cpp.o -c "/build/molmodel-3.0~svn842/src/Pdb.cpp" [ 9%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/PeriodicVmdReporter.cpp.o -[ 10%] Building CXX object sharedTarget/CMakeFiles/SimTKmolmodel.dir/__/src/RiboseMobilizer.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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-x86_64-linux-gnu/sharedTarget" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_BUILDING_SHARED_LIBRARY -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -DSimTKmolmodel_EXPORTS -I"/build/molmodel-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" @@ -1064,186 +1099,191 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 21%] Built target SimTKmolmodel make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/depend -make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/depend -make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/depend -make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/DependInfo.cmake" --color= -make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/depend -make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/depend -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/DependInfo.cmake" --color= -make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend +make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/depend +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleCreatePropane.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/depend +Dependee 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--color= -make -f examples/CMakeFiles/ExampleLoadPdb.dir/build.make examples/CMakeFiles/ExampleLoadPdb.dir/depend +make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/depend +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/depend.internal". make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/DependInfo.cmake" --color= -make -f examples/CMakeFiles/ExampleSimpleRNA.dir/build.make examples/CMakeFiles/ExampleSimpleRNA.dir/depend +make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleProtein.dir/depend.internal". make[3]: Entering directory 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"/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/DependInfo.cmake" --color= -make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/depend -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/depend.internal". -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/DependInfo.cmake" --color= -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb2.dir/depend.internal". -make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend -make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make 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Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleFoldPolyalanine.dir/depend.internal". +make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/depend +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleRigidProtein.dir/depend.internal". make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake" --color= -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/depend.internal". +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/DependInfo.cmake" --color= make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake" --color= +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTestNoViz.dir/depend.internal". -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake" --color= -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleLoadPdb.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/depend.internal". +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make examples/CMakeFiles/MolmodelInstallTest.dir/depend +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleSimpleRNA.dir/depend.internal". +Scanning dependencies of target ExampleAdenylateMobilitiesVMD +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoArgonAtoms.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/depend.internal". -Scanning dependencies of target ExampleCreatePropane -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/build -Scanning dependencies of target ExampleFoldPolyalanine -Scanning dependencies of target ExampleRigidProtein +Scanning dependencies of target ExampleLoadPdb2 +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleTwoEthanes.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/build Scanning dependencies of target ExampleSimpleProtein +make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/build make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -Scanning dependencies of target ExampleLoadPdb2 -Scanning dependencies of target ExampleSimpleRNA -Scanning dependencies of target ExampleAdenylateMobilitiesViz +make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/build +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +Scanning dependencies of target ExampleCreatePropane make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/depend +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/depend.internal". +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake" --color= +make -f examples/CMakeFiles/ExampleCreatePropane.dir/build.make examples/CMakeFiles/ExampleCreatePropane.dir/build +Scanning dependencies of target ExampleFoldPolyalanine +Scanning dependencies of target ExampleLoadPdb +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples/CMakeFiles/MolmodelInstallTest.dir/depend.internal". make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -Scanning dependencies of target ExampleAdenylateMobilitiesVMD +Scanning dependencies of target ExampleRigidProtein make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Scanning dependencies of target MolmodelInstallTestNoViz -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/build +make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/build make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleLoadPdb2.dir/build.make examples/CMakeFiles/ExampleLoadPdb2.dir/build +[ 21%] Building CXX object examples/CMakeFiles/ExampleLoadPdb2.dir/ExampleLoadPdb2.cpp.o +make -f examples/CMakeFiles/ExampleRigidProtein.dir/build.make examples/CMakeFiles/ExampleRigidProtein.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleSimpleProtein.dir/build.make examples/CMakeFiles/ExampleSimpleProtein.dir/build +[ 21%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/ExampleAdenylateMobilitiesVMD.cpp.o +make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleFoldPolyalanine.dir/build.make examples/CMakeFiles/ExampleFoldPolyalanine.dir/build -Scanning dependencies of target ExampleTwoEthanes -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteSimtimePdb.dir/depend.internal". +Scanning dependencies of target ExampleSimpleRNA +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 21%] Building CXX object examples/CMakeFiles/ExampleSimpleProtein.dir/ExampleSimpleProtein.cpp.o make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build.make examples/CMakeFiles/MolmodelInstallTestNoViz.dir/build -Scanning dependencies of target MolmodelInstallTest -Scanning dependencies of target ExampleLoadPdb +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f examples/CMakeFiles/ExampleLoadPdb.dir/build.make examples/CMakeFiles/ExampleLoadPdb.dir/build +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 22%] Building CXX object examples/CMakeFiles/ExampleCreatePropane.dir/ExampleCreatePropane.cpp.o make -f examples/CMakeFiles/ExampleSimpleRNA.dir/build.make examples/CMakeFiles/ExampleSimpleRNA.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 23%] Building CXX object examples/CMakeFiles/ExampleRigidProtein.dir/ExampleRigidProtein.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" Scanning dependencies of target ExampleTwoArgonAtoms -Scanning dependencies of target TestTorsionPartitioner +Scanning dependencies of target ExampleTwoEthanes make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/build make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 22%] Building CXX object examples/CMakeFiles/ExampleCreatePropane.dir/ExampleCreatePropane.cpp.o -make -f examples/CMakeFiles/ExampleLoadPdb.dir/build.make examples/CMakeFiles/ExampleLoadPdb.dir/build -[ 23%] Building CXX object examples/CMakeFiles/ExampleRigidProtein.dir/ExampleRigidProtein.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 24%] Building CXX object examples/CMakeFiles/ExampleFoldPolyalanine.dir/ExampleFoldPolyalanine.cpp.o +Scanning dependencies of target ExampleAdenylateMobilitiesViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -Scanning dependencies of target TestTinkerAmber -[ 23%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/ExampleAdenylateMobilitiesVMD.cpp.o make -f examples/CMakeFiles/ExampleTwoArgonAtoms.dir/build.make examples/CMakeFiles/ExampleTwoArgonAtoms.dir/build +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 25%] Building CXX object examples/CMakeFiles/ExampleLoadPdb.dir/ExampleLoadPdb.cpp.o make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -Scanning dependencies of target TestWriteSimtimePdb -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +Scanning dependencies of target MolmodelInstallTest make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 25%] Building CXX object examples/CMakeFiles/MolmodelInstallTestNoViz.dir/MolmodelInstallTestNoViz.cpp.o +make -f examples/CMakeFiles/ExampleTwoEthanes.dir/build.make examples/CMakeFiles/ExampleTwoEthanes.dir/build +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make -f examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build.make examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/build -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 23%] Building CXX object examples/CMakeFiles/ExampleLoadPdb2.dir/ExampleLoadPdb2.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 23%] Building CXX object examples/CMakeFiles/ExampleSimpleProtein.dir/ExampleSimpleProtein.cpp.o make -f examples/CMakeFiles/MolmodelInstallTest.dir/build.make examples/CMakeFiles/MolmodelInstallTest.dir/build +Scanning dependencies of target TestWriteSimtimePdb +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 26%] Building CXX object examples/CMakeFiles/ExampleTwoArgonAtoms.dir/ExampleTwoArgonAtoms.cpp.o +[ 27%] Building CXX object examples/CMakeFiles/ExampleSimpleRNA.dir/ExampleSimpleRNA.cpp.o make -f tests/CMakeFiles/TestWriteSimtimePdb.dir/build.make tests/CMakeFiles/TestWriteSimtimePdb.dir/build +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 28%] Building CXX object examples/CMakeFiles/ExampleTwoEthanes.dir/ExampleTwoEthanes.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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 -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake" --color= +[ 29%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/ExampleAdenylateMobilitiesViz.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 30%] Building CXX object examples/CMakeFiles/MolmodelInstallTest.dir/MolmodelInstallTest.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 31%] Building CXX object tests/CMakeFiles/TestWriteSimtimePdb.dir/TestWriteSimtimePdb.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTorsionPartitioner.dir/depend.internal". +Scanning dependencies of target TestTorsionPartitioner +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestTorsionPartitioner.dir/build.make tests/CMakeFiles/TestTorsionPartitioner.dir/build -[ 24%] Building CXX object examples/CMakeFiles/ExampleFoldPolyalanine.dir/ExampleFoldPolyalanine.cpp.o -make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 32%] Building CXX object tests/CMakeFiles/TestTorsionPartitioner.dir/TestTorsionPartitioner.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 33%] Linking CXX executable ../ExampleLoadPdb +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleLoadPdb.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 34%] Linking CXX executable ../ExampleTwoArgonAtoms +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleTwoArgonAtoms.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 34%] Built target ExampleLoadPdb +make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 25%] Building CXX object examples/CMakeFiles/ExampleLoadPdb.dir/ExampleLoadPdb.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 25%] Building CXX object examples/CMakeFiles/MolmodelInstallTestNoViz.dir/MolmodelInstallTestNoViz.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake" --color= +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestTinkerAmber.dir/depend.internal". +Scanning dependencies of target TestTinkerAmber +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestTinkerAmber.dir/build.make tests/CMakeFiles/TestTinkerAmber.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 26%] Building CXX object examples/CMakeFiles/ExampleSimpleRNA.dir/ExampleSimpleRNA.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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 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examples/CMakeFiles/ExampleTwoEthanes.dir/ExampleTwoEthanes.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 28%] Building CXX object examples/CMakeFiles/ExampleTwoArgonAtoms.dir/ExampleTwoArgonAtoms.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 29%] Building CXX object examples/CMakeFiles/MolmodelInstallTest.dir/MolmodelInstallTest.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 30%] Building CXX object examples/CMakeFiles/ExampleAdenylateMobilitiesViz.dir/ExampleAdenylateMobilitiesViz.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" 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tests/CMakeFiles/TestTinkerAmber.dir/TestTinkerAmber.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 33%] Linking CXX executable ../ExampleFoldPolyalanine -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleFoldPolyalanine.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 33%] Built target ExampleFoldPolyalanine +[ 35%] Built target ExampleTwoArgonAtoms make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestWriteDefaultPdb.dir/DependInfo.cmake" --color= @@ -1253,17 +1293,20 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestWriteDefaultPdb.dir/build.make tests/CMakeFiles/TestWriteDefaultPdb.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 34%] Building CXX object tests/CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o +[ 36%] Linking CXX executable ../ExampleCreatePropane +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleCreatePropane.dir/link.txt --verbose=1 +[ 37%] Building CXX object tests/CMakeFiles/TestWriteDefaultPdb.dir/TestWriteDefaultPdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 35%] Linking CXX executable ../ExampleLoadPdb -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleLoadPdb.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +/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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 38%] Linking CXX executable ../ExampleLoadPdb2 +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleLoadPdb2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 38%] Linking CXX executable ../ExampleTwoEthanes +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleTwoEthanes.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 35%] Linking CXX executable ../ExampleSimpleRNA -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleSimpleRNA.dir/link.txt --verbose=1 -[ 35%] Built target ExampleLoadPdb +[ 38%] Built target ExampleCreatePropane make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/depend -/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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestShortPdbLines.dir/depend.internal". @@ -1272,10 +1315,13 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestShortPdbLines.dir/build.make tests/CMakeFiles/TestShortPdbLines.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 35%] Building CXX object tests/CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o +[ 38%] Building CXX object tests/CMakeFiles/TestShortPdbLines.dir/TestShortPdbLines.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 38%] Linking CXX executable ../ExampleAdenylateMobilitiesViz +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleAdenylateMobilitiesViz.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 35%] Built target ExampleSimpleRNA +[ 38%] Built target ExampleLoadPdb2 make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGetAtomName.dir/DependInfo.cmake" --color= @@ -1285,13 +1331,10 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestGetAtomName.dir/build.make tests/CMakeFiles/TestGetAtomName.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 36%] Building CXX object tests/CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o +[ 39%] Building CXX object tests/CMakeFiles/TestGetAtomName.dir/TestGetAtomName.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 37%] Linking CXX executable ../ExampleAdenylateMobilitiesVMD -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 37%] Built target ExampleAdenylateMobilitiesVMD +[ 39%] Built target ExampleTwoEthanes make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestNoseHooverThermostat.dir/DependInfo.cmake" --color= @@ -1301,109 +1344,118 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestNoseHooverThermostat.dir/build.make tests/CMakeFiles/TestNoseHooverThermostat.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 37%] Building CXX object tests/CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o +[ 39%] Building CXX object tests/CMakeFiles/TestNoseHooverThermostat.dir/TestNoseHooverThermostat.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 38%] Linking CXX executable ../ExampleSimpleProtein -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleSimpleProtein.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 38%] Built target ExampleSimpleProtein +[ 39%] Built target ExampleAdenylateMobilitiesViz make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGbsa.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGbsa.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGbsa.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestGbsa.dir/depend.internal". +[ 40%] Linking CXX executable ../ExampleSimpleProtein +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleSimpleProtein.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 Scanning dependencies of target TestGbsa make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestGbsa.dir/build.make tests/CMakeFiles/TestGbsa.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 38%] Building CXX object tests/CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o +[ 41%] Linking CXX executable ../ExampleRigidProtein +[ 41%] Building CXX object tests/CMakeFiles/TestGbsa.dir/TestGbsa.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 38%] Linking CXX executable ../ExampleAdenylateMobilitiesViz -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleAdenylateMobilitiesViz.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleRigidProtein.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 42%] Linking CXX executable ../TestTorsionPartitioner +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTorsionPartitioner.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 43%] Linking CXX executable ../ExampleAdenylateMobilitiesVMD +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleAdenylateMobilitiesVMD.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 38%] Built target ExampleAdenylateMobilitiesViz +[ 43%] Built target ExampleSimpleProtein make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/DependInfo.cmake" --color= -[ 38%] Linking CXX executable ../TestTinkerAmber -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTinkerAmber.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/depend.internal". -/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -Scanning dependencies of target TestLoadVariantRnaAtomNames -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 38%] Building CXX object tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 39%] Linking CXX executable ../ExampleCreatePropane -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleCreatePropane.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 39%] Built target TestTinkerAmber +[ 43%] Built target ExampleAdenylateMobilitiesVMD +[ 43%] Linking CXX executable ../ExampleSimpleRNA make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/depend +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleSimpleRNA.dir/link.txt --verbose=1 make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/DependInfo.cmake" --color= +/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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPositiveControl.dir/depend.internal". Scanning dependencies of target TestPositiveControl make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPositiveControl.dir/build.make tests/CMakeFiles/TestPositiveControl.dir/build +Scanning dependencies of target TestLoadVariantRnaAtomNames +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build.make tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 40%] Building CXX object tests/CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o +[ 44%] Building CXX object tests/CMakeFiles/TestPositiveControl.dir/TestPositiveControl.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 41%] Linking CXX executable ../ExampleRigidProtein -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleRigidProtein.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 41%] Built target ExampleCreatePropane +[ 44%] Building CXX object tests/CMakeFiles/TestLoadVariantRnaAtomNames.dir/TestLoadVariantRnaAtomNames.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 44%] Built target TestTorsionPartitioner make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/DependInfo.cmake" --color= +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBodyIds.dir/depend.internal". -Scanning dependencies of target TestBodyIds -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/build -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 41%] Building CXX object tests/CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 41%] Linking CXX executable ../TestPositiveControl -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPositiveControl.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 41%] Built target ExampleRigidProtein +[ 44%] Built target ExampleRigidProtein make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestEthane.dir/DependInfo.cmake" --color= +Scanning dependencies of target TestBodyIds make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestBodyIds.dir/build.make tests/CMakeFiles/TestBodyIds.dir/build Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestEthane.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestEthane.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestEthane.dir/depend.internal". -[ 41%] Built target TestPositiveControl -make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/DependInfo.cmake" --color= +[ 45%] Linking CXX executable ../MolmodelInstallTestNoViz +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolmodelInstallTestNoViz.dir/link.txt --verbose=1 +[ 45%] Building CXX object tests/CMakeFiles/TestBodyIds.dir/TestBodyIds.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +/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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 Scanning dependencies of target TestEthane make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestEthane.dir/build.make tests/CMakeFiles/TestEthane.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 46%] Linking CXX executable ../MolmodelInstallTest +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolmodelInstallTest.dir/link.txt --verbose=1 +[ 47%] Building CXX object tests/CMakeFiles/TestEthane.dir/TestEthane.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +/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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 47%] Linking CXX executable ../TestPositiveControl +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPositiveControl.dir/link.txt --verbose=1 +[ 48%] Linking CXX executable ../TestWriteSimtimePdb +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteSimtimePdb.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 48%] Linking CXX executable ../ExampleFoldPolyalanine +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleFoldPolyalanine.dir/link.txt --verbose=1 +[ 48%] Built target ExampleSimpleRNA +make -f tests/CMakeFiles/TestBiopolymer.dir/build.make tests/CMakeFiles/TestBiopolymer.dir/depend +/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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiopolymer.dir/depend.internal". -[ 42%] Building CXX object tests/CMakeFiles/TestEthane.dir/TestEthane.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" Scanning dependencies of target TestBiopolymer make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu' -[ 43%] Building CXX object tests/CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 44%] Linking CXX executable ../ExampleTwoArgonAtoms -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleTwoArgonAtoms.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 44%] Built target ExampleTwoArgonAtoms +[ 49%] Building CXX object tests/CMakeFiles/TestBiopolymer.dir/TestBiopolymer.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 49%] Built target TestPositiveControl make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProteinDihedrals.dir/DependInfo.cmake" --color= @@ -1413,93 +1465,81 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestProteinDihedrals.dir/build.make tests/CMakeFiles/TestProteinDihedrals.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 44%] Building CXX object tests/CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 49%] Building CXX object tests/CMakeFiles/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 44%] Linking CXX executable ../ExampleTwoEthanes -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleTwoEthanes.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 45%] Linking CXX executable ../ExampleLoadPdb2 -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/ExampleLoadPdb2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 49%] Built target MolmodelInstallTest make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 45%] Built target ExampleTwoEthanes make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake" --color= -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/depend.internal". -Scanning dependencies of target TestBiotypeSelfCode -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/build -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 46%] Building CXX object tests/CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 46%] Built target ExampleLoadPdb2 +[ 49%] Built target MolmodelInstallTestNoViz make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/DependInfo.cmake" --color= +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestBiotypeSelfCode.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestForeignBodyIds.dir/depend.internal". Scanning dependencies of target TestForeignBodyIds make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestForeignBodyIds.dir/build.make tests/CMakeFiles/TestForeignBodyIds.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 47%] Building CXX object tests/CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o +Scanning dependencies of target TestBiotypeSelfCode +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestBiotypeSelfCode.dir/build.make tests/CMakeFiles/TestBiotypeSelfCode.dir/build +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 50%] Building CXX object tests/CMakeFiles/TestBiotypeSelfCode.dir/TestBiotypeSelfCode.cpp.o +[ 51%] Building CXX object tests/CMakeFiles/TestForeignBodyIds.dir/TestForeignBodyIds.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 48%] Linking CXX executable ../TestShortPdbLines -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestShortPdbLines.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 48%] Built target TestShortPdbLines +[ 51%] Built target ExampleFoldPolyalanine make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/DependInfo.cmake" --color= +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestAtomTargetLocations.dir/depend.internal". -Scanning dependencies of target TestAtomTargetLocations -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/build -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 49%] Building CXX object tests/CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 50%] Linking CXX executable ../MolmodelInstallTestNoViz -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolmodelInstallTestNoViz.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 51%] Linking CXX executable ../MolmodelInstallTest -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/examples" && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolmodelInstallTest.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu:" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 51%] Built target MolmodelInstallTest +[ 51%] Built target TestWriteSimtimePdb make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSetTorsion.dir/depend.internal". +Scanning dependencies of target TestAtomTargetLocations make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestAtomTargetLocations.dir/build.make tests/CMakeFiles/TestAtomTargetLocations.dir/build +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Scanning dependencies of target TestSetTorsion make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSetTorsion.dir/build.make tests/CMakeFiles/TestSetTorsion.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 51%] Built target MolmodelInstallTestNoViz +[ 52%] Building CXX object tests/CMakeFiles/TestAtomTargetLocations.dir/TestAtomTargetLocations.cpp.o +[ 53%] Building CXX object tests/CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 53%] Linking CXX executable ../TestTinkerAmber +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTinkerAmber.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 53%] Built target TestTinkerAmber make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/DependInfo.cmake" --color= -[ 52%] Building CXX object tests/CMakeFiles/TestSetTorsion.dir/TestSetTorsion.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethaneCartesian.dir/depend.internal". Scanning dependencies of target TestMethaneCartesian make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMethaneCartesian.dir/build.make tests/CMakeFiles/TestMethaneCartesian.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 53%] Building CXX object tests/CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o +[ 54%] Building CXX object tests/CMakeFiles/TestMethaneCartesian.dir/TestMethaneCartesian.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 54%] Linking CXX executable ../TestWriteDefaultPdb -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteDefaultPdb.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 55%] Linking CXX executable ../TestShortPdbLines +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestShortPdbLines.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 54%] Built target TestWriteDefaultPdb +[ 55%] Built target TestShortPdbLines make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMgSolvationEnergy.dir/DependInfo.cmake" --color= @@ -1509,29 +1549,32 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMgSolvationEnergy.dir/build.make tests/CMakeFiles/TestMgSolvationEnergy.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 55%] Building CXX object tests/CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o +[ 56%] Building CXX object tests/CMakeFiles/TestMgSolvationEnergy.dir/TestMgSolvationEnergy.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 56%] Linking CXX executable ../TestTorsionPartitioner -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestTorsionPartitioner.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 57%] Linking CXX executable ../TestBiotypeSelfCode +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBiotypeSelfCode.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 56%] Built target TestTorsionPartitioner +[ 57%] Built target TestBiotypeSelfCode make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/DependInfo.cmake" --color= -[ 57%] Linking CXX executable ../TestGetAtomName -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGetAtomName.dir/link.txt --verbose=1 Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestLoneAtomCoordinates.dir/depend.internal". -/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 Scanning dependencies of target TestLoneAtomCoordinates make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestLoneAtomCoordinates.dir/build.make tests/CMakeFiles/TestLoneAtomCoordinates.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 58%] Building CXX object tests/CMakeFiles/TestLoneAtomCoordinates.dir/TestLoneAtomCoordinates.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 59%] Linking CXX executable ../TestWriteDefaultPdb +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteDefaultPdb.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 60%] Linking CXX executable ../TestNoseHooverThermostat +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNoseHooverThermostat.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 58%] Built target TestGetAtomName +[ 60%] Built target TestWriteDefaultPdb make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestMethanol.dir/DependInfo.cmake" --color= @@ -1541,13 +1584,16 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestMethanol.dir/build.make tests/CMakeFiles/TestMethanol.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 59%] Building CXX object tests/CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o +[ 61%] Building CXX object tests/CMakeFiles/TestMethanol.dir/TestMethanol.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 60%] Linking CXX executable ../TestWriteSimtimePdb -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteSimtimePdb.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 62%] Linking CXX executable ../TestProteinDihedrals +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProteinDihedrals.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 60%] Built target TestWriteSimtimePdb +[ 63%] Linking CXX executable ../TestGetAtomName +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGetAtomName.dir/link.txt --verbose=1 +[ 63%] Built target TestNoseHooverThermostat +/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestNucleotide2.dir/DependInfo.cmake" --color= @@ -1557,13 +1603,10 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestNucleotide2.dir/build.make tests/CMakeFiles/TestNucleotide2.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 61%] Building CXX object tests/CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o +[ 64%] Building CXX object tests/CMakeFiles/TestNucleotide2.dir/TestNucleotide2.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 62%] Linking CXX executable ../TestNoseHooverThermostat -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNoseHooverThermostat.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 62%] Built target TestNoseHooverThermostat +[ 64%] Built target TestProteinDihedrals make -f tests/CMakeFiles/TestOxygenMolecule.dir/build.make tests/CMakeFiles/TestOxygenMolecule.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestOxygenMolecule.dir/DependInfo.cmake" --color= @@ -1573,32 +1616,32 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu' -[ 62%] Building CXX object tests/CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o +[ 64%] Building CXX object tests/CMakeFiles/TestOxygenMolecule.dir/TestOxygenMolecule.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 63%] Linking CXX executable ../TestGbsa -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGbsa.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 65%] Linking CXX executable ../TestLoadVariantRnaAtomNames +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoadVariantRnaAtomNames.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 63%] Built target TestGbsa +[ 65%] Built target TestGetAtomName make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestVelocityRescalingThermostat.dir/depend.internal". -[ 64%] Linking CXX executable ../TestBiotypeSelfCode -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBiotypeSelfCode.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 Scanning dependencies of target TestVelocityRescalingThermostat make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build.make tests/CMakeFiles/TestVelocityRescalingThermostat.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 65%] Building CXX object tests/CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o +[ 66%] Building CXX object tests/CMakeFiles/TestVelocityRescalingThermostat.dir/TestVelocityRescalingThermostat.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 66%] Linking CXX executable ../TestLoadVariantRnaAtomNames -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoadVariantRnaAtomNames.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 67%] Linking CXX executable ../TestForeignBodyIds +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestForeignBodyIds.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 68%] Linking CXX executable ../TestGbsa +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestGbsa.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 66%] Built target TestBiotypeSelfCode +[ 68%] Built target TestLoadVariantRnaAtomNames make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestCompoundTransforms.dir/DependInfo.cmake" --color= @@ -1607,38 +1650,32 @@ Scanning dependencies of target TestCompoundTransforms make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestCompoundTransforms.dir/build.make tests/CMakeFiles/TestCompoundTransforms.dir/build -[ 67%] Linking CXX executable ../TestProteinDihedrals -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProteinDihedrals.dir/link.txt --verbose=1 make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-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/TestProteinDihedrals.dir/TestProteinDihedrals.cpp.o -o ../TestProteinDihedrals -Wl,-rpath,"/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 68%] Building CXX object tests/CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o +[ 69%] Building CXX object tests/CMakeFiles/TestCompoundTransforms.dir/TestCompoundTransforms.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 69%] Linking CXX executable ../TestBodyIds -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBodyIds.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-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/TestBodyIds.dir/TestBodyIds.cpp.o -o ../TestBodyIds -Wl,-rpath,"/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 69%] Built target TestLoadVariantRnaAtomNames +[ 69%] Built target TestForeignBodyIds make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/DependInfo.cmake" --color= +[ 69%] Linking CXX executable ../TestBiopolymer +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBiopolymer.dir/link.txt --verbose=1 Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitionerDihedrals.dir/depend.internal". -Scanning dependencies of target TestPartitionerDihedrals -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/build -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 70%] Building CXX object tests/CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 70%] Linking CXX executable ../TestBiopolymer -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBiopolymer.dir/link.txt --verbose=1 -[ 70%] Built target TestProteinDihedrals +[ 69%] Built target TestGbsa make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/depend -/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSerine.dir/DependInfo.cmake" --color= +Scanning dependencies of target TestPartitionerDihedrals +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/CMakeFiles/TestPartitionerDihedrals.dir/build.make tests/CMakeFiles/TestPartitionerDihedrals.dir/build +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSerine.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSerine.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSerine.dir/depend.internal". +[ 70%] Building CXX object tests/CMakeFiles/TestPartitionerDihedrals.dir/TestPartitionerDihedrals.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" Scanning dependencies of target TestSerine make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSerine.dir/build.make tests/CMakeFiles/TestSerine.dir/build @@ -1646,8 +1683,11 @@ [ 71%] Building CXX object tests/CMakeFiles/TestSerine.dir/TestSerine.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 71%] Built target TestBodyIds +[ 72%] Linking CXX executable ../TestBodyIds +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestBodyIds.dir/link.txt --verbose=1 +[ 72%] Built target TestBiopolymer make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/depend +/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestPartitioner.dir/depend.internal". @@ -1656,32 +1696,29 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestPartitioner.dir/build.make tests/CMakeFiles/TestPartitioner.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 72%] Building CXX object tests/CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o +[ 73%] Building CXX object tests/CMakeFiles/TestPartitioner.dir/TestPartitioner.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 72%] Built target TestBiopolymer +[ 73%] Built target TestBodyIds make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProtein.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProtein.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProtein.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestProtein.dir/depend.internal". +[ 74%] Linking CXX executable ../TestSetTorsion +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSetTorsion.dir/link.txt --verbose=1 Scanning dependencies of target TestProtein +/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestProtein.dir/build.make tests/CMakeFiles/TestProtein.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 73%] Building CXX object tests/CMakeFiles/TestProtein.dir/TestProtein.cpp.o +[ 75%] Building CXX object tests/CMakeFiles/TestProtein.dir/TestProtein.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 74%] Linking CXX executable ../TestForeignBodyIds -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestForeignBodyIds.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 75%] Linking CXX executable ../TestMethaneCartesian -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMethaneCartesian.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 75%] Linking CXX executable ../TestEthane -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestEthane.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 76%] Linking CXX executable ../TestAtomTargetLocations +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestAtomTargetLocations.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 75%] Built target TestForeignBodyIds +[ 76%] Built target TestSetTorsion make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestRiboseMobilizer.dir/DependInfo.cmake" --color= @@ -1691,10 +1728,10 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestRiboseMobilizer.dir/build.make tests/CMakeFiles/TestRiboseMobilizer.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 76%] Building CXX object tests/CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o +[ 77%] Building CXX object tests/CMakeFiles/TestRiboseMobilizer.dir/TestRiboseMobilizer.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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-x86_64-linux-gnu' -[ 76%] Built target TestEthane +[ 77%] Built target TestAtomTargetLocations make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestRna.dir/DependInfo.cmake" --color= @@ -1704,10 +1741,13 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestRna.dir/build.make tests/CMakeFiles/TestRna.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 76%] Building CXX object tests/CMakeFiles/TestRna.dir/TestRna.cpp.o +[ 77%] Building CXX object tests/CMakeFiles/TestRna.dir/TestRna.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 76%] Built target TestMethaneCartesian +[ 77%] Linking CXX executable ../TestEthane +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestEthane.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 77%] Built target TestEthane make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestFitMagnesiums.dir/DependInfo.cmake" --color= @@ -1717,16 +1757,13 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestFitMagnesiums.dir/build.make tests/CMakeFiles/TestFitMagnesiums.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 77%] Building CXX object tests/CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o +[ 78%] Building CXX object tests/CMakeFiles/TestFitMagnesiums.dir/TestFitMagnesiums.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 78%] Linking CXX executable ../TestMgSolvationEnergy -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMgSolvationEnergy.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 79%] Linking CXX executable ../TestAtomTargetLocations -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestAtomTargetLocations.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 79%] Linking CXX executable ../TestMethaneCartesian +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMethaneCartesian.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 79%] Built target TestMgSolvationEnergy +[ 79%] Built target TestMethaneCartesian make -f tests/CMakeFiles/TestDuMMForces.dir/build.make tests/CMakeFiles/TestDuMMForces.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestDuMMForces.dir/DependInfo.cmake" --color= @@ -1738,8 +1775,11 @@ make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 79%] Building CXX object tests/CMakeFiles/TestDuMMForces.dir/TestDuMMForces.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 80%] Linking CXX executable ../TestMgSolvationEnergy +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMgSolvationEnergy.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 79%] Built target TestAtomTargetLocations +[ 80%] Built target TestMgSolvationEnergy make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/CMakeFiles/TestSanityDuMM.dir/DependInfo.cmake" --color= @@ -1749,13 +1789,13 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/CMakeFiles/TestSanityDuMM.dir/build.make tests/CMakeFiles/TestSanityDuMM.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 79%] Linking CXX executable ../TestLoneAtomCoordinates +[ 81%] Building CXX object tests/CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 81%] Linking CXX executable ../TestLoneAtomCoordinates cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestLoneAtomCoordinates.dir/link.txt --verbose=1 -[ 80%] Building CXX object tests/CMakeFiles/TestSanityDuMM.dir/TestSanityDuMM.cpp.o /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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 80%] Built target TestLoneAtomCoordinates +[ 81%] Built target TestLoneAtomCoordinates 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-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/DependInfo.cmake" --color= @@ -1765,45 +1805,48 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 80%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o +[ 81%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/RemoveMassCenterDriftWithOptimizer.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 80%] Linking CXX executable ../TestMethanol +[ 81%] Linking CXX executable ../TestVelocityRescalingThermostat +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestVelocityRescalingThermostat.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 81%] Linking CXX executable ../TestMethanol cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestMethanol.dir/link.txt --verbose=1 -[ 81%] Linking CXX executable ../TestSetTorsion -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSetTorsion.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 81%] Built target TestSetTorsion +[ 81%] Built target TestVelocityRescalingThermostat 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-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake" --color= -[ 81%] Built target TestMethanol +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend.internal". +Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend.internal". +Scanning dependencies of target TestEthaneFromSimbody +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build +make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 82%] Building CXX object tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 83%] Linking CXX executable ../TestOxygenMolecule +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestOxygenMolecule.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 83%] Built target TestMethanol 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-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/DependInfo.cmake" --color= -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend.internal". -Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/depend.internal". +[ 84%] Linking CXX executable ../TestPartitionerDihedrals +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPartitionerDihedrals.dir/link.txt --verbose=1 Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSerineWithViz.dir/depend.internal". +/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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 Scanning dependencies of target TestSerineWithViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSerineWithViz.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -Scanning dependencies of target TestEthaneFromSimbody -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -make -f tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build.make tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/build -make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 82%] Building CXX object tests/adhoc/CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o +[ 85%] Building CXX object tests/adhoc/CMakeFiles/TestSerineWithViz.dir/TestSerineWithViz.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 83%] Building CXX object tests/adhoc/CMakeFiles/TestEthaneFromSimbody.dir/TestEthaneFromSimbody.cpp.o -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 84%] Linking CXX executable ../TestOxygenMolecule -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestOxygenMolecule.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 84%] Built target TestOxygenMolecule +[ 85%] Built target TestOxygenMolecule 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-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSimpleProtein.dir/DependInfo.cmake" --color= @@ -1813,16 +1856,10 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build.make tests/adhoc/CMakeFiles/TestSimpleProtein.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 85%] Building CXX object tests/adhoc/CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o +[ 86%] Building CXX object tests/adhoc/CMakeFiles/TestSimpleProtein.dir/TestSimpleProtein.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 86%] Linking CXX executable ../TestNucleotide2 -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNucleotide2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 86%] Linking CXX executable ../TestVelocityRescalingThermostat -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestVelocityRescalingThermostat.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 86%] Built target TestNucleotide2 +[ 86%] Built target TestPartitionerDihedrals make -f tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/build.make tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/DependInfo.cmake" --color= @@ -1834,8 +1871,17 @@ make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 86%] Building CXX object tests/adhoc/CMakeFiles/TestWriteLargerPdb.dir/TestWriteLargerPdb.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" +[ 87%] Linking CXX executable ../TestCompoundTransforms +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestCompoundTransforms.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 88%] Linking CXX executable ../TestNucleotide2 +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestNucleotide2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 89%] Linking CXX executable ../TestSerine +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSerine.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 86%] Built target TestVelocityRescalingThermostat +[ 89%] Built target TestCompoundTransforms make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/depend make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/DependInfo.cmake" --color= @@ -1845,99 +1891,88 @@ make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build.make tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/build make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 87%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o +[ 90%] Building CXX object tests/adhoc/CMakeFiles/RemoveMassCenterDrift.dir/RemoveMassCenterDrift.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -[ 88%] Linking CXX executable ../TestSerine -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSerine.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 89%] Linking CXX executable ../TestCompoundTransforms -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestCompoundTransforms.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 89%] Built target TestSerine +[ 90%] Built target TestSerine 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-x86_64-linux-gnu' cd "/build/molmodel-3.0~svn842/obj-x86_64-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-x86_64-linux-gnu" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/DependInfo.cmake" --color= Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/DependInfo.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend.internal". Dependee "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/depend.internal". -[ 90%] Linking CXX executable ../TestPartitionerDihedrals -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPartitionerDihedrals.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' Scanning dependencies of target TestSodiumWithViz make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' make -f tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build.make tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/build +[ 90%] Built target TestNucleotide2 make[3]: Entering directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 90%] Building CXX object tests/adhoc/CMakeFiles/TestSodiumWithViz.dir/TestSodiumWithViz.cpp.o cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/c++ -DMMDB2_LIB_USAGE -DSimTK_MOLMODEL_AUTHORS=\"Christopher.Bruns_Michael.Sherman\" -DSimTK_MOLMODEL_COPYRIGHT_YEARS=\"2006-12\" -DSimTK_MOLMODEL_LIBRARY_NAME=SimTKmolmodel -DSimTK_MOLMODEL_MAJOR_VERSION=3 -DSimTK_MOLMODEL_MINOR_VERSION=0 -DSimTK_MOLMODEL_PATCH_VERSION=0 -DSimTK_MOLMODEL_SVN_REVISION=\"unknown\" -I"/build/molmodel-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" -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 90%] Built target TestCompoundTransforms -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 90%] Built target TestPartitionerDihedrals -[ 91%] Linking CXX executable ../TestProtein -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProtein.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 91%] Built target TestProtein -[ 91%] Linking CXX executable ../TestSanityDuMM -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSanityDuMM.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 92%] Linking CXX executable ../TestRiboseMobilizer +[ 91%] Linking CXX executable ../TestRiboseMobilizer cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestRiboseMobilizer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 92%] Built target TestSanityDuMM +[ 91%] Built target TestRiboseMobilizer +[ 92%] Linking CXX executable ../TestProtein +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestProtein.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 92%] Built target TestRiboseMobilizer +[ 92%] Built target TestProtein [ 92%] Linking CXX executable ../TestPartitioner cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestPartitioner.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 92%] Built target TestPartitioner -[ 92%] Linking CXX executable ../TestFitMagnesiums -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestFitMagnesiums.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 92%] Built target TestFitMagnesiums [ 93%] Linking CXX executable ../TestRna cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestRna.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 93%] Linking CXX executable ../../TestSerineWithViz -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSerineWithViz.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 93%] Linking CXX executable ../TestSanityDuMM +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSanityDuMM.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 93%] Built target TestSanityDuMM make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' [ 93%] Built target TestRna +[ 93%] Linking CXX executable ../TestFitMagnesiums +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestFitMagnesiums.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 93%] Built target TestFitMagnesiums [ 94%] Linking CXX executable ../TestDuMMForces cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestDuMMForces.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 94%] Built target TestSerineWithViz -[ 95%] Linking CXX executable ../../RemoveMassCenterDriftWithOptimizer -[ 96%] Linking CXX executable ../../TestEthaneFromSimbody +[ 94%] Built target TestDuMMForces +[ 95%] Linking CXX executable ../../TestEthaneFromSimbody cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestEthaneFromSimbody.dir/link.txt --verbose=1 -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/link.txt --verbose=1 /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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -/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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 96%] Built target TestDuMMForces make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 95%] Built target TestEthaneFromSimbody +[ 95%] Linking CXX executable ../../TestSerineWithViz +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSerineWithViz.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 96%] Built target TestEthaneFromSimbody -[ 96%] Built target RemoveMassCenterDriftWithOptimizer -[ 97%] Linking CXX executable ../../TestSodiumWithViz +[ 95%] Built target TestSerineWithViz +[ 96%] Linking CXX executable ../../TestSodiumWithViz cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSodiumWithViz.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 97%] Linking CXX executable ../../RemoveMassCenterDriftWithOptimizer +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDriftWithOptimizer.dir/link.txt --verbose=1 +/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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 +[ 98%] Linking CXX executable ../../TestSimpleProtein +cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSimpleProtein.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 97%] Built target TestSodiumWithViz -[ 98%] Linking CXX executable ../../TestWriteLargerPdb +make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' +[ 98%] Built target TestSimpleProtein +[ 98%] Built target TestSodiumWithViz +[ 99%] Linking CXX executable ../../TestWriteLargerPdb cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestWriteLargerPdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 -[ 99%] Linking CXX executable ../../TestSimpleProtein -cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/TestSimpleProtein.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 99%] Built target TestWriteLargerPdb +[ 99%] Built target RemoveMassCenterDriftWithOptimizer make[3]: Leaving directory '/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu' -[ 99%] Built target TestSimpleProtein +[ 99%] Built target TestWriteLargerPdb [100%] Linking CXX executable ../../RemoveMassCenterDrift cd "/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu/tests/adhoc" && /usr/bin/cmake -E cmake_link_script CMakeFiles/RemoveMassCenterDrift.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/molmodel-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-x86_64-linux-gnu" ../../libSimTKmolmodel.so.3.0 /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lblas -llapack -lblas -llapack -lpthread -lrt -ldl -lm -lmmdb2 @@ -1949,7 +1984,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/molmodel-3.0\~svn842/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j15 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-x86_64-linux-gnu' /usr/bin/cmake -S"/build/molmodel-3.0~svn842" -B"/build/molmodel-3.0~svn842/obj-x86_64-linux-gnu" --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -2077,8 +2112,8 @@ dh_md5sums dh_builddeb dpkg-deb: building package 'libsimtkmolmodel3.0-dbgsym' in '../libsimtkmolmodel3.0-dbgsym_3.0~svn842-2_amd64.deb'. -dpkg-deb: building package 'libsimtkmolmodel3.0' in '../libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb'. dpkg-deb: building package 'libsimtkmolmodel-dev' in '../libsimtkmolmodel-dev_3.0~svn842-2_amd64.deb'. +dpkg-deb: building package 'libsimtkmolmodel3.0' in '../libsimtkmolmodel3.0_3.0~svn842-2_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../molmodel_3.0~svn842-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2086,12 +2121,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1097167/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1097167/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/683074 and its subdirectories -I: Current time: Wed Feb 1 21:59:10 -12 2023 -I: pbuilder-time-stamp: 1675331950 +I: removing directory /srv/workspace/pbuilder/1097167 and its subdirectories +I: Current time: Fri Dec 31 17:41:36 +14 2021 +I: pbuilder-time-stamp: 1640922096