Mon Jun 1 11:37:54 UTC 2020 I: starting to build apbs/buster/i386 on jenkins on '2020-06-01 11:37' Mon Jun 1 11:37:54 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_13/9538/console.log Mon Jun 1 11:37:54 UTC 2020 I: Downloading source for buster/apbs=1.4-1 --2020-06-01 11:37:54-- http://deb.debian.org/debian/pool/main/a/apbs/apbs_1.4-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1339 (1.3K) Saving to: ‘apbs_1.4-1.dsc’ 0K . 100% 71.2M=0s 2020-06-01 11:37:54 (71.2 MB/s) - ‘apbs_1.4-1.dsc’ saved [1339/1339] Mon Jun 1 11:37:54 UTC 2020 I: apbs_1.4-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Format: 3.0 (quilt) Source: apbs Binary: apbs Architecture: any Version: 1.4-1 Maintainer: Debichem Team Uploaders: Michael Banck Homepage: http://apbs.sourceforge.net Standards-Version: 3.9.4 Vcs-Browser: http://anonscm.debian.org/viewvc/debichem/unstable/apbs/ Vcs-Svn: svn://anonscm.debian.org/debichem/unstable/apbs/ Build-Depends: cmake, debhelper (>> 7.0.50~), libmaloc-dev, libpython-dev, mpi-default-dev (>= 0.3), python-minimal (>> 2.6.6-3~), python-setuptools, zlib1g-dev Package-List: apbs deb science optional Checksums-Sha1: 4f10e300ab5c98607d65de5a82e4b66ced8b78bb 29711532 apbs_1.4.orig.tar.gz 93f8d5bae9f4a05d7510fe31a12a80f67c923395 9348 apbs_1.4-1.debian.tar.gz Checksums-Sha256: 00312320a042e283f106583a3f8b9093abbd193fe5e22ca5c615ab722ca586bd 29711532 apbs_1.4.orig.tar.gz 4634d3bcc8f50b9bd9d885a50c7cb20de3379560881f4889a7a80f626c33f3b9 9348 apbs_1.4-1.debian.tar.gz Files: e0281bd44ffecb651e40687cdaa26361 29711532 apbs_1.4.orig.tar.gz b9bb574b4e0a470a55a8a107dafb03e0 9348 apbs_1.4-1.debian.tar.gz -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.14 (GNU/Linux) iEYEARECAAYFAlID0VMACgkQm0bx+wiPa4xaUgCfQeR4OOXRuqkZvH1rFeWL43EV XlwAoLSnXWcLkkCOf6SxlQPK5X7Wg/ow =RIqu -----END PGP SIGNATURE----- Mon Jun 1 11:37:54 UTC 2020 I: Checking whether the package is not for us Mon Jun 1 11:37:54 UTC 2020 I: Starting 1st build on remote node profitbricks-build12-i386.debian.net. Mon Jun 1 11:37:54 UTC 2020 I: Preparing to do remote build '1' on profitbricks-build12-i386.debian.net. Mon Jun 1 11:59:52 UTC 2020 I: Deleting $TMPDIR on profitbricks-build12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun May 31 23:38:16 -12 2020 I: pbuilder-time-stamp: 1591011496 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [apbs_1.4-1.dsc] I: copying [./apbs_1.4.orig.tar.gz] I: copying [./apbs_1.4-1.debian.tar.gz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Thu Aug 8 05:11:47 2013 -12 gpgv: using DSA key 9B46F1FB088F6B8C gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./apbs_1.4-1.dsc dpkg-source: info: extracting apbs in apbs-1.4 dpkg-source: info: unpacking apbs_1.4.orig.tar.gz dpkg-source: info: unpacking apbs_1.4-1.debian.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying debian_testfiles.patch dpkg-source: info: applying debian_make.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/28622/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='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=10' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='e6d4905722994a3580e032402377cf85' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='28622' PS1='# ' PS2='> ' 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.iu6xcIrs9m/pbuilderrc_B6ap --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.iu6xcIrs9m/b1 --logfile b1/build.log apbs_1.4-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux profitbricks-build12-i386 4.19.0-9-686-pae #1 SMP Debian 4.19.118-2 (2020-04-29) i686 GNU/Linux I: ls -l /bin total 5500 -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 17768 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 38692 Feb 28 2019 cat -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash -rwxr-xr-x 1 root root 120676 Feb 28 2019 date -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd -rwxr-xr-x 1 root root 100620 Feb 28 2019 df -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir -rwxr-xr-x 1 root root 79412 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 34532 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 34532 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 30112 Apr 22 07:38 fusermount -rwxr-xr-x 1 root root 206392 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 100952 Jan 5 2019 gzip -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln -rwxr-xr-x 1 root root 55400 Jul 26 2018 login -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 42348 Jan 9 2019 more -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 157832 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38660 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 May 31 20:27 sh -> dash -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty -rwsr-xr-x 1 root root 71072 Jan 9 2019 su -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch -rwxr-xr-x 1 root root 34532 Feb 28 2019 true -rwxr-xr-x 1 root root 17768 Apr 22 07:38 ulockmgr_server -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34208 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/28622/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: cmake, debhelper (>> 7.0.50~), libmaloc-dev, libpython-dev, mpi-default-dev (>= 0.3), python-minimal (>> 2.6.6-3~), python-setuptools, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper (>> 7.0.50~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on libmaloc-dev; however: Package libmaloc-dev is not installed. pbuilder-satisfydepends-dummy depends on libpython-dev; however: Package libpython-dev is not installed. pbuilder-satisfydepends-dummy depends on mpi-default-dev (>= 0.3); however: Package mpi-default-dev is not installed. pbuilder-satisfydepends-dummy depends on python-minimal (>> 2.6.6-3~); however: Package python-minimal is not installed. pbuilder-satisfydepends-dummy depends on python-setuptools; however: Package python-setuptools is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbsd0{a} libcroco3{a} libcurl4{a} libedit2{a} libelf1{a} libevent-2.1-6{a} libevent-core-2.1-6{a} libevent-pthreads-2.1-6{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgssapi-krb5-2{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc5{a} libibverbs-dev{a} libibverbs1{a} libicu63{a} libjsoncpp1{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.4-2{a} libldap-common{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libmaloc-dev{a} libmaloc1{a} libncurses6{a} libnghttp2-14{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpmix2{a} libprocps7{a} libpsl5{a} libpsm-infinipath1{a} libpython-dev{a} libpython-stdlib{a} libpython2-dev{a} libpython2-stdlib{a} libpython2.7{a} libpython2.7-dev{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} librdmacm1{a} libreadline7{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libssl1.1{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} lsb-base{a} m4{a} man-db{a} mime-support{a} mpi-default-dev{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} po-debconf{a} procps{a} python{a} python-minimal{a} python-pkg-resources{a} python-setuptools{a} python2{a} python2-minimal{a} python2.7{a} python2.7-minimal{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libglib2.0-data libgpm2 libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xauth xdg-user-dirs 0 packages upgraded, 112 newly installed, 0 to remove and 0 not upgraded. Need to get 76.1 MB of archives. After unpacking 217 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 libpython2.7-minimal i386 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main i386 python2.7-minimal i386 2.7.16-2+deb10u1 [1381 kB] Get: 9 http://deb.debian.org/debian buster/main i386 python2-minimal i386 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main i386 python-minimal i386 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u3 [1537 kB] Get: 12 http://deb.debian.org/debian buster/main i386 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2+deb10u1 [104 kB] Get: 14 http://deb.debian.org/debian buster/main i386 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main i386 libreadline7 i386 7.0-5 [156 kB] Get: 16 http://deb.debian.org/debian buster/main i386 libpython2.7-stdlib i386 2.7.16-2+deb10u1 [1934 kB] Get: 17 http://deb.debian.org/debian buster/main i386 python2.7 i386 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main i386 libpython2-stdlib i386 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main i386 libpython-stdlib i386 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main i386 python2 i386 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main i386 python i386 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 23 http://deb.debian.org/debian buster/main i386 libprocps7 i386 2:3.3.15-2 [62.7 kB] Get: 24 http://deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 25 http://deb.debian.org/debian buster/main i386 procps i386 2:3.3.15-2 [259 kB] Get: 26 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 27 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 28 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 29 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 30 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 31 http://deb.debian.org/debian buster/main i386 libedit2 i386 3.1-20181209-1 [98.2 kB] Get: 32 http://deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 33 http://deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 37 http://deb.debian.org/debian buster/main i386 openssh-client i386 1:7.9p1-10+deb10u2 [834 kB] Get: 38 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 39 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 40 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 41 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 42 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 43 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 44 http://deb.debian.org/debian buster/main i386 cmake-data all 3.13.4-1 [1476 kB] Get: 45 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6+deb10u1 [8451 kB] Get: 46 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 47 http://deb.debian.org/debian buster/main i386 libarchive13 i386 3.3.3-4+deb10u1 [351 kB] Get: 48 http://deb.debian.org/debian buster/main i386 libsasl2-modules-db i386 2.1.27+dfsg-1+deb10u1 [70.1 kB] Get: 49 http://deb.debian.org/debian buster/main i386 libsasl2-2 i386 2.1.27+dfsg-1+deb10u1 [110 kB] Get: 50 http://deb.debian.org/debian buster/main i386 libldap-common all 2.4.47+dfsg-3+deb10u2 [89.7 kB] Get: 51 http://deb.debian.org/debian buster/main i386 libldap-2.4-2 i386 2.4.47+dfsg-3+deb10u2 [236 kB] Get: 52 http://deb.debian.org/debian buster/main i386 libnghttp2-14 i386 1.36.0-2+deb10u1 [90.3 kB] Get: 53 http://deb.debian.org/debian buster/main i386 libpsl5 i386 0.20.2-2 [54.4 kB] Get: 54 http://deb.debian.org/debian buster/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [64.2 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libssh2-1 i386 1.8.0-2.1 [147 kB] Get: 56 http://deb.debian.org/debian buster/main i386 libcurl4 i386 7.64.0-4+deb10u1 [358 kB] Get: 57 http://deb.debian.org/debian buster/main i386 libjsoncpp1 i386 1.7.4-3 [85.0 kB] Get: 58 http://deb.debian.org/debian buster/main i386 librhash0 i386 1.3.8-1 [135 kB] Get: 59 http://deb.debian.org/debian buster/main i386 libuv1 i386 1.24.1-1 [116 kB] Get: 60 http://deb.debian.org/debian buster/main i386 cmake i386 3.13.4-1 [3747 kB] Get: 61 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 62 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 63 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 64 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 65 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 66 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 67 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 68 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 69 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 70 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 71 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 72 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 73 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 74 http://deb.debian.org/debian buster/main i386 libnl-3-200 i386 3.4.0-1 [65.8 kB] Get: 75 http://deb.debian.org/debian buster/main i386 libnl-route-3-200 i386 3.4.0-1 [170 kB] Get: 76 http://deb.debian.org/debian buster/main i386 libibverbs1 i386 22.1-1 [53.9 kB] Get: 77 http://deb.debian.org/debian buster/main i386 ibverbs-providers i386 22.1-1 [201 kB] Get: 78 http://deb.debian.org/debian buster/main i386 libevent-2.1-6 i386 2.1.8-stable-4 [191 kB] Get: 79 http://deb.debian.org/debian buster/main i386 libevent-core-2.1-6 i386 2.1.8-stable-4 [137 kB] Get: 80 http://deb.debian.org/debian buster/main i386 libevent-pthreads-2.1-6 i386 2.1.8-stable-4 [48.1 kB] Get: 81 http://deb.debian.org/debian buster/main i386 libexpat1-dev i386 2.2.6-2+deb10u1 [156 kB] Get: 82 http://deb.debian.org/debian buster/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6 [178 kB] Get: 83 http://deb.debian.org/debian buster/main i386 librdmacm1 i386 22.1-1 [68.8 kB] Get: 84 http://deb.debian.org/debian buster/main i386 libfabric1 i386 1.6.2-3 [364 kB] Get: 85 http://deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 86 http://deb.debian.org/debian buster/main i386 libltdl7 i386 2.4.6-9 [392 kB] Get: 87 http://deb.debian.org/debian buster/main i386 libnuma1 i386 2.0.12-1 [27.7 kB] Get: 88 http://deb.debian.org/debian buster/main i386 libhwloc5 i386 1.11.12-3 [119 kB] Get: 89 http://deb.debian.org/debian buster/main i386 libnuma-dev i386 2.0.12-1 [40.9 kB] Get: 90 http://deb.debian.org/debian buster/main i386 libltdl-dev i386 2.4.6-9 [164 kB] Get: 91 http://deb.debian.org/debian buster/main i386 libhwloc-dev i386 1.11.12-3 [185 kB] Get: 92 http://deb.debian.org/debian buster/main i386 libpciaccess0 i386 0.14-1 [55.7 kB] Get: 93 http://deb.debian.org/debian buster/main i386 ocl-icd-libopencl1 i386 2.2.12-2 [37.2 kB] Get: 94 http://deb.debian.org/debian buster/main i386 libhwloc-plugins i386 1.11.12-3 [17.8 kB] Get: 95 http://deb.debian.org/debian buster/main i386 libnl-3-dev i386 3.4.0-1 [107 kB] Get: 96 http://deb.debian.org/debian buster/main i386 libnl-route-3-dev i386 3.4.0-1 [193 kB] Get: 97 http://deb.debian.org/debian buster/main i386 libibverbs-dev i386 22.1-1 [385 kB] Get: 98 http://deb.debian.org/debian buster/main i386 libmaloc1 i386 0.2-3.1 [52.7 kB] Get: 99 http://deb.debian.org/debian buster/main i386 libmaloc-dev i386 0.2-3.1 [149 kB] Get: 100 http://deb.debian.org/debian buster/main i386 libpmix2 i386 3.1.2-3 [541 kB] Get: 101 http://deb.debian.org/debian buster/main i386 libopenmpi3 i386 3.1.3-11 [2236 kB] Get: 102 http://deb.debian.org/debian buster/main i386 openmpi-common all 3.1.3-11 [165 kB] Get: 103 http://deb.debian.org/debian buster/main i386 openmpi-bin i386 3.1.3-11 [200 kB] Get: 104 http://deb.debian.org/debian buster/main i386 libopenmpi-dev i386 3.1.3-11 [963 kB] Get: 105 http://deb.debian.org/debian buster/main i386 libpython2.7 i386 2.7.16-2+deb10u1 [1059 kB] Get: 106 http://deb.debian.org/debian buster/main i386 libpython2.7-dev i386 2.7.16-2+deb10u1 [31.4 MB] Get: 107 http://deb.debian.org/debian buster/main i386 libpython2-dev i386 2.7.16-1 [20.9 kB] Get: 108 http://deb.debian.org/debian buster/main i386 libpython-dev i386 2.7.16-1 [20.9 kB] Get: 109 http://deb.debian.org/debian buster/main i386 mpi-default-dev i386 1.13 [5476 B] Get: 110 http://deb.debian.org/debian buster/main i386 python-pkg-resources all 40.8.0-1 [182 kB] Get: 111 http://deb.debian.org/debian buster/main i386 python-setuptools all 40.8.0-1 [382 kB] Get: 112 http://deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Fetched 76.1 MB in 4min 0s (317 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... 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Unpacking python2-minimal (2.7.16-1) ... Selecting previously unselected package python-minimal. Preparing to unpack .../09-python-minimal_2.7.16-1_i386.deb ... Unpacking python-minimal (2.7.16-1) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../10-libssl1.1_1.1.1d-0+deb10u3_i386.deb ... Unpacking libssl1.1:i386 (1.1.1d-0+deb10u3) ... Selecting previously unselected package mime-support. Preparing to unpack .../11-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../12-libexpat1_2.2.6-2+deb10u1_i386.deb ... Unpacking libexpat1:i386 (2.2.6-2+deb10u1) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:i386. Preparing to unpack .../14-libreadline7_7.0-5_i386.deb ... Unpacking libreadline7:i386 (7.0-5) ... 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(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 ... 20732 files and directories currently installed.) Preparing to unpack .../00-python_2.7.16-1_i386.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../01-libncurses6_6.1+20181013-2+deb10u2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:i386. Preparing to unpack .../02-libprocps7_2%3a3.3.15-2_i386.deb ... Unpacking libprocps7:i386 (2:3.3.15-2) ... Selecting previously unselected package lsb-base. Preparing to unpack .../03-lsb-base_10.2019051400_all.deb ... Unpacking lsb-base (10.2019051400) ... Selecting previously unselected package procps. Preparing to unpack .../04-procps_2%3a3.3.15-2_i386.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../05-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../06-libmagic-mgc_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../07-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.35-4+deb10u1_i386.deb ... Unpacking file (1:5.35-4+deb10u1) ... 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Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../15-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package openssh-client. Preparing to unpack .../16-openssh-client_1%3a7.9p1-10+deb10u2_i386.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../17-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../18-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../19-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../20-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../21-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../22-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../23-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../24-libicu63_63.1-6+deb10u1_i386.deb ... Unpacking libicu63:i386 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../25-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libarchive13:i386. Preparing to unpack .../26-libarchive13_3.3.3-4+deb10u1_i386.deb ... Unpacking libarchive13:i386 (3.3.3-4+deb10u1) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../27-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../28-libsasl2-2_2.1.27+dfsg-1+deb10u1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../29-libldap-common_2.4.47+dfsg-3+deb10u2_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../30-libldap-2.4-2_2.4.47+dfsg-3+deb10u2_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../31-libnghttp2-14_1.36.0-2+deb10u1_i386.deb ... Unpacking libnghttp2-14:i386 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../32-libpsl5_0.20.2-2_i386.deb ... Unpacking libpsl5:i386 (0.20.2-2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../33-librtmp1_2.4+20151223.gitfa8646d.1-2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../34-libssh2-1_1.8.0-2.1_i386.deb ... Unpacking libssh2-1:i386 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../35-libcurl4_7.64.0-4+deb10u1_i386.deb ... Unpacking libcurl4:i386 (7.64.0-4+deb10u1) ... Selecting previously unselected package libjsoncpp1:i386. Preparing to unpack .../36-libjsoncpp1_1.7.4-3_i386.deb ... Unpacking libjsoncpp1:i386 (1.7.4-3) ... Selecting previously unselected package librhash0:i386. Preparing to unpack .../37-librhash0_1.3.8-1_i386.deb ... Unpacking librhash0:i386 (1.3.8-1) ... Selecting previously unselected package libuv1:i386. Preparing to unpack .../38-libuv1_1.24.1-1_i386.deb ... Unpacking libuv1:i386 (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../39-cmake_3.13.4-1_i386.deb ... Unpacking cmake (3.13.4-1) ... Selecting previously unselected package libtool. Preparing to unpack .../40-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../41-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../42-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../43-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../44-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../45-libelf1_0.176-1.1_i386.deb ... Unpacking libelf1:i386 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../46-dwz_0.12-3_i386.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../47-libglib2.0-0_2.58.3-2+deb10u2_i386.deb ... Unpacking libglib2.0-0:i386 (2.58.3-2+deb10u2) ... Selecting previously unselected package libcroco3:i386. Preparing to unpack .../48-libcroco3_0.6.12-3_i386.deb ... Unpacking libcroco3:i386 (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../49-gettext_0.19.8.1-9_i386.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. 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Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../91-zlib1g-dev_1%3a1.2.11.dfsg-1_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.2.11.dfsg-1) ... Setting up libmaloc1 (0.2-3.1) ... Setting up libexpat1:i386 (2.2.6-2+deb10u1) ... Setting up libpipeline1:i386 (1.5.1-2) ... Setting up lsb-base (10.2019051400) ... Setting up libpciaccess0:i386 (0.14-1) ... Setting up libkeyutils1:i386 (1.6-6) ... Setting up libpsl5:i386 (0.20.2-2) ... Setting up mime-support (3.62) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:i386 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libssl1.1:i386 (1.1.1d-0+deb10u3) ... Setting up libprocps7:i386 (2:3.3.15-2) ... Setting up libnghttp2-14:i386 (1.36.0-2+deb10u1) ... Setting up libmagic1:i386 (1:5.35-4+deb10u1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u2) ... Setting up libicu63:i386 (63.1-6+deb10u1) ... Setting up libkrb5support0:i386 (1.17-3) ... Setting up libsasl2-modules-db:i386 (2.1.27+dfsg-1+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libuv1:i386 (1.24.1-1) ... Setting up libexpat1-dev:i386 (2.2.6-2+deb10u1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:i386 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:i386 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libk5crypto3:i386 (1.17-3) ... Setting up libltdl7:i386 (2.4.6-9) ... Setting up libsasl2-2:i386 (2.1.27+dfsg-1+deb10u1) ... Setting up libevent-core-2.1-6:i386 (2.1.8-stable-4) ... Setting up libgfortran5:i386 (8.3.0-6) ... Setting up libevent-2.1-6:i386 (2.1.8-stable-4) ... Setting up zlib1g-dev:i386 (1:1.2.11.dfsg-1) ... Setting up libnuma1:i386 (2.0.12-1) ... Setting up sensible-utils (0.0.12) ... Setting up ocl-icd-libopencl1:i386 (2.2.12-2) ... Setting up librhash0:i386 (1.3.8-1) ... Setting up libuchardet0:i386 (0.0.6-3) ... Setting up procps (2:3.3.15-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libnl-3-200:i386 (3.4.0-1) ... Setting up openmpi-common (3.1.3-11) ... Setting up libssh2-1:i386 (1.8.0-2.1) ... Setting up cmake-data (3.13.4-1) ... Setting up libkrb5-3:i386 (1.17-3) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/i386-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libbsd0:i386 (0.9.1-2) ... Setting up libelf1:i386 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:i386 (2.9.4+dfsg1-7+b3) ... Setting up libmaloc-dev (0.2-3.1) ... Setting up libjsoncpp1:i386 (1.7.4-3) ... Setting up libreadline7:i386 (7.0-5) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libevent-pthreads-2.1-6:i386 (2.1.8-stable-4) ... Setting up libtool (2.4.6-9) ... Setting up libarchive13:i386 (3.3.3-4+deb10u1) ... Setting up libhwloc5:i386 (1.11.12-3) ... Setting up libedit2:i386 (3.1-20181209-1) ... Setting up libldap-2.4-2:i386 (2.4.47+dfsg-3+deb10u2) ... Setting up m4 (1.4.18-2) ... Setting up libhwloc-plugins:i386 (1.11.12-3) ... Setting up libnuma-dev:i386 (2.0.12-1) ... Setting up libnl-route-3-200:i386 (3.4.0-1) ... Setting up libpython2.7-stdlib:i386 (2.7.16-2+deb10u1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:i386 (1.17-3) ... Setting up libcroco3:i386 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up libnl-3-dev:i386 (3.4.0-1) ... Setting up groff-base (1.22.4-3) ... Setting up libcurl4:i386 (7.64.0-4+deb10u1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:i386 (22.1-1) ... Setting up libpython2.7:i386 (2.7.16-2+deb10u1) ... Setting up libpython2.7-dev:i386 (2.7.16-2+deb10u1) ... Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpmix2:i386 (3.1.2-3) ... Setting up ibverbs-providers:i386 (22.1-1) ... Setting up libpython2-stdlib:i386 (2.7.16-1) ... Setting up openssh-client (1:7.9p1-10+deb10u2) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python2 (2.7.16-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libnl-route-3-dev:i386 (3.4.0-1) ... Setting up libltdl-dev:i386 (2.4.6-9) ... Setting up libpython-stdlib:i386 (2.7.16-1) ... Setting up cmake (3.13.4-1) ... Setting up libpython2-dev:i386 (2.7.16-1) ... Setting up libhwloc-dev:i386 (1.11.12-3) ... Setting up python (2.7.16-1) ... Setting up librdmacm1:i386 (22.1-1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up po-debconf (1.0.21) ... Setting up libibverbs-dev:i386 (22.1-1) ... Setting up libpython-dev:i386 (2.7.16-1) ... Setting up python-setuptools (40.8.0-1) ... Setting up libfabric1 (1.6.2-3) ... Setting up libopenmpi3:i386 (3.1.3-11) ... Setting up openmpi-bin (3.1.3-11) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:i386 (3.1.3-11) ... update-alternatives: using /usr/lib/i386-linux-gnu/openmpi/include to provide /usr/include/i386-linux-gnu/mpi (mpi-i386-linux-gnu) in auto mode Setting up mpi-default-dev (1.13) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/apbs-1.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package apbs dpkg-buildpackage: info: source version 1.4-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Debichem Team dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --parallel dh: Compatibility levels before 9 are deprecated (level 7 in use) dh_auto_clean -O--parallel dh_auto_clean: Compatibility levels before 9 are deprecated (level 7 in use) debian/rules override_dh_clean make[1]: Entering directory '/build/apbs-1.4' (cd /build/apbs-1.4/build && /bin/bash cleanup.sh) rm: missing operand Try 'rm --help' for more information. make[1]: [debian/rules:26: override_dh_clean] Error 123 (ignored) dh_clean dh_clean: Compatibility levels before 9 are deprecated (level 7 in use) make[1]: Leaving directory '/build/apbs-1.4' debian/rules build make: 'build' is up to date. fakeroot debian/rules binary dh binary --parallel dh: Compatibility levels before 9 are deprecated (level 7 in use) dh_update_autotools_config -O--parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/build/apbs-1.4' dh_auto_configure -- \ -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=On \ -DBUILD_DOC=Off -DBUILD_TOOLS=Off \ -DENABLE_OPENMP=On -DENABLE_MPI=On -DENABLE_ZLIB=On \ -DENABLE_PYTHON=On -DENABLE_READLINE=Off \ -DFETK_PATH=/usr -DENABLE_FETK=Off dh_auto_configure: Compatibility levels before 9 are deprecated (level 7 in use) cd obj-i686-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=On -DBUILD_DOC=Off -DBUILD_TOOLS=Off -DENABLE_OPENMP=On -DENABLE_MPI=On -DENABLE_ZLIB=On -DENABLE_PYTHON=On -DENABLE_READLINE=Off -DFETK_PATH=/usr -DENABLE_FETK=Off .. -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Setting project paths -- Setting lookup paths for headers and libraries -- Computing machien epsilon values -- Floating point epsilon is 2.220446e-16 -- Double precision epsilon is 2.220446e-16 -- Checking for math library -- The math library was found: /usr/lib/i386-linux-gnu/libm.so -- Checking for the liberty library CMake Warning at CMakeLists.txt:193 (message): Liberty library not found -- The nsl library was found: /usr/lib/i386-linux-gnu/libnsl.so CMake Warning at CMakeLists.txt:237 (message): The socket library was not found CMake Warning at CMakeLists.txt:259 (message): The thread library was not found -- Looking for time -- Looking for time - found -- Looking for rand -- Looking for rand - found -- Looking for srand -- Looking for srand - found -- Found fetk: /usr -- Looking for include file maloc/maloc.h -- Looking for include file maloc/maloc.h - found -- External maloc headers found -- External maloc library was found: /usr/lib/libmaloc.so -- Checking for zlib -- Found ZLIB: /usr/lib/i386-linux-gnu/libz.so (found version "1.2.11") -- The zlib library was found: /usr/lib/i386-linux-gnu/libz.so -- Inline functions enabled -- Looking for python components -- Found PythonInterp: /usr/bin/python (found version "2.7.16") -- Found PythonLibs: /usr/lib/i386-linux-gnu/libpython2.7.so (found version "2.7.16") -- Checking for OpenMP -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- OpenMP support enabled -- Checking for MPI -- Found MPI_C: /usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") -- MPI support enabled -- Adding apbs_generic -- With source files nosh.c;mgparm.c;femparm.c;pbeparm.c;apolparm.c;vacc.c;valist.c;vatom.c;vpbe.c;vcap.c;vclist.c;vstring.c;vparam.c;vgreen.c -- With external header files nosh.h;mgparm.h;femparm.h;pbeparm.h;apolparm.h;vacc.h;valist.h;vatom.h;vpbe.h;vcap.h;vclist.h;vstring.h;vparam.h;vgreen.h;vmatrix.h;vhal.h -- With internal header files -- With library dependencies /usr/lib/i386-linux-gnu/libm.so;/usr/lib/i386-linux-gnu/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/i386-linux-gnu/libz.so;-fopenmp;/usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so -- Added apbs_generic -- Adding apbs_pmgc -- With source files buildAd.c;buildBd.c;buildGd.c;buildPd.c;cgd.c;gsd.c;matvecd.c;mgcsd.c;mgdrvd.c;mgsubd.c;mikpckd.c;mlinpckd.c;mypdec.c;newtond.c;newdrvd.c;powerd.c;smoothd.c;mgfasd.c -- With external header files buildAd.h;buildBd.h;buildGd.h;buildPd.h;cgd.h;gsd.h;matvecd.h;mgcsd.h;mgdrvd.h;mgsubd.h;mikpckd.h;mlinpckd.h;mypdec.h;newtond.h;newdrvd.h;powerd.h;smoothd.h;mgfasd.h -- With internal header files -- With library dependencies /usr/lib/i386-linux-gnu/libm.so;/usr/lib/i386-linux-gnu/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/i386-linux-gnu/libz.so;-fopenmp;/usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so -- Added apbs_pmgc -- Adding apbs_mg -- With source files vgrid.c;vmgrid.c;vopot.c;vpmg.c;vpmgp.c -- With external header files vgrid.h;vmgrid.h;vopot.h;vpmg.h;vpmgp.h -- With internal header files -- With library dependencies /usr/lib/i386-linux-gnu/libm.so;/usr/lib/i386-linux-gnu/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/i386-linux-gnu/libz.so;-fopenmp;/usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so;apbs_generic;apbs_pmgc -- Added apbs_mg -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/apbs-1.4/obj-i686-linux-gnu make[1]: Leaving directory '/build/apbs-1.4' dh_auto_build -O--parallel dh_auto_build: Compatibility levels before 9 are deprecated (level 7 in use) cd obj-i686-linux-gnu && make -j10 make[1]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' /usr/bin/cmake -S/build/apbs-1.4 -B/build/apbs-1.4/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-i686-linux-gnu/CMakeFiles /build/apbs-1.4/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/pmgc/CMakeFiles/apbs_pmgc.dir/build.make src/pmgc/CMakeFiles/apbs_pmgc.dir/depend make -f src/generic/CMakeFiles/apbs_generic.dir/build.make src/generic/CMakeFiles/apbs_generic.dir/depend make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/pmgc /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc/CMakeFiles/apbs_pmgc.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/generic /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src/generic /build/apbs-1.4/obj-i686-linux-gnu/src/generic/CMakeFiles/apbs_generic.dir/DependInfo.cmake --color= Scanning dependencies of target apbs_generic make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/generic/CMakeFiles/apbs_generic.dir/build.make src/generic/CMakeFiles/apbs_generic.dir/build make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 2%] Building C object src/generic/CMakeFiles/apbs_generic.dir/nosh.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/nosh.c.o -c /build/apbs-1.4/src/generic/nosh.c [ 4%] Building C object src/generic/CMakeFiles/apbs_generic.dir/mgparm.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/mgparm.c.o -c /build/apbs-1.4/src/generic/mgparm.c [ 9%] Building C object src/generic/CMakeFiles/apbs_generic.dir/pbeparm.c.o [ 9%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vacc.c.o [ 11%] Building C object src/generic/CMakeFiles/apbs_generic.dir/apolparm.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/pbeparm.c.o -c /build/apbs-1.4/src/generic/pbeparm.c cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/apolparm.c.o -c /build/apbs-1.4/src/generic/apolparm.c cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vacc.c.o -c /build/apbs-1.4/src/generic/vacc.c [ 13%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vatom.c.o [ 16%] Building C object src/generic/CMakeFiles/apbs_generic.dir/valist.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vatom.c.o -c /build/apbs-1.4/src/generic/vatom.c [ 18%] Building C object src/generic/CMakeFiles/apbs_generic.dir/femparm.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/valist.c.o -c /build/apbs-1.4/src/generic/valist.c cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/femparm.c.o -c /build/apbs-1.4/src/generic/femparm.c [ 20%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vpbe.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vpbe.c.o -c /build/apbs-1.4/src/generic/vpbe.c Scanning dependencies of target apbs_pmgc make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/pmgc/CMakeFiles/apbs_pmgc.dir/build.make src/pmgc/CMakeFiles/apbs_pmgc.dir/build make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 23%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildAd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/buildAd.c.o -c /build/apbs-1.4/src/pmgc/buildAd.c [ 27%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vstring.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vstring.c.o -c /build/apbs-1.4/src/generic/vstring.c [ 30%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vclist.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vclist.c.o -c /build/apbs-1.4/src/generic/vclist.c [ 30%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vcap.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vcap.c.o -c /build/apbs-1.4/src/generic/vcap.c [ 32%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildBd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/buildBd.c.o -c /build/apbs-1.4/src/pmgc/buildBd.c [ 34%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vparam.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vparam.c.o -c /build/apbs-1.4/src/generic/vparam.c [ 37%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vgreen.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vgreen.c.o -c /build/apbs-1.4/src/generic/vgreen.c [ 39%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildGd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/buildGd.c.o -c /build/apbs-1.4/src/pmgc/buildGd.c [ 41%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildPd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/buildPd.c.o -c /build/apbs-1.4/src/pmgc/buildPd.c [ 44%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/cgd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/cgd.c.o -c /build/apbs-1.4/src/pmgc/cgd.c [ 46%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/gsd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/gsd.c.o -c /build/apbs-1.4/src/pmgc/gsd.c [ 48%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/matvecd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/matvecd.c.o -c /build/apbs-1.4/src/pmgc/matvecd.c [ 51%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgcsd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mgcsd.c.o -c /build/apbs-1.4/src/pmgc/mgcsd.c [ 53%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgdrvd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mgdrvd.c.o -c /build/apbs-1.4/src/pmgc/mgdrvd.c [ 55%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgsubd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mgsubd.c.o -c /build/apbs-1.4/src/pmgc/mgsubd.c [ 58%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mikpckd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mikpckd.c.o -c /build/apbs-1.4/src/pmgc/mikpckd.c [ 60%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mlinpckd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mlinpckd.c.o -c /build/apbs-1.4/src/pmgc/mlinpckd.c [ 62%] Linking C static library ../../../lib/libapbs_generic.a cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cmake -P CMakeFiles/apbs_generic.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-i686-linux-gnu/src/generic && /usr/bin/cmake -E cmake_link_script CMakeFiles/apbs_generic.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libapbs_generic.a CMakeFiles/apbs_generic.dir/nosh.c.o CMakeFiles/apbs_generic.dir/mgparm.c.o CMakeFiles/apbs_generic.dir/femparm.c.o CMakeFiles/apbs_generic.dir/pbeparm.c.o CMakeFiles/apbs_generic.dir/apolparm.c.o CMakeFiles/apbs_generic.dir/vacc.c.o CMakeFiles/apbs_generic.dir/valist.c.o CMakeFiles/apbs_generic.dir/vatom.c.o CMakeFiles/apbs_generic.dir/vpbe.c.o CMakeFiles/apbs_generic.dir/vcap.c.o CMakeFiles/apbs_generic.dir/vclist.c.o CMakeFiles/apbs_generic.dir/vstring.c.o CMakeFiles/apbs_generic.dir/vparam.c.o CMakeFiles/apbs_generic.dir/vgreen.c.o [ 65%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mypdec.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mypdec.c.o -c /build/apbs-1.4/src/pmgc/mypdec.c /usr/bin/ranlib ../../../lib/libapbs_generic.a [ 67%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newtond.c.o make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/newtond.c.o -c /build/apbs-1.4/src/pmgc/newtond.c [ 67%] Built target apbs_generic [ 69%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newdrvd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/newdrvd.c.o -c /build/apbs-1.4/src/pmgc/newdrvd.c [ 72%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/powerd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/powerd.c.o -c /build/apbs-1.4/src/pmgc/powerd.c [ 74%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/smoothd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/smoothd.c.o -c /build/apbs-1.4/src/pmgc/smoothd.c [ 76%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgfasd.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mgfasd.c.o -c /build/apbs-1.4/src/pmgc/mgfasd.c [ 79%] Linking C static library ../../../lib/libapbs_pmgc.a cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cmake -P CMakeFiles/apbs_pmgc.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc && /usr/bin/cmake -E cmake_link_script CMakeFiles/apbs_pmgc.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libapbs_pmgc.a CMakeFiles/apbs_pmgc.dir/buildAd.c.o CMakeFiles/apbs_pmgc.dir/buildBd.c.o CMakeFiles/apbs_pmgc.dir/buildGd.c.o CMakeFiles/apbs_pmgc.dir/buildPd.c.o CMakeFiles/apbs_pmgc.dir/cgd.c.o CMakeFiles/apbs_pmgc.dir/gsd.c.o CMakeFiles/apbs_pmgc.dir/matvecd.c.o CMakeFiles/apbs_pmgc.dir/mgcsd.c.o CMakeFiles/apbs_pmgc.dir/mgdrvd.c.o CMakeFiles/apbs_pmgc.dir/mgsubd.c.o CMakeFiles/apbs_pmgc.dir/mikpckd.c.o CMakeFiles/apbs_pmgc.dir/mlinpckd.c.o CMakeFiles/apbs_pmgc.dir/mypdec.c.o CMakeFiles/apbs_pmgc.dir/newtond.c.o CMakeFiles/apbs_pmgc.dir/newdrvd.c.o CMakeFiles/apbs_pmgc.dir/powerd.c.o CMakeFiles/apbs_pmgc.dir/smoothd.c.o CMakeFiles/apbs_pmgc.dir/mgfasd.c.o /usr/bin/ranlib ../../../lib/libapbs_pmgc.a make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 79%] Built target apbs_pmgc make -f src/mg/CMakeFiles/apbs_mg.dir/build.make src/mg/CMakeFiles/apbs_mg.dir/depend make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/mg /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src/mg /build/apbs-1.4/obj-i686-linux-gnu/src/mg/CMakeFiles/apbs_mg.dir/DependInfo.cmake --color= Scanning dependencies of target apbs_mg make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/mg/CMakeFiles/apbs_mg.dir/build.make src/mg/CMakeFiles/apbs_mg.dir/build make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 81%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vopot.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_mg.dir/vopot.c.o -c /build/apbs-1.4/src/mg/vopot.c [ 83%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vgrid.c.o [ 86%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vmgrid.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_mg.dir/vgrid.c.o -c /build/apbs-1.4/src/mg/vgrid.c cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_mg.dir/vmgrid.c.o -c /build/apbs-1.4/src/mg/vmgrid.c [ 88%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vpmg.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_mg.dir/vpmg.c.o -c /build/apbs-1.4/src/mg/vpmg.c [ 90%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vpmgp.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_mg.dir/vpmgp.c.o -c /build/apbs-1.4/src/mg/vpmgp.c [ 93%] Linking C static library ../../../lib/libapbs_mg.a cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cmake -P CMakeFiles/apbs_mg.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-i686-linux-gnu/src/mg && /usr/bin/cmake -E cmake_link_script CMakeFiles/apbs_mg.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libapbs_mg.a CMakeFiles/apbs_mg.dir/vgrid.c.o CMakeFiles/apbs_mg.dir/vmgrid.c.o CMakeFiles/apbs_mg.dir/vopot.c.o CMakeFiles/apbs_mg.dir/vpmg.c.o CMakeFiles/apbs_mg.dir/vpmgp.c.o /usr/bin/ranlib ../../../lib/libapbs_mg.a make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 93%] Built target apbs_mg make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/depend make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src /build/apbs-1.4/obj-i686-linux-gnu/src/CMakeFiles/apbs.dir/DependInfo.cmake --color= Scanning dependencies of target apbs make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/build make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 95%] Building C object src/CMakeFiles/apbs.dir/main.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs.dir/main.c.o -c /build/apbs-1.4/src/main.c [ 97%] Building C object src/CMakeFiles/apbs.dir/routines.c.o cd /build/apbs-1.4/obj-i686-linux-gnu/src && /usr/bin/cc -I/usr/lib/i386-linux-gnu/openmpi/include/openmpi -I/usr/lib/i386-linux-gnu/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs.dir/routines.c.o -c /build/apbs-1.4/src/routines.c /build/apbs-1.4/src/main.c: In function 'main': /build/apbs-1.4/src/main.c:277:64: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] Vnm_tprint( 1, "This executable compiled on %s at %s\n\n", __DATE__, __TIME__); ^~~~~~~~ /build/apbs-1.4/src/main.c:277:74: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] Vnm_tprint( 1, "This executable compiled on %s at %s\n\n", __DATE__, __TIME__); ^~~~~~~~ /build/apbs-1.4/src/routines.c: In function 'writematMG': /build/apbs-1.4/src/routines.c:1680:34: warning: '-PE' directive writing 3 bytes into a region of size between 1 and 1024 [-Wformat-overflow=] sprintf(writematstem, "%s-PE%d", pbeparm->writematstem,nosh->proc_rank); ^~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 1038 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c:1694:30: warning: '%s' directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writematstem, "mat"); ^~ ~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 1028 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c: In function 'writedataMG': /build/apbs-1.4/src/routines.c:2563:38: warning: '%s' directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writestem, "txt"); ^~ ~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 1028 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c:2554:38: warning: '%s' directive writing 5 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writestem, "dx.gz"); ^~ ~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 7 and 1030 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c:2537:38: warning: '%s' directive writing 4 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writestem, "mcsf"); ^~ ~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 6 and 1029 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c:2530:38: warning: '%s' directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writestem, "ucd"); ^~ ~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 1028 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c:2544:38: warning: '%s' directive writing 3 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writestem, "grd"); ^~ ~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 5 and 1028 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/apbs-1.4/src/routines.c:2520:38: warning: '%s' directive writing 2 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(outpath, "%s.%s", writestem, "dx"); ^~ ~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/maloc/maloc_base.h:77, from /usr/include/maloc/maloc.h:41, from /build/apbs-1.4/src/apbs.h:67, from /build/apbs-1.4/src/routines.h:64, from /build/apbs-1.4/src/routines.c:54: /usr/include/i386-linux-gnu/bits/stdio2.h:36:10: note: '__builtin___sprintf_chk' output between 4 and 1027 bytes into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [100%] Linking C executable ../../bin/apbs cd /build/apbs-1.4/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/apbs.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,--as-needed -rdynamic CMakeFiles/apbs.dir/main.c.o CMakeFiles/apbs.dir/routines.c.o -o ../../bin/apbs -lm -lnsl -lmaloc -lz -fopenmp /usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so ../../lib/libapbs_generic.a ../../lib/libapbs_pmgc.a ../../lib/libapbs_mg.a ../../lib/libapbs_generic.a ../../lib/libapbs_pmgc.a -lm -lnsl -lmaloc -lz -fopenmp /usr/lib/i386-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/i386-linux-gnu/openmpi/lib/libmpi.so make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' [100%] Built target apbs make[2]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-i686-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/build/apbs-1.4' (cd tests; python apbs_tester.py -c test_cases.cfg) 1.4.1 ---------------------------------------------------------------------- APBS -- Adaptive Poisson-Boltzmann Solver Version 1.4.1 Nathan A. Baker (nathan.baker@pnnl.gov) Pacific Northwest National Laboratory Additional contributing authors listed in the code documentation. Copyright (c) 2010-2012 Battelle Memorial Institute. Developed at the Pacific Northwest National Laboratory, operated by Battelle Memorial Institute, Pacific Northwest Division for the U.S. Department of Energy. Portions Copyright (c) 2002-2010, Washington University in St. Louis. Portions Copyright (c) 2002-2010, Nathan A. Baker. Portions Copyright (c) 1999-2002, The Regents of the University of California. Portions Copyright (c) 1995, Michael Holst. All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the developer nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ---------------------------------------------------------------------- APBS uses FETK (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FETK is a portable collection of finite element modeling class libraries developed by the Michael Holst research group and written in an object-oriented form of C. FEtk is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. More information about FEtk may be found at . ---------------------------------------------------------------------- APBS also uses Aqua to solve the Poisson-Boltzmann equation numerically. Aqua is a modified form of the Holst group PMG library which has been modified by Patrice Koehl for improved efficiency and memory usage when solving the Poisson-Boltzmann equation. ---------------------------------------------------------------------- Please cite your use of APBS as: Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. This executable compiled on Aug 8 2013 at 16:21:30 Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Testing all sections The following sections will be tested: born, alkanes, FKBP, hca-bind, ionize, ion-pmf, pka-lig, point-pmf, solv ================================================================================ Running tests for born section -------------------------------------------------------------------------------- Testing forces from apbs-forces.in Checking forces for input file apbs-forces.in Checking Polar Forces Checking Apolar Forces Elapsed time: 0.005369 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-auto.in Testing computed result -2.297735526282E+02 against expected result -2.297735E+02 *** FAILED *** APBS returned -2.297736000000e+02 Expected result is -2.297735000000e+02 (0.005% error) Elapsed time: 5.653112 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-auto.in Testing computed result -2.290124252387E+02 against expected result -2.290124E+02 *** PASSED *** Elapsed time: 4.659612 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-parallel.in Splitting the input file into 4 separate files using the inputgen utility Processor 0 results: -5.761864094552E+01 Processor 1 results: -5.762728170717E+01 Processor 2 results: -5.761864257239E+01 Processor 3 results: -5.762728344953E+01 Testing computed result -2.304918486746E+02 against expected result -2.304918E+02 *** PASSED *** Elapsed time: 20.994113 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-parallel.in Splitting the input file into 4 separate files using the inputgen utility Processor 0 results: -5.734895113069E+01 Processor 1 results: -5.734462051928E+01 Processor 2 results: -5.734895146550E+01 Processor 3 results: -5.734462084052E+01 Testing computed result -2.293871439560E+02 against expected result -2.293871E+02 *** PASSED *** Elapsed time: 21.540711 seconds -------------------------------------------------------------------------------- Total elapsed time: 52.852917 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for alkanes section -------------------------------------------------------------------------------- Testing input file alkanes.in Testing computed result 1.439739455792E+01 against expected result 1.439739E+01 *** PASSED *** Testing computed result 1.208346456826E+01 against expected result 1.208346E+01 *** PASSED *** Testing computed result 1.354016672221E+01 against expected result 1.354017E+01 *** PASSED *** Testing computed result 9.363673200142E+00 against expected result 9.363673E+00 *** PASSED *** Testing computed result 9.422717598546E+00 against expected result 9.422718E+00 *** PASSED *** Testing computed result 1.640068943201E+01 against expected result 1.640069E+01 *** PASSED *** Testing computed result 1.323144287435E+01 against expected result 1.323144E+01 *** PASSED *** Testing computed result 7.894367190329E+00 against expected result 7.894367E+00 *** PASSED *** Testing computed result 1.449633815052E+01 against expected result 1.449634E+01 *** PASSED *** Testing computed result 1.447900211546E+01 against expected result 1.447900E+01 *** PASSED *** Testing computed result 1.192358496286E+01 against expected result 1.192358E+01 *** PASSED *** Elapsed time: 92.840667 seconds -------------------------------------------------------------------------------- Total elapsed time: 92.840667 seconds Test results have been logged -------------------------------------------------------------------------------- Running Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! tests for FKBP section -------------------------------------------------------------------------------- Testing input file 1d7h-dmso-mol.in Testing computed result 1.656345618465E+01 against expected result 1.500769E+01 *** FAILED *** APBS returned 1.656346000000e+01 Expected result is 1.500769000000e+01 (77.7885% error) Elapsed time: 38.301339 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7h-dmso-smol.in Testing computed result 1.624454192070E+01 against expected result 1.624455E+01 *** FAILED *** APBS returned 1.624454000000e+01 Expected result is 1.624455000000e+01 (0.0005% error) Elapsed time: 38.472302 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-mol.in Testing computed result 1.442499933661E+01 against expected result 1.442501E+01 *** FAILED *** APBS returned 1.442500000000e+01 Expected result is 1.442501000000e+01 (0.0005% error) Elapsed time: 41.165918 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-smol.in Testing computed result 1.545150742842E+01 against expected result 1.545150E+01 *** FAILED *** APBS returned 1.545151000000e+01 Expected result is 1.545150000000e+01 (0.0005% error) Elapsed time: 37.647466 seconds -------------------------------------------------------------------------------- Total elapsed time: 155.587025 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for hca-bind section -------------------------------------------------------------------------------- Testing input file apbs-mol.in Testing computed result -5.246475812678E+01 against expected result -5.246468E+01 *** FAILED *** APBS returned -5.246476000000e+01 Expected result is -5.246468000000e+01 (0.004% error) Elapsed time: 44.703035 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in Testing computed result -5.405979017064E+01 against expected result -5.405978E+01 *** FAILED *** APBS returned -5.405979000000e+01 Expected result is -5.405978000000e+01 (0.0005% error) Elapsed time: 41.059121 seconds -------------------------------------------------------------------------------- Total elapsed time: 85.762156 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for ionize section -------------------------------------------------------------------------------- Testing input file apbs-mol.in Testing computed result -2.267882018629E+01 against expected result -2.267882E+01 *** PASSED *** Testing computed result -1.997462636633E+02 against expected result -1.997463E+02 *** PASSED *** Testing computed result -2.974598403628E+02 against expected result -2.974598E+02 *** PASSED *** Testing computed result -4.745272838398E+02 against expected result -4.745273E+02 *** PASSED *** Elapsed time: 9.284970 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in Testing computed result -2.233052329981E+01 against expected result -2.233050E+01 *** FAILED *** APBS returned -2.233052000000e+01 Expected result is -2.233050000000e+01 (0.001% error) Testing computed result -1.984883194538E+02 against expected result -1.984883E+02 *** PASSED *** Testing computed result -2.959668753288E+02 against expected result -2.959669E+02 *** PASSED *** Testing computed result -4.721246714829E+02 agVio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vpmg_ibForce: No force for zero ionic strength! Vpmg_ibForce: No force for zero ionic strength! Vpmg_ibForce: No force for zero ionic strength! Vpmg_ibForce: No force for zero ionic strength! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. ainst expected result -4.721247E+02 *** PASSED *** Elapsed time: 9.608992 seconds -------------------------------------------------------------------------------- Total elapsed time: 18.893962 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for ion-pmf section -------------------------------------------------------------------------------- Testing input file ion-pmf.in Testing computed result -1.125191605614E+03 against expected result -1.125192E+03 *** PASSED *** Elapsed time: 56.139066 seconds -------------------------------------------------------------------------------- Total elapsed time: 56.139066 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for pka-lig section -------------------------------------------------------------------------------- Testing input file apbs-mol-vdw.in Testing computed result 8.083515649209E+00 against expected result 8.083540E+00 *** FAILED *** APBS returned 8.083516000000e+00 Expected result is 8.083540000000e+00 (0.0012% error) Elapsed time: 47.115791 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-vdw.in Testing computed result 2.096300255725E+01 against expected result 2.096296E+01 *** FAILED *** APBS returned 2.096300000000e+01 Expected result is 2.096296000000e+01 (0.002% error) Elapsed time: 43.920892 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-surf.in Testing computed result 1.192607686580E+02 against expected result 1.192608E+02 *** PASSED *** Elapsed time: 46.833053 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-surf.in Testing computed result 1.088773280805E+02 against expected result 1.088748E+02 *** FAILED *** APBS returned 1.088773000000e+02 Expected result is 1.088748000000e+02 (0.125% error) Elapsed time: 47.462214 seconds -------------------------------------------------------------------------------- Total elapsed time: 185.331950 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for point-pmf section -------------------------------------------------------------------------------- Testing input file complex-0_1.in Testing computed result 1.830820799027E+01 against expected result 1.830821E+01 *** PASSED *** Elapsed time: 6.621031 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_2.in Testing computed result 8.906694086750E+00 against expected result 8.906694E+00 *** PASSED *** Elapsed time: 9.843959 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_3.in Testing computed result 5.909599816984E+00 against expected result 5.909600E+00 *** PASSED *** Elapsed time: 5.500882 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_4.in Testing computed result 4.430144947418E+00 against expected result 4.430145E+00 *** PASSED *** Elapsed time: 3.611840 seconds -------------------------------------------------------------------------------- Total elapsed time: 25.577712 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for solvVio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. section -------------------------------------------------------------------------------- Testing input file apbs-mol.in Testing computed result -3.624863488075E+01 against expected result -3.624863E+01 *** PASSED *** Testing computed result -3.904121708125E+02 against expected result -3.904121E+02 *** FAILED *** APBS returned -3.904122000000e+02 Expected result is -3.904121000000e+02 (0.005% error) Testing computed result -3.541635359318E+02 against expected result -3.541635E+02 *** PASSED *** Elapsed time: 4.815822 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in Testing computed result -3.757593772493E+01 against expected result -3.757594E+01 *** PASSED *** Testing computed result -3.912388603848E+02 against expected result -3.912388E+02 *** FAILED *** APBS returned -3.912389000000e+02 Expected result is -3.912388000000e+02 (0.005% error) Testing computed result -3.536629226599E+02 against expected result -3.536629E+02 *** PASSED *** Elapsed time: 7.146439 seconds -------------------------------------------------------------------------------- Total elapsed time: 11.962261 seconds Test results have been logged -------------------------------------------------------------------------------- make[1]: Leaving directory '/build/apbs-1.4' dh_testroot -O--parallel dh_prep -O--parallel debian/rules override_dh_auto_install make[1]: Entering directory '/build/apbs-1.4' dh_auto_install --destdir=/build/apbs-1.4/debian/tmp/ dh_auto_install: Compatibility levels before 9 are deprecated (level 7 in use) cd obj-i686-linux-gnu && make -j10 install DESTDIR=/build/apbs-1.4/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' /usr/bin/cmake -S/build/apbs-1.4 -B/build/apbs-1.4/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-i686-linux-gnu/CMakeFiles /build/apbs-1.4/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/pmgc/CMakeFiles/apbs_pmgc.dir/build.make src/pmgc/CMakeFiles/apbs_pmgc.dir/depend make -f src/generic/CMakeFiles/apbs_generic.dir/build.make src/generic/CMakeFiles/apbs_generic.dir/depend make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/generic /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src/generic /build/apbs-1.4/obj-i686-linux-gnu/src/generic/CMakeFiles/apbs_generic.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/pmgc /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc /build/apbs-1.4/obj-i686-linux-gnu/src/pmgc/CMakeFiles/apbs_pmgc.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/generic/CMakeFiles/apbs_generic.dir/build.make src/generic/CMakeFiles/apbs_generic.dir/build make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/pmgc/CMakeFiles/apbs_pmgc.dir/build.make src/pmgc/CMakeFiles/apbs_pmgc.dir/build make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'src/generic/CMakeFiles/apbs_generic.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'src/pmgc/CMakeFiles/apbs_pmgc.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 79%] Built target apbs_pmgc [ 79%] Built target apbs_generic make -f src/mg/CMakeFiles/apbs_mg.dir/build.make src/mg/CMakeFiles/apbs_mg.dir/depend make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/mg /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src/mg /build/apbs-1.4/obj-i686-linux-gnu/src/mg/CMakeFiles/apbs_mg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/mg/CMakeFiles/apbs_mg.dir/build.make src/mg/CMakeFiles/apbs_mg.dir/build make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'src/mg/CMakeFiles/apbs_mg.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' [ 93%] Built target apbs_mg make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/depend make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' cd /build/apbs-1.4/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src /build/apbs-1.4/obj-i686-linux-gnu /build/apbs-1.4/obj-i686-linux-gnu/src /build/apbs-1.4/obj-i686-linux-gnu/src/CMakeFiles/apbs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/build make[4]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make[4]: Nothing to be done for 'src/CMakeFiles/apbs.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' [100%] Built target apbs make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-i686-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/apbs-1.4/obj-i686-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/license -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/license/license.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/license/LICENSE.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/index.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/programmer -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/programmer/Doxyfile.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/programmer/mainpage.h -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/CMakeLists.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/README -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples -- Installing: 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/build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/comparison_reaction_field.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/main.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_3/comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/gridinf.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/comparison_pot.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/inmcreator.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_APBS_FOCUS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/fbc.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/comparison_pot.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/centerofgrid.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_APBS.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_PB_SOLVER_AND_GUI.pdf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_APBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/comparison_reaction_field.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_PB_SOLVER_6.pdf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/energy.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/mapbs_comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/parameters.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/Readme.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_PB_SOLVER_6.tex -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/inmcreator.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MAPBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_6/MATLAB_APBS_FOCUS.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER.tex -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/gridinf.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/comparison_pot.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS_FOCUS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/fbc.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/comparison_pot.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/centerofgrid.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_PB_SOLVER_AND_GUI.pdf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/energy.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/mapbs_comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/parameters.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MAPBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS_FOCUS.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/README -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_0/main.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/born-ion-model-example.pdf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/visual studio property pages -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/visual studio property pages/Debug build properties.props -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/visual studio property pages/Release build properties.props -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/visual studio property pages/Generic build properties.props -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/README.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/command-line support -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/command-line support/apbs-cli.bat -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/configuration headers -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/configuration headers/apbscfg.h -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/configuration headers/maloccf.h -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/NSI configuration -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/windows/NSI configuration/apbs.nsi -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/potacc.cfg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/multipot.net -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/potacc.cm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/potacc.net -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/surface.cfg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/multipot.cfg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/pot.cfg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/pot.net -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/surface.net -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/pot.cm -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/apbs.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/routines.h -- Installing: /build/apbs-1.4/debian/tmp/usr/bin/apbs -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/nosh.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/mgparm.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/femparm.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/pbeparm.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/apolparm.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vacc.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/valist.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vatom.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vpbe.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vcap.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vclist.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vstring.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vparam.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vgreen.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vmatrix.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/generic/vhal.h -- Installing: /build/apbs-1.4/debian/tmp/usr/lib/libapbs_generic.a -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/buildAd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/buildBd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/buildGd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/buildPd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/cgd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/gsd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/matvecd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mgcsd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mgdrvd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mgsubd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mikpckd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mlinpckd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mypdec.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/newtond.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/newdrvd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/powerd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/smoothd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/pmgc/mgfasd.h -- Installing: /build/apbs-1.4/debian/tmp/usr/lib/libapbs_pmgc.a -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/mg/vgrid.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/mg/vmgrid.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/mg/vopot.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/mg/vpmg.h -- Installing: /build/apbs-1.4/debian/tmp/usr/include/apbs/mg/vpmgp.h -- Installing: /build/apbs-1.4/debian/tmp/usr/lib/libapbs_mg.a make[2]: Leaving directory '/build/apbs-1.4/obj-i686-linux-gnu' make[1]: Leaving directory '/build/apbs-1.4' debian/rules override_dh_install make[1]: Entering directory '/build/apbs-1.4' dh_install --sourcedir=/build/apbs-1.4/debian/tmp --list-missing dh_install: Compatibility levels before 9 are deprecated (level 7 in use) dh_install: Please use dh_missing --list-missing/--fail-missing instead dh_install: This feature will be removed in compat 12. dh_missing: Compatibility levels before 9 are deprecated (level 7 in use) dh_missing: usr/lib/libapbs_pmgc.a exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/lib/libapbs_generic.a exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/lib/libapbs_mg.a exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tests/apbs_logger.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tests/apbs_tester.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tests/apbs_check_results.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tests/README exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tests/apbs_check_forces.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/smooth.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/analysis.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/del2dx.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/mergedx.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/dxmath.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/multivalue.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/dx2mol.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/mergedx2.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/mgmesh.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/uhbd_asc2bin.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/similarity.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/tensor2dx.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/value.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/benchmark.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/dx2uhbd.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/amber2charmm.sh exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/WHATIF2AMBER.sed exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/qcd2pqr.awk exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/c-alpha.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/amber-param.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/amber2uhbd.sh exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/weiner86-param.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/vparam/vparam-amber-parm94.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/vparam/vparam-amber-parm94.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/psize.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/coulomb.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/inputgen.pyc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/born.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/psize.pyc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/inputgen.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/matlab/MAPBS/README.txt exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: 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dh_missing: usr/share/apbs/examples/born/apbs-mol-fem.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-fem-extmesh.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE0.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE0.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE1.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE1.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE2.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-auto.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/pmf.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE2.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-auto.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE3.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-auto.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-auto.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE3.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE3.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE1.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apolarforces exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/potential.dx.gz exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE1.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE0.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/mesh.m exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-fem.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE3.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-apolar.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE0.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-forces.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/parm.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/ion.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-smol-surf.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-mol-surf.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/bx6_7_bin_apbs.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-mol-vdw.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-smol-vdw.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-smol-surf.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-smol-vdw.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-mol-vdw.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/bx6_7_apo_apbs.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/bx6_7_lig_apbs.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/apbs-mol-surf.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/uhbd2-bin.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/uhbd1-bin.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/uhbd2-apo.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/uhbd1-lig.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/uhbd1-apo.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/uhbd2-lig.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/pka-lig/UHBD/README exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/actin-dimer-para.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/actin-mol2.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/born.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/actin-dimer.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/actin-complex.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/actin-mol1.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/491.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/small491.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/apbs-mol-pdiel2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/apbs-smol-pdiel12.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/apbs-mol-pdiel12.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/complex.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/apbs-smol-pdiel2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/UHBD/small491.e2.log exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/UHBD/491.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/UHBD/small491.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/UHBD/small491.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-protein/UHBD/small491.log exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/mol2.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/apbs-mol-auto.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/apbs-smol-parallel.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/apbs-smol-auto.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/mesh.m exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/complex.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/mol1.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/apbs-mol-parallel.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/prot3.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/nuc.3-4.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/aheall-atom.charmm.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/nuc.3-4.full.log exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/single.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/prot4.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/srsrf.dot exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/apbs-smol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/apbs-mol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/proton.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/acetate.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/acetic-acid.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/acetate.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/apbs-mol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/proton.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/apbs-smol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/acetic-acid.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/UHBD/elec.dat.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/UHBD/elec.inp.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/UHBD/elec.out.orig.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ionize/UHBD/elec.pdb.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/index.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/CMakeLists.txt exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/README exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/license/license.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/license/LICENSE.txt exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/programmer/Doxyfile.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/doc/programmer/mainpage.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/apbs.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/routines.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vstring.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vatom.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vgreen.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/apolparm.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vpbe.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vmatrix.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vparam.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/femparm.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/nosh.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vacc.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vcap.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/pbeparm.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/mgparm.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vclist.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/vhal.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/generic/valist.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mgfasd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mgsubd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/smoothd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/powerd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mgdrvd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mgcsd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/buildPd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/newdrvd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/buildGd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/cgd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/buildAd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/gsd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mikpckd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/matvecd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/newtond.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/buildBd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mlinpckd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mypdec.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vgrid.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vopot.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vpmg.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vmgrid.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vpmgp.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere The following debhelper tools have reported what they installed (with files per package) * dh_install: apbs (1) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built For a short-term work-around: Add the files to debian/not-installed make[1]: Leaving directory '/build/apbs-1.4' dh_installdocs -O--parallel dh_installdocs: Compatibility levels before 9 are deprecated (level 7 in use) debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/apbs-1.4' dh_installchangelogs ChangeLog make[1]: Leaving directory '/build/apbs-1.4' dh_installman -O--parallel dh_installman: Compatibility levels before 9 are deprecated (level 7 in use) dh_installinit -O--parallel dh_installinit: Compatibility levels before 9 are deprecated (level 7 in use) dh_perl -O--parallel dh_link -O--parallel dh_strip_nondeterminism -O--parallel dh_compress -O--parallel dh_compress: Compatibility levels before 9 are deprecated (level 7 in use) dh_fixperms -O--parallel dh_missing -O--parallel dh_missing: Compatibility levels before 9 are deprecated (level 7 in use) dh_strip -O--parallel dh_strip: Compatibility levels before 9 are deprecated (level 7 in use) dh_makeshlibs -O--parallel dh_shlibdeps -O--parallel dh_shlibdeps: Compatibility levels before 9 are deprecated (level 7 in use) dh_installdeb -O--parallel dh_installdeb: Compatibility levels before 9 are deprecated (level 7 in use) dh_gencontrol -O--parallel dh_md5sums -O--parallel dh_builddeb -O--parallel dpkg-deb: building package 'apbs' in '../apbs_1.4-1_i386.deb'. dpkg-deb: building package 'apbs-dbgsym' in '../apbs-dbgsym_1.4-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../apbs_1.4-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: 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/28622 and its subdirectories I: Current time: Sun May 31 23:59:51 -12 2020 I: pbuilder-time-stamp: 1591012791 Mon Jun 1 11:59:52 UTC 2020 I: 1st build successful. Starting 2nd build on remote node profitbricks-build6-i386.debian.net. Mon Jun 1 11:59:52 UTC 2020 I: Preparing to do remote build '2' on profitbricks-build6-i386.debian.net. Mon Jun 1 12:06:22 UTC 2020 I: Deleting $TMPDIR on profitbricks-build6-i386.debian.net. Mon Jun 1 12:06:22 UTC 2020 I: apbs_1.4-1_i386.changes: Format: 1.8 Date: Thu, 08 Aug 2013 18:21:30 +0200 Source: apbs Binary: apbs apbs-dbgsym Architecture: i386 Version: 1.4-1 Distribution: unstable Urgency: low Maintainer: Debichem Team Changed-By: Debichem Team Description: apbs - Adaptive Poisson Boltzmann Solver Changes: apbs (1.4-1) unstable; urgency=low . * New upstream release. . [ Daniel Leidert ] * debian/control (Uploaders): Removed myself. (Standards-Version): Bumped to 3.9.4. (Vcs-Browser, Vcs-Svn): Fixed vcs-field-not-canonical. (DM-Upload-Allowed): Dropped. (Build-Depends): Dropped all autotools related build dependencies, libarpack2-dev, libblas-dev and bc. Added cmake, libpython-dev and zlib1g-dev. * debian/copyright: Updated. * debian/rules: Enable hardening. Dropped all autotools related stuff and rewrote it for cmake build system. * debian/watch: Make regex case insensitive. * debian/patches/03_skip_expensive_tests.patch: Dropped. Upstream changed to cmake. * debian/patches/06_quicktest.patch: Ditto. * debian/patches/07_destdir.patch: Ditto. * debian/patches/08_distclean.patch: Ditto. * debian/patches/09_acinclude_fix.patch: Ditto. * debian/patches/debian_make.patch: Added. - Compile internal libraries statically into apbs. * debian/patches/debian_testfiles.patch: Added. - Skip expensive tests (see 03_skip_expensive_tests.patch). * debian/patches/series: Adjusted. . [ Andreas Tille ] * debian/upstream: Author field in BibTeX syntax Checksums-Sha1: 270964484b48f9e6c294c12a9140492a6a5d2e89 412296 apbs-dbgsym_1.4-1_i386.deb ec11e25d0283a1f7195916b7e38c5cdb49485db9 7332 apbs_1.4-1_i386.buildinfo d8c71c4fd8453285cd1cde796add8dbe4514fca3 210396 apbs_1.4-1_i386.deb Checksums-Sha256: afaec1f2ee9b2e5e18d168e102e769a472fc18157b9088fbd9310b96491e1f00 412296 apbs-dbgsym_1.4-1_i386.deb 4965866189a5205f8c4038ebd753c97806d5a1841a8202070db43e36ba5b3552 7332 apbs_1.4-1_i386.buildinfo 6c7de092df2e12a4128ade0cb5a497cff611b0e9335cce184efd5a44d00a544e 210396 apbs_1.4-1_i386.deb Files: c8ee6602498e0ee5b3cc6b8400e7225a 412296 debug optional apbs-dbgsym_1.4-1_i386.deb ca07644789f6ec0778a97b9e035522e7 7332 science optional apbs_1.4-1_i386.buildinfo fe763c6032c91ac6fa11981962d8fd72 210396 science optional apbs_1.4-1_i386.deb Mon Jun 1 12:06:29 UTC 2020 I: diffoscope 146 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.iu6xcIrs9m/apbs_1.4-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.iu6xcIrs9m/apbs_1.4-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.iu6xcIrs9m/apbs_1.4-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.iu6xcIrs9m/b1/apbs_1.4-1_i386.changes /srv/reproducible-results/rbuild-debian/tmp.iu6xcIrs9m/b2/apbs_1.4-1_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.283s) 0.283s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.029s) 0.029s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Mon Jun 1 12:06:31 UTC 2020 I: diffoscope 146 found no differences in the changes files, and a .buildinfo file also exists. Mon Jun 1 12:06:31 UTC 2020 I: apbs from buster built successfully and reproducibly on i386. Mon Jun 1 12:06:33 UTC 2020 I: Submitting .buildinfo files to external archives: Mon Jun 1 12:06:33 UTC 2020 I: Submitting 12K b1/apbs_1.4-1_i386.buildinfo.asc Mon Jun 1 12:06:34 UTC 2020 I: Submitting 12K b2/apbs_1.4-1_i386.buildinfo.asc Mon Jun 1 12:06:35 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Jun 1 12:06:35 UTC 2020 I: Done submitting .buildinfo files. Mon Jun 1 12:06:35 UTC 2020 I: Removing signed apbs_1.4-1_i386.buildinfo.asc files: removed './b1/apbs_1.4-1_i386.buildinfo.asc' removed './b2/apbs_1.4-1_i386.buildinfo.asc'