I: pbuilder: network access will be disabled during build I: Current time: Mon Aug 9 23:15:26 +14 2021 I: pbuilder-time-stamp: 1628500526 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: 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 Fri Aug 9 07:11:47 2013 +14 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/3989/tmp/hooks/D01_modify_environment starting debug: Running on ionos11-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/3989/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3989/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="0" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.0.3(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=d61b2563510443719e2cd070befd3012 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=3989 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.XiV7SwbvEb/pbuilderrc_JIUK --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.XiV7SwbvEb/b2 --logfile b2/build.log apbs_1.4-1.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 4.19.0-17-amd64 #1 SMP Debian 4.19.194-3 (2021-07-18) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 18 2019 bash -rwxr-xr-x 3 root root 38984 Jul 11 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 11 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 11 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 11 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 25 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 11 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 11 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 11 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 11 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 11 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 11 2019 bzmore -rwxr-xr-x 1 root root 43744 Mar 1 2019 cat -rwxr-xr-x 1 root root 64320 Mar 1 2019 chgrp -rwxr-xr-x 1 root root 64288 Mar 1 2019 chmod -rwxr-xr-x 1 root root 72512 Mar 1 2019 chown -rwxr-xr-x 1 root root 146880 Mar 1 2019 cp -rwxr-xr-x 1 root root 121464 Jan 18 2019 dash -rwxr-xr-x 1 root root 109408 Mar 1 2019 date -rwxr-xr-x 1 root root 76712 Mar 1 2019 dd -rwxr-xr-x 1 root root 93744 Mar 1 2019 df -rwxr-xr-x 1 root root 138856 Mar 1 2019 dir -rwxr-xr-x 1 root root 84288 Jan 10 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 27 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 27 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Mar 1 2019 echo -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep -rwxr-xr-x 1 root root 35424 Mar 1 2019 false -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 10 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 23 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 8 2019 grep -rwxr-xr-x 2 root root 2345 Jan 6 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 6 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 6 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 27 2018 hostname -rwxr-xr-x 1 root root 68552 Mar 1 2019 ln -rwxr-xr-x 1 root root 56760 Jul 27 2018 login -rwxr-xr-x 1 root root 138856 Mar 1 2019 ls -rwxr-xr-x 1 root root 108624 Jan 10 2019 lsblk -rwxr-xr-x 1 root root 89088 Mar 1 2019 mkdir -rwxr-xr-x 1 root root 68544 Mar 1 2019 mknod -rwxr-xr-x 1 root root 43808 Mar 1 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 10 2019 more -rwsr-xr-x 1 root root 51280 Jan 10 2019 mount -rwxr-xr-x 1 root root 14408 Jan 10 2019 mountpoint -rwxr-xr-x 1 root root 138728 Mar 1 2019 mv lrwxrwxrwx 1 root root 8 Sep 27 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 15 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Mar 1 2019 pwd lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Mar 1 2019 readlink -rwxr-xr-x 1 root root 68416 Mar 1 2019 rm -rwxr-xr-x 1 root root 47776 Mar 1 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 22 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Aug 9 23:15 sh -> bash lrwxrwxrwx 1 root root 4 Aug 7 22:24 sh.distrib -> dash -rwxr-xr-x 1 root root 39552 Mar 1 2019 sleep -rwxr-xr-x 1 root root 80672 Mar 1 2019 stty -rwsr-xr-x 1 root root 63568 Jan 10 2019 su -rwxr-xr-x 1 root root 35488 Mar 1 2019 sync -rwxr-xr-x 1 root root 445560 Apr 24 2019 tar -rwxr-xr-x 1 root root 14440 Jan 22 2019 tempfile -rwxr-xr-x 1 root root 97152 Mar 1 2019 touch -rwxr-xr-x 1 root root 35424 Mar 1 2019 true -rwxr-xr-x 1 root root 14328 Apr 23 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 10 2019 umount -rwxr-xr-x 1 root root 39584 Mar 1 2019 uname -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress -rwxr-xr-x 1 root root 138856 Mar 1 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 10 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 22 2019 which lrwxrwxrwx 1 root root 8 Sep 27 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 6 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 6 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 6 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 6 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 6 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 6 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 6 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 6 2019 zless -rwxr-xr-x 1 root root 1841 Jan 6 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 6 2019 znew I: user script /srv/workspace/pbuilder/3989/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: amd64 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 ... 19195 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} libpsm2-2{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, 113 newly installed, 0 to remove and 0 not upgraded. Need to get 75.4 MB of archives. After unpacking 222 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u6 [1539 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 libprocps7 amd64 2:3.3.15-2 [61.7 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 procps amd64 2:3.3.15-2 [259 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 libedit2 amd64 3.1-20181209-1 [94.0 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u1 [65.8 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u1 [122 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u1 [369 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u1 [158 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 openssh-client amd64 1:7.9p1-10+deb10u2 [782 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 cmake-data all 3.13.4-1 [1476 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 libarchive13 amd64 3.3.3-4+deb10u1 [313 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u1 [69.1 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u1 [106 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u6 [90.0 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u6 [224 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get: 53 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 libcurl4 amd64 7.64.0-4+deb10u2 [332 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 librhash0 amd64 1.3.8-1 [122 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 libuv1 amd64 1.24.1-1 [110 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 cmake amd64 3.13.4-1 [3480 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 62 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 63 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 64 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 65 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 66 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 67 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 68 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 69 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 70 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 71 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 72 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 73 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 74 http://deb.debian.org/debian buster/main amd64 libnl-3-200 amd64 3.4.0-1 [63.0 kB] Get: 75 http://deb.debian.org/debian buster/main amd64 libnl-route-3-200 amd64 3.4.0-1 [162 kB] Get: 76 http://deb.debian.org/debian buster/main amd64 libibverbs1 amd64 22.1-1 [51.2 kB] Get: 77 http://deb.debian.org/debian buster/main amd64 ibverbs-providers amd64 22.1-1 [187 kB] Get: 78 http://deb.debian.org/debian buster/main amd64 libevent-2.1-6 amd64 2.1.8-stable-4 [177 kB] Get: 79 http://deb.debian.org/debian buster/main amd64 libevent-core-2.1-6 amd64 2.1.8-stable-4 [129 kB] Get: 80 http://deb.debian.org/debian buster/main amd64 libevent-pthreads-2.1-6 amd64 2.1.8-stable-4 [47.9 kB] Get: 81 http://deb.debian.org/debian buster/main amd64 libexpat1-dev amd64 2.2.6-2+deb10u1 [153 kB] Get: 82 http://deb.debian.org/debian buster/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6 [168 kB] Get: 83 http://deb.debian.org/debian buster/main amd64 libnuma1 amd64 2.0.12-1 [26.2 kB] Get: 84 http://deb.debian.org/debian buster/main amd64 libpsm2-2 amd64 11.2.78-1 [177 kB] Get: 85 http://deb.debian.org/debian buster/main amd64 librdmacm1 amd64 22.1-1 [65.3 kB] Get: 86 http://deb.debian.org/debian buster/main amd64 libfabric1 amd64 1.6.2-3 [396 kB] Get: 87 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get: 88 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get: 89 http://deb.debian.org/debian buster/main amd64 libhwloc5 amd64 1.11.12-3 [111 kB] Get: 90 http://deb.debian.org/debian buster/main amd64 libnuma-dev amd64 2.0.12-1 [39.2 kB] Get: 91 http://deb.debian.org/debian buster/main amd64 libltdl-dev amd64 2.4.6-9 [162 kB] Get: 92 http://deb.debian.org/debian buster/main amd64 libhwloc-dev amd64 1.11.12-3 [175 kB] Get: 93 http://deb.debian.org/debian buster/main amd64 libpciaccess0 amd64 0.14-1 [53.5 kB] Get: 94 http://deb.debian.org/debian buster/main amd64 ocl-icd-libopencl1 amd64 2.2.12-2 [37.5 kB] Get: 95 http://deb.debian.org/debian buster/main amd64 libhwloc-plugins amd64 1.11.12-3 [17.4 kB] Get: 96 http://deb.debian.org/debian buster/main amd64 libnl-3-dev amd64 3.4.0-1 [102 kB] Get: 97 http://deb.debian.org/debian buster/main amd64 libnl-route-3-dev amd64 3.4.0-1 [177 kB] Get: 98 http://deb.debian.org/debian buster/main amd64 libibverbs-dev amd64 22.1-1 [362 kB] Get: 99 http://deb.debian.org/debian buster/main amd64 libmaloc1 amd64 0.2-3.1 [49.3 kB] Get: 100 http://deb.debian.org/debian buster/main amd64 libmaloc-dev amd64 0.2-3.1 [143 kB] Get: 101 http://deb.debian.org/debian buster/main amd64 libpmix2 amd64 3.1.2-3 [498 kB] Get: 102 http://deb.debian.org/debian buster/main amd64 libopenmpi3 amd64 3.1.3-11 [2191 kB] Get: 103 http://deb.debian.org/debian buster/main amd64 openmpi-common all 3.1.3-11 [165 kB] Get: 104 http://deb.debian.org/debian buster/main amd64 openmpi-bin amd64 3.1.3-11 [200 kB] Get: 105 http://deb.debian.org/debian buster/main amd64 libopenmpi-dev amd64 3.1.3-11 [974 kB] Get: 106 http://deb.debian.org/debian buster/main amd64 libpython2.7 amd64 2.7.16-2+deb10u1 [1036 kB] Get: 107 http://deb.debian.org/debian buster/main amd64 libpython2.7-dev amd64 2.7.16-2+deb10u1 [31.6 MB] Get: 108 http://deb.debian.org/debian buster/main amd64 libpython2-dev amd64 2.7.16-1 [20.9 kB] Get: 109 http://deb.debian.org/debian buster/main amd64 libpython-dev amd64 2.7.16-1 [20.9 kB] Get: 110 http://deb.debian.org/debian buster/main amd64 mpi-default-dev amd64 1.13 [5476 B] Get: 111 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get: 112 http://deb.debian.org/debian buster/main amd64 python-setuptools all 40.8.0-1 [382 kB] Get: 113 http://deb.debian.org/debian buster/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] Fetched 75.4 MB in 2s (42.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. 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Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (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 ... 20658 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... Selecting previously unselected package python. (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 ... 20691 files and directories currently installed.) Preparing to unpack .../00-python_2.7.16-1_amd64.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../01-libncurses6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:amd64. Preparing to unpack .../02-libprocps7_2%3a3.3.15-2_amd64.deb ... Unpacking libprocps7:amd64 (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_amd64.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+deb10u2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../07-libmagic1_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-4+deb10u2) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking file (1:5.35-4+deb10u2) ... 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Unpacking libkrb5-3:amd64 (1.17-3+deb10u1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../15-libgssapi-krb5-2_1.17-3+deb10u1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-3+deb10u1) ... Selecting previously unselected package openssh-client. Preparing to unpack .../16-openssh-client_1%3a7.9p1-10+deb10u2_amd64.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../17-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../18-m4_1.4.18-2_amd64.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 ... 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Unpacking libarchive13:amd64 (3.3.3-4+deb10u1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../27-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../28-libsasl2-2_2.1.27+dfsg-1+deb10u1_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../29-libldap-common_2.4.47+dfsg-3+deb10u6_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u6) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../30-libldap-2.4-2_2.4.47+dfsg-3+deb10u6_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u6) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../31-libnghttp2-14_1.36.0-2+deb10u1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../32-libpsl5_0.20.2-2_amd64.deb ... Unpacking libpsl5:amd64 (0.20.2-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../33-librtmp1_2.4+20151223.gitfa8646d.1-2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../34-libssh2-1_1.8.0-2.1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../35-libcurl4_7.64.0-4+deb10u2_amd64.deb ... Unpacking libcurl4:amd64 (7.64.0-4+deb10u2) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../36-libjsoncpp1_1.7.4-3_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../37-librhash0_1.3.8-1_amd64.deb ... Unpacking librhash0:amd64 (1.3.8-1) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../38-libuv1_1.24.1-1_amd64.deb ... Unpacking libuv1:amd64 (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../39-cmake_3.13.4-1_amd64.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:amd64. Preparing to unpack .../45-libelf1_0.176-1.1_amd64.deb ... Unpacking libelf1:amd64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../46-dwz_0.12-3_amd64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../47-libglib2.0-0_2.58.3-2+deb10u3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.58.3-2+deb10u3) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../48-libcroco3_0.6.12-3_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../49-gettext_0.19.8.1-9_amd64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../50-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../51-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../52-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package libnl-3-200:amd64. Preparing to unpack .../53-libnl-3-200_3.4.0-1_amd64.deb ... Unpacking libnl-3-200:amd64 (3.4.0-1) ... Selecting previously unselected package libnl-route-3-200:amd64. Preparing to unpack .../54-libnl-route-3-200_3.4.0-1_amd64.deb ... Unpacking libnl-route-3-200:amd64 (3.4.0-1) ... Selecting previously unselected package libibverbs1:amd64. Preparing to unpack .../55-libibverbs1_22.1-1_amd64.deb ... Unpacking libibverbs1:amd64 (22.1-1) ... 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Setting up libssl1.1:amd64 (1.1.1d-0+deb10u6) ... Setting up libprocps7:amd64 (2:3.3.15-2) ... Setting up libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u2) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u6) ... Setting up libicu63:amd64 (63.1-6+deb10u1) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libuv1:amd64 (1.24.1-1) ... Setting up libexpat1-dev:amd64 (2.2.6-2+deb10u1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u1) ... Setting up libltdl7:amd64 (2.4.6-9) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u1) ... 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Setting up libpsm-infinipath1 (3.3+20.604758e7-6) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u2) ... Setting up libmaloc-dev (0.2-3.1) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libevent-pthreads-2.1-6:amd64 (2.1.8-stable-4) ... Setting up libtool (2.4.6-9) ... Setting up libarchive13:amd64 (3.3.3-4+deb10u1) ... Setting up libhwloc5:amd64 (1.11.12-3) ... Setting up libedit2:amd64 (3.1-20181209-1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u6) ... Setting up m4 (1.4.18-2) ... Setting up libhwloc-plugins:amd64 (1.11.12-3) ... Setting up libnuma-dev:amd64 (2.0.12-1) ... Setting up libnl-route-3-200:amd64 (3.4.0-1) ... Setting up libpython2.7-stdlib:amd64 (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:amd64 (1.17-3+deb10u1) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up libnl-3-dev:amd64 (3.4.0-1) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up libcurl4:amd64 (7.64.0-4+deb10u2) ... 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:amd64 (22.1-1) ... Setting up libpython2.7:amd64 (2.7.16-2+deb10u1) ... Setting up libpython2.7-dev:amd64 (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:amd64 (3.1.2-3) ... Setting up ibverbs-providers:amd64 (22.1-1) ... Setting up libpython2-stdlib:amd64 (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:amd64 (3.4.0-1) ... Setting up libltdl-dev:amd64 (2.4.6-9) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up cmake (3.13.4-1) ... Setting up libpython2-dev:amd64 (2.7.16-1) ... Setting up libhwloc-dev:amd64 (1.11.12-3) ... Setting up python (2.7.16-1) ... Setting up librdmacm1:amd64 (22.1-1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up po-debconf (1.0.21) ... Setting up libibverbs-dev:amd64 (22.1-1) ... Setting up libpython-dev:amd64 (2.7.16-1) ... Setting up python-setuptools (40.8.0-1) ... Setting up libfabric1 (1.6.2-3) ... Setting up libopenmpi3:amd64 (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:amd64 (3.1.3-11) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-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:/i/capture/the/path" HOME="/nonexistent/second-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 amd64 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-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-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/x86_64-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/x86_64-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/x86_64-linux-gnu/libz.so (found version "1.2.11") -- The zlib library was found: /usr/lib/x86_64-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/x86_64-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/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/x86_64-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/x86_64-linux-gnu/libm.so;/usr/lib/x86_64-linux-gnu/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/x86_64-linux-gnu/libz.so;-fopenmp;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/x86_64-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/x86_64-linux-gnu/libm.so;/usr/lib/x86_64-linux-gnu/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/x86_64-linux-gnu/libz.so;-fopenmp;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/x86_64-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/x86_64-linux-gnu/libm.so;/usr/lib/x86_64-linux-gnu/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/x86_64-linux-gnu/libz.so;-fopenmp;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/x86_64-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-x86_64-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-x86_64-linux-gnu && make -j15 make[1]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/apbs-1.4 -B/build/apbs-1.4/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-x86_64-linux-gnu/CMakeFiles /build/apbs-1.4/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc/CMakeFiles/apbs_pmgc.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu' make -f src/generic/CMakeFiles/apbs_generic.dir/build.make src/generic/CMakeFiles/apbs_generic.dir/build Scanning dependencies of target apbs_pmgc make[3]: Leaving directory '/build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu' make[3]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' [ 2%] Building C object src/generic/CMakeFiles/apbs_generic.dir/nosh.c.o [ 4%] Building C object src/generic/CMakeFiles/apbs_generic.dir/mgparm.c.o [ 6%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildAd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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/femparm.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 11%] Building C object src/generic/CMakeFiles/apbs_generic.dir/pbeparm.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 13%] Building C object src/generic/CMakeFiles/apbs_generic.dir/apolparm.c.o [ 16%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildBd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 18%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildGd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 20%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildPd.c.o [ 23%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vacc.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 25%] Building C object src/generic/CMakeFiles/apbs_generic.dir/valist.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 27%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vatom.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 30%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vpbe.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 32%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/cgd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 34%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vcap.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 37%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/gsd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 39%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vclist.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 41%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vstring.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 44%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vparam.c.o [ 46%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/matvecd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 48%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vgreen.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 51%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgcsd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mypdec.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 65%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newtond.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newdrvd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 69%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/powerd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 72%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/smoothd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 74%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgfasd.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 76%] Linking C static library ../../../lib/libapbs_generic.a cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic && /usr/bin/cmake -P CMakeFiles/apbs_generic.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-x86_64-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 /usr/bin/ranlib ../../../lib/libapbs_generic.a make[3]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' [ 76%] Built target apbs_generic [ 79%] Linking C static library ../../../lib/libapbs_pmgc.a cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc && /usr/bin/cmake -P CMakeFiles/apbs_pmgc.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-x86_64-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-x86_64-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-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg /build/apbs-1.4/obj-x86_64-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-x86_64-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-x86_64-linux-gnu' [ 81%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vgrid.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 83%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vmgrid.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 86%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vopot.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 [ 88%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vpmg.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/mg && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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-x86_64-linux-gnu/src/mg && /usr/bin/cmake -P CMakeFiles/apbs_mg.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-x86_64-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-x86_64-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-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src /build/apbs-1.4/obj-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src /build/apbs-1.4/obj-x86_64-linux-gnu/src/CMakeFiles/apbs.dir/DependInfo.cmake --color= Scanning dependencies of target apbs make[3]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/build make[3]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' [ 95%] Building C object src/CMakeFiles/apbs.dir/main.c.o [ 97%] Building C object src/CMakeFiles/apbs.dir/routines.c.o cd /build/apbs-1.4/obj-x86_64-linux-gnu/src && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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 cd /build/apbs-1.4/obj-x86_64-linux-gnu/src && /usr/bin/cc -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-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/x86_64-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-x86_64-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/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-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/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so make[3]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' [100%] Built target apbs make[2]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/apbs-1.4/obj-x86_64-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: 0.020788 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: 38.427420 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-auto.in Testing computed result -2.290124252387E+02 against expected result -2.290124E+02 *** PASSED *** Elapsed time: 29.287106 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: -5.762728170718E+01 Processor 2 results: -5.761864257239E+01 Processor 3 results: -5.762728344954E+01 Testing computed result -2.304918486746E+02 against expected result -2.304918E+02 *** PASSED *** Elapsed time: 155.889036 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: 172.359300 seconds -------------------------------------------------------------------------------- Total elapsed time: 395.983650 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: 79.127520 seconds -------------------------------------------------------------------------------- Total elapsed time: 79.127520 seconds Test results have been logged -------------------------------------------------------------------------------- RunVio_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! ning tests for FKBP section -------------------------------------------------------------------------------- Testing input file 1d7h-dmso-mol.in Testing computed result 1.656345618466E+01 against expected result 1.500769E+01 *** FAILED *** APBS returned 1.656346000000e+01 Expected result is 1.500769000000e+01 (77.7885% error) Elapsed time: 98.671314 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7h-dmso-smol.in Testing computed result 1.624454192072E+01 against expected result 1.624455E+01 *** FAILED *** APBS returned 1.624454000000e+01 Expected result is 1.624455000000e+01 (0.0005% error) Elapsed time: 78.608046 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-mol.in Testing computed result 1.442499933668E+01 against expected result 1.442501E+01 *** FAILED *** APBS returned 1.442500000000e+01 Expected result is 1.442501000000e+01 (0.0005% error) Elapsed time: 107.237581 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-smol.in Testing computed result 1.545150742844E+01 against expected result 1.545150E+01 *** FAILED *** APBS returned 1.545151000000e+01 Expected result is 1.545150000000e+01 (0.0005% error) Elapsed time: 83.198176 seconds -------------------------------------------------------------------------------- Total elapsed time: 367.715117 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for hca-bind section -------------------------------------------------------------------------------- Testing input file apbs-mol.in Testing computed result -5.246475812665E+01 against expected result -5.246468E+01 *** FAILED *** APBS returned -5.246476000000e+01 Expected result is -5.246468000000e+01 (0.004% error) Elapsed time: 104.368242 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol.in Testing computed result -5.405979017066E+01 against expected result -5.405978E+01 *** FAILED *** APBS returned -5.405979000000e+01 Expected result is -5.405978000000e+01 (0.0005% error) Elapsed time: 74.386679 seconds -------------------------------------------------------------------------------- Total elapsed time: 178.754921 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: 76.337169 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 -4.7212467148Vio_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. 29E+02 against expected result -4.721247E+02 *** PASSED *** Elapsed time: 62.507181 seconds -------------------------------------------------------------------------------- Total elapsed time: 138.844350 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: 62.747462 seconds -------------------------------------------------------------------------------- Total elapsed time: 62.747462 seconds Test results have been logged -------------------------------------------------------------------------------- Running tests for pka-lig section -------------------------------------------------------------------------------- Testing input file apbs-mol-vdw.in Testing computed result 8.083515648730E+00 against expected result 8.083540E+00 *** FAILED *** APBS returned 8.083516000000e+00 Expected result is 8.083540000000e+00 (0.0012% error) Elapsed time: 108.331633 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-vdw.in Testing computed result 2.096300255723E+01 against expected result 2.096296E+01 *** FAILED *** APBS returned 2.096300000000e+01 Expected result is 2.096296000000e+01 (0.002% error) Elapsed time: 69.519203 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-surf.in Testing computed result 1.192607686581E+02 against expected result 1.192608E+02 *** PASSED *** Elapsed time: 69.719893 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-surf.in Testing computed result 1.088773280806E+02 against expected result 1.088748E+02 *** FAILED *** APBS returned 1.088773000000e+02 Expected result is 1.088748000000e+02 (0.125% error) Elapsed time: 78.869766 seconds -------------------------------------------------------------------------------- Total elapsed time: 326.440495 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: 22.402542 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_2.in Testing computed result 8.906694086750E+00 against expected result 8.906694E+00 *** PASSED *** Elapsed time: 20.344162 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_3.in Testing computed result 5.909599816984E+00 against expected result 5.909600E+00 *** PASSED *** Elapsed time: 21.735983 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_4.in Testing computed result 4.430144947418E+00 against expected result 4.430145E+00 *** PASSED *** Elapsed time: 15.489617 seconds -------------------------------------------------------------------------------- Total elapsed time: 79.972304 seconds Test results have been logged -------------------------------------------------------------------------------- RunninVio_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. g tests for solv section -------------------------------------------------------------------------------- Testing input file apbs-mol.in Testing computed result -3.624863488074E+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: 38.101851 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: 27.951871 seconds -------------------------------------------------------------------------------- Total elapsed time: 66.053722 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-x86_64-linux-gnu && make -j15 install DESTDIR=/build/apbs-1.4/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/apbs-1.4 -B/build/apbs-1.4/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-x86_64-linux-gnu/CMakeFiles /build/apbs-1.4/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic /build/apbs-1.4/obj-x86_64-linux-gnu/src/generic/CMakeFiles/apbs_generic.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc /build/apbs-1.4/obj-x86_64-linux-gnu/src/pmgc/CMakeFiles/apbs_pmgc.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-x86_64-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-x86_64-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-x86_64-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-x86_64-linux-gnu' make[4]: Entering directory '/build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu' [ 34%] Built target apbs_generic [ 79%] Built target apbs_pmgc 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-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-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-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg /build/apbs-1.4/obj-x86_64-linux-gnu/src/mg/CMakeFiles/apbs_mg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-x86_64-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-x86_64-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-x86_64-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-x86_64-linux-gnu' cd /build/apbs-1.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src /build/apbs-1.4/obj-x86_64-linux-gnu /build/apbs-1.4/obj-x86_64-linux-gnu/src /build/apbs-1.4/obj-x86_64-linux-gnu/src/CMakeFiles/apbs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/build make[4]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/CMakeFiles/apbs.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' [100%] Built target apbs make[3]: Leaving directory '/build/apbs-1.4/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/apbs-1.4/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/apbs-1.4/obj-x86_64-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/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/index.html -- 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.txt -- 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/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: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/apbs-smol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/io.mc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/apbs-mol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/Makefile.am -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/UHBD -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/UHBD/solv.out.orig.exam -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/UHBD/solv.dat.exam -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/UHBD/solv.inp.exam -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/apbs-smol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/apbs-mol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/methoxide.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/Makefile.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/solv/methanol.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/io.mc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/alkanes.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/cyclohexane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/butane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/propane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/ethane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/mol.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/neopentane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/apbs-forces.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/force.result -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/2-methylbutane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/alkanes.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/parm.dat -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/cyclopentane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/Makefile.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/pentane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/methane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/isobutane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/alkanes/hexane.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/apbs-smol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/io.mc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/apbs-mol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/complex.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf1.qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf.log -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf.inp -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf2.err -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf-nmap.err -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf-nmap.inp -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf2.qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/srsrf.dot -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/UHBD/bindf-nmap.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/apbs-smol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/apbs-mol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/mesh.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/hca.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/hca-bind/acet.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/actin-mol1.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/actin-complex.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/actin-dimer-para.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/born.xml -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/actin-dimer.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/actin-mol2.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/opal/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss-smol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss-mol.out -- 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Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/kinase/target_kpa_model/COMPARATIVE_ANALYSIS_target_grid/pka-pot.dx_and_target_grid__MATLAB_pot.dx.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/kinase/target_kpa_model/COMPARATIVE_ANALYSIS_target_grid/absolute_error.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/kinase/target_kpa_model/COMPARATIVE_ANALYSIS_target_grid/pka-pot.dx_and_target_grid__MATLAB_pot.dx.jpg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/kinase/target_kpa_model/COMPARATIVE_ANALYSIS_target_grid/absolute_error_target_pka.jpg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/kinase/target_kpa_model/outputfiles -- Installing: 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-- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/ligand/coarse_ligand_model/COMPARATIVE_ANALYSIS_coarse_grid -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/ligand/coarse_ligand_model/COMPARATIVE_ANALYSIS_coarse_grid/coarse-ligand-pot.dx_and_coarse_grid_MATLAB_pot.dx.jpg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/ligand/coarse_ligand_model/COMPARATIVE_ANALYSIS_coarse_grid/absolute_error.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/ligand/coarse_ligand_model/COMPARATIVE_ANALYSIS_coarse_grid/coarse-ligand-pot.dx_and_coarse_grid_MATLAB_pot.dx.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/ligand/coarse_ligand_model/COMPARATIVE_ANALYSIS_coarse_grid/absolute_error_coarse_grid_ligand.jpg -- Installing: 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Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/complex/coarse-complex_model/outputfiles/coarse_grid_MATLAB_pot.jpg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/complex/coarse-complex_model/COMPARATIVE_ANALYSIS_coarse_grid -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/complex/coarse-complex_model/COMPARATIVE_ANALYSIS_coarse_grid/coarse-complex-pot.dx_and_coarse_grid_MATLAB_pot.dx.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/complex/coarse-complex_model/COMPARATIVE_ANALYSIS_coarse_grid/coarse-complex-pot.dx_and_coarse_grid_MATLAB_pot.dx.jpg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/complex/coarse-complex_model/COMPARATIVE_ANALYSIS_coarse_grid/absolute_error.fig -- Installing: 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/build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/main.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_1/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/gridinf.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/comparison_reaction_field.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/MATLAB_PB_SOLVER_5.pdf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/centerofgrid.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/fbc.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/parameters.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/Readme.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/MATLAB_PB_SOLVER_5.tex -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_5/MAPBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/gridinf.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/comparison_reaction_field.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/main.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_4/BoundaryCondition.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/MATLAB_PB_SOLVER_AND_GUI.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/gridinf.m -- 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/MATLAB_PB_SOLVER_6.pdf -- 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/comparison.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/discretization.m -- 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/dx_export.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_FOCUS.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/fbc.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/MATLAB_APBS.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/MATLAB_APBS_FOCUS.fig -- 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/comparison_pot.fig -- 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/MATLAB_APBS.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/BoundaryCondition.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/MAPBS.m -- 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/data_parse.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/read_inm.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/MATLAB_PB_SOLVER_0/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER.pdf -- 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/mesh -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/uhbd_asc2bin.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/multivalue.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/dxmath.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/del2dx.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/dx2uhbd.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/benchmark.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/value.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/dx2mol.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/mgmesh.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/tensor2dx.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/similarity.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/mergedx.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/smooth.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/analysis.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/mesh/mergedx2.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip/psize.pyc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip/inputgen.pyc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip/coulomb.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip/psize.py -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip/born.c -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/manip/inputgen.py -- 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/surface.cfg -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/pot.cm -- 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/multipot.net -- 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/potacc.cfg -- 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/potacc.net -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/visualization/opendx/potacc.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-x86_64-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_mg.a exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere 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/include/apbs/routines.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/mg/vpmgp.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/vopot.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/vgrid.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/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/newdrvd.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/mypdec.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/mikpckd.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/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/matvecd.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/cgd.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/buildGd.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/buildAd.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/vmatrix.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/vparam.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/vclist.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/vpbe.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/valist.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/apolparm.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/femparm.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: 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/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/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/small491.pqr 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-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/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/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/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.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/small491.log 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/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-auto.in 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/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/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/complex.pqr 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/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/srsrf.dot 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.inp 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/ionize/README.html 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.pqr 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/proton.pqr 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-mol.in 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-smol.in 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/io.mc 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/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.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.pdb.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/point-pmf-0.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/energy.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_4.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_4.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/mol4.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_1.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/mol0.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_3.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/runme.sh exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_1.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/apbs.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/mol1.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/mol3.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_3.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_2.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/mol2.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_1.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_2.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_3.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/point-pmf/complex-0_4.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso-complex.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/dmso-min.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-min.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss-mol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/dss-min.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso-smol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-min.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso-mol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss-complex.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss-smol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso-mol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso-smol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss-mol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss-smol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/dss-min.qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/1d7i-min.qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/bindf.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/bindf.log exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/bindf.oldlog exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/dmso-min.qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/pqr2qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/1d7h-min.qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/bindf.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/bindf.log 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-mol2.pqr 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/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-para.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/actin-mol1.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/acet.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/hca.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/mesh.m exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/apbs-mol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/apbs-smol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/complex.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/apbs-mol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/apbs-smol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf-nmap.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/srsrf.dot exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf2.qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf-nmap.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf-nmap.err exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf2.err exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf.inp exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf.log exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/hca-bind/UHBD/bindf1.qcd exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/hexane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/isobutane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/methane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/pentane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/Makefile.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/cyclopentane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/parm.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/alkanes.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/2-methylbutane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/force.result exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/apbs-forces.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/neopentane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/mol.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/ethane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/propane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/butane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/cyclohexane.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/alkanes.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/alkanes/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/methanol.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/Makefile.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/methoxide.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/apbs-mol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/apbs-smol.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/Makefile.am exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/apbs-mol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/apbs-smol.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/UHBD/solv.inp.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/UHBD/solv.dat.exam exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/solv/UHBD/solv.out.orig.exam 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/CMakeLists.txt 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/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/mainpage.h 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 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-dbgsym' in '../apbs-dbgsym_1.4-1_amd64.deb'. dpkg-deb: building package 'apbs' in '../apbs_1.4-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../apbs_1.4-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/3989/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3989/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3989 and its subdirectories I: Current time: Mon Aug 9 23:49:46 +14 2021 I: pbuilder-time-stamp: 1628502586