I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 9 14:48:51 +14 2020 I: pbuilder-time-stamp: 1591663731 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/26912/tmp/hooks/D01_modify_environment starting debug: Running on cbxi4b. 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/26912/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/26912/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]="arm-unknown-linux-gnueabihf") 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=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=56ac1f4d4e364bc5bf84413ecaa17ed9 LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf 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=26912 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.ILXosHnu3s/pbuilderrc_M60T --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.ILXosHnu3s/b2 --logfile b2/build.log apbs_1.4-1.dsc' SUDO_GID=116 SUDO_UID=112 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:8000/ I: uname -a Linux i-capture-the-hostname 4.19.0-9-armmp #1 SMP Debian 4.19.118-2 (2020-04-29) armv7l GNU/Linux I: ls -l /bin total 3328 -rwxr-xr-x 1 root root 767656 Apr 18 2019 bash -rwxr-xr-x 3 root root 26052 Jul 11 2019 bunzip2 -rwxr-xr-x 3 root root 26052 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 26052 Jul 11 2019 bzip2 -rwxr-xr-x 1 root root 9636 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 22432 Mar 1 2019 cat -rwxr-xr-x 1 root root 38868 Mar 1 2019 chgrp -rwxr-xr-x 1 root root 38836 Mar 1 2019 chmod -rwxr-xr-x 1 root root 42972 Mar 1 2019 chown -rwxr-xr-x 1 root root 88376 Mar 1 2019 cp -rwxr-xr-x 1 root root 75516 Jan 18 2019 dash -rwxr-xr-x 1 root root 71648 Mar 1 2019 date -rwxr-xr-x 1 root root 51212 Mar 1 2019 dd -rwxr-xr-x 1 root root 55672 Mar 1 2019 df -rwxr-xr-x 1 root root 88444 Mar 1 2019 dir -rwxr-xr-x 1 root root 54872 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 22364 Mar 1 2019 echo -rwxr-xr-x 1 root root 28 Jan 8 2019 egrep -rwxr-xr-x 1 root root 18260 Mar 1 2019 false -rwxr-xr-x 1 root root 28 Jan 8 2019 fgrep -rwxr-xr-x 1 root root 47356 Jan 10 2019 findmnt -rwsr-xr-x 1 root root 21980 Apr 23 09:38 fusermount -rwxr-xr-x 1 root root 124508 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 64232 Jan 6 2019 gzip -rwxr-xr-x 1 root root 13784 Sep 27 2018 hostname -rwxr-xr-x 1 root root 43044 Mar 1 2019 ln -rwxr-xr-x 1 root root 34932 Jul 27 2018 login -rwxr-xr-x 1 root root 88444 Mar 1 2019 ls -rwxr-xr-x 1 root root 67036 Jan 10 2019 lsblk -rwxr-xr-x 1 root root 47168 Mar 1 2019 mkdir -rwxr-xr-x 1 root root 43040 Mar 1 2019 mknod -rwxr-xr-x 1 root root 26552 Mar 1 2019 mktemp -rwxr-xr-x 1 root root 26024 Jan 10 2019 more -rwsr-xr-x 1 root root 34268 Jan 10 2019 mount -rwxr-xr-x 1 root root 9688 Jan 10 2019 mountpoint -rwxr-xr-x 1 root root 84284 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 22416 Mar 1 2019 pwd lrwxrwxrwx 1 root root 4 Apr 18 2019 rbash -> bash -rwxr-xr-x 1 root root 26504 Mar 1 2019 readlink -rwxr-xr-x 1 root root 42968 Mar 1 2019 rm -rwxr-xr-x 1 root root 26496 Mar 1 2019 rmdir -rwxr-xr-x 1 root root 14136 Jan 22 2019 run-parts -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jun 9 14:50 sh -> bash lrwxrwxrwx 1 root root 4 Jun 7 22:27 sh.distrib -> dash -rwxr-xr-x 1 root root 22384 Mar 1 2019 sleep -rwxr-xr-x 1 root root 51124 Mar 1 2019 stty -rwsr-xr-x 1 root root 42472 Jan 10 2019 su -rwxr-xr-x 1 root root 22392 Mar 1 2019 sync -rwxr-xr-x 1 root root 283324 Apr 24 2019 tar -rwxr-xr-x 1 root root 9808 Jan 22 2019 tempfile -rwxr-xr-x 1 root root 63464 Mar 1 2019 touch -rwxr-xr-x 1 root root 18260 Mar 1 2019 true -rwxr-xr-x 1 root root 9636 Apr 23 09:38 ulockmgr_server -rwsr-xr-x 1 root root 21976 Jan 10 2019 umount -rwxr-xr-x 1 root root 22380 Mar 1 2019 uname -rwxr-xr-x 2 root root 2345 Jan 6 2019 uncompress -rwxr-xr-x 1 root root 88444 Mar 1 2019 vdir -rwxr-xr-x 1 root root 21980 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/26912/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: armhf 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 ... 18932 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} 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} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpmix2{a} libprocps7{a} libpsl5{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} 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, 107 newly installed, 0 to remove and 0 not upgraded. Need to get 70.2 MB of archives. After unpacking 179 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main armhf libbsd0 armhf 0.9.1-2 [103 kB] Get: 2 http://deb.debian.org/debian buster/main armhf bsdmainutils armhf 11.1.2+b1 [186 kB] Get: 3 http://deb.debian.org/debian buster/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB] Get: 4 http://deb.debian.org/debian buster/main armhf groff-base armhf 1.22.4-3 [828 kB] Get: 5 http://deb.debian.org/debian buster/main armhf libpipeline1 armhf 1.5.1-2 [26.8 kB] Get: 6 http://deb.debian.org/debian buster/main armhf man-db armhf 2.8.5-2 [1240 kB] Get: 7 http://deb.debian.org/debian buster/main armhf libpython2.7-minimal armhf 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main armhf python2.7-minimal armhf 2.7.16-2+deb10u1 [1171 kB] Get: 9 http://deb.debian.org/debian buster/main armhf python2-minimal armhf 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main armhf python-minimal armhf 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main armhf libssl1.1 armhf 1.1.1d-0+deb10u3 [1299 kB] Get: 12 http://deb.debian.org/debian buster/main armhf mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main armhf libexpat1 armhf 2.2.6-2+deb10u1 [78.0 kB] Get: 14 http://deb.debian.org/debian buster/main armhf readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main armhf libreadline7 armhf 7.0-5 [131 kB] Get: 16 http://deb.debian.org/debian buster/main armhf libpython2.7-stdlib armhf 2.7.16-2+deb10u1 [1837 kB] Get: 17 http://deb.debian.org/debian buster/main armhf python2.7 armhf 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main armhf libpython2-stdlib armhf 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main armhf libpython-stdlib armhf 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main armhf python2 armhf 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main armhf python armhf 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main armhf libncurses6 armhf 6.1+20181013-2+deb10u2 [79.8 kB] Get: 23 http://deb.debian.org/debian buster/main armhf libprocps7 armhf 2:3.3.15-2 [58.7 kB] Get: 24 http://deb.debian.org/debian buster/main armhf lsb-base all 10.2019051400 [28.4 kB] Get: 25 http://deb.debian.org/debian buster/main armhf procps armhf 2:3.3.15-2 [248 kB] Get: 26 http://deb.debian.org/debian buster/main armhf sensible-utils all 0.0.12 [15.8 kB] Get: 27 http://deb.debian.org/debian buster/main armhf libmagic-mgc armhf 1:5.35-4+deb10u1 [242 kB] Get: 28 http://deb.debian.org/debian buster/main armhf libmagic1 armhf 1:5.35-4+deb10u1 [110 kB] Get: 29 http://deb.debian.org/debian buster/main armhf file armhf 1:5.35-4+deb10u1 [65.5 kB] Get: 30 http://deb.debian.org/debian buster/main armhf gettext-base armhf 0.19.8.1-9 [118 kB] Get: 31 http://deb.debian.org/debian buster/main armhf libedit2 armhf 3.1-20181209-1 [79.5 kB] Get: 32 http://deb.debian.org/debian buster/main armhf libkeyutils1 armhf 1.6-6 [13.9 kB] Get: 33 http://deb.debian.org/debian buster/main armhf libkrb5support0 armhf 1.17-3 [62.3 kB] Get: 34 http://deb.debian.org/debian buster/main armhf libk5crypto3 armhf 1.17-3 [119 kB] Get: 35 http://deb.debian.org/debian buster/main armhf libkrb5-3 armhf 1.17-3 [323 kB] Get: 36 http://deb.debian.org/debian buster/main armhf libgssapi-krb5-2 armhf 1.17-3 [137 kB] Get: 37 http://deb.debian.org/debian buster/main armhf openssh-client armhf 1:7.9p1-10+deb10u2 [704 kB] Get: 38 http://deb.debian.org/debian buster/main armhf libsigsegv2 armhf 2.12-2 [32.1 kB] Get: 39 http://deb.debian.org/debian buster/main armhf m4 armhf 1.4.18-2 [190 kB] Get: 40 http://deb.debian.org/debian buster/main armhf autoconf all 2.69-11 [341 kB] Get: 41 http://deb.debian.org/debian buster/main armhf autotools-dev all 20180224.1 [77.0 kB] Get: 42 http://deb.debian.org/debian buster/main armhf automake all 1:1.16.1-4 [771 kB] Get: 43 http://deb.debian.org/debian buster/main armhf autopoint all 0.19.8.1-9 [434 kB] Get: 44 http://deb.debian.org/debian buster/main armhf cmake-data all 3.13.4-1 [1476 kB] Get: 45 http://deb.debian.org/debian buster/main armhf libicu63 armhf 63.1-6+deb10u1 [8005 kB] Get: 46 http://deb.debian.org/debian buster/main armhf libxml2 armhf 2.9.4+dfsg1-7+b3 [595 kB] Get: 47 http://deb.debian.org/debian buster/main armhf libarchive13 armhf 3.3.3-4+deb10u1 [277 kB] Get: 48 http://deb.debian.org/debian buster/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-1+deb10u1 [67.4 kB] Get: 49 http://deb.debian.org/debian buster/main armhf libsasl2-2 armhf 2.1.27+dfsg-1+deb10u1 [98.9 kB] Get: 50 http://deb.debian.org/debian buster/main armhf libldap-common all 2.4.47+dfsg-3+deb10u2 [89.7 kB] Get: 51 http://deb.debian.org/debian buster/main armhf libldap-2.4-2 armhf 2.4.47+dfsg-3+deb10u2 [202 kB] Get: 52 http://deb.debian.org/debian buster/main armhf libnghttp2-14 armhf 1.36.0-2+deb10u1 [74.4 kB] Get: 53 http://deb.debian.org/debian buster/main armhf libpsl5 armhf 0.20.2-2 [52.4 kB] Get: 54 http://deb.debian.org/debian buster/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2 [54.9 kB] Get: 55 http://deb.debian.org/debian buster/main armhf libssh2-1 armhf 1.8.0-2.1 [129 kB] Get: 56 http://deb.debian.org/debian buster/main armhf libcurl4 armhf 7.64.0-4+deb10u1 [297 kB] Get: 57 http://deb.debian.org/debian buster/main armhf libjsoncpp1 armhf 1.7.4-3 [67.8 kB] Get: 58 http://deb.debian.org/debian buster/main armhf librhash0 armhf 1.3.8-1 [134 kB] Get: 59 http://deb.debian.org/debian buster/main armhf libuv1 armhf 1.24.1-1 [98.0 kB] Get: 60 http://deb.debian.org/debian buster/main armhf cmake armhf 3.13.4-1 [2848 kB] Get: 61 http://deb.debian.org/debian buster/main armhf libtool all 2.4.6-9 [547 kB] Get: 62 http://deb.debian.org/debian buster/main armhf dh-autoreconf all 19 [16.9 kB] Get: 63 http://deb.debian.org/debian buster/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 64 http://deb.debian.org/debian buster/main armhf libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 65 http://deb.debian.org/debian buster/main armhf dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 66 http://deb.debian.org/debian buster/main armhf libelf1 armhf 0.176-1.1 [158 kB] Get: 67 http://deb.debian.org/debian buster/main armhf dwz armhf 0.12-3 [72.0 kB] Get: 68 http://deb.debian.org/debian buster/main armhf libglib2.0-0 armhf 2.58.3-2+deb10u2 [1101 kB] Get: 69 http://deb.debian.org/debian buster/main armhf libcroco3 armhf 0.6.12-3 [133 kB] Get: 70 http://deb.debian.org/debian buster/main armhf gettext armhf 0.19.8.1-9 [1242 kB] Get: 71 http://deb.debian.org/debian buster/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 72 http://deb.debian.org/debian buster/main armhf po-debconf all 1.0.21 [248 kB] Get: 73 http://deb.debian.org/debian buster/main armhf debhelper all 12.1.1 [1016 kB] Get: 74 http://deb.debian.org/debian buster/main armhf libnl-3-200 armhf 3.4.0-1 [55.6 kB] Get: 75 http://deb.debian.org/debian buster/main armhf libnl-route-3-200 armhf 3.4.0-1 [136 kB] Get: 76 http://deb.debian.org/debian buster/main armhf libibverbs1 armhf 22.1-1 [44.1 kB] Get: 77 http://deb.debian.org/debian buster/main armhf ibverbs-providers armhf 22.1-1 [20.2 kB] Get: 78 http://deb.debian.org/debian buster/main armhf libevent-2.1-6 armhf 2.1.8-stable-4 [159 kB] Get: 79 http://deb.debian.org/debian buster/main armhf libevent-core-2.1-6 armhf 2.1.8-stable-4 [118 kB] Get: 80 http://deb.debian.org/debian buster/main armhf libevent-pthreads-2.1-6 armhf 2.1.8-stable-4 [47.6 kB] Get: 81 http://deb.debian.org/debian buster/main armhf libexpat1-dev armhf 2.2.6-2+deb10u1 [126 kB] Get: 82 http://deb.debian.org/debian buster/main armhf libgfortran5 armhf 8.3.0-6 [213 kB] Get: 83 http://deb.debian.org/debian buster/main armhf libltdl7 armhf 2.4.6-9 [387 kB] Get: 84 http://deb.debian.org/debian buster/main armhf libhwloc5 armhf 1.11.12-3 [87.6 kB] Get: 85 http://deb.debian.org/debian buster/main armhf libltdl-dev armhf 2.4.6-9 [160 kB] Get: 86 http://deb.debian.org/debian buster/main armhf libhwloc-dev armhf 1.11.12-3 [153 kB] Get: 87 http://deb.debian.org/debian buster/main armhf libpciaccess0 armhf 0.14-1 [51.0 kB] Get: 88 http://deb.debian.org/debian buster/main armhf ocl-icd-libopencl1 armhf 2.2.12-2 [35.6 kB] Get: 89 http://deb.debian.org/debian buster/main armhf libhwloc-plugins armhf 1.11.12-3 [15.7 kB] Get: 90 http://deb.debian.org/debian buster/main armhf libnl-3-dev armhf 3.4.0-1 [96.9 kB] Get: 91 http://deb.debian.org/debian buster/main armhf libnl-route-3-dev armhf 3.4.0-1 [162 kB] Get: 92 http://deb.debian.org/debian buster/main armhf libibverbs-dev armhf 22.1-1 [151 kB] Get: 93 http://deb.debian.org/debian buster/main armhf libmaloc1 armhf 0.2-3.1 [44.1 kB] Get: 94 http://deb.debian.org/debian buster/main armhf libmaloc-dev armhf 0.2-3.1 [141 kB] Get: 95 http://deb.debian.org/debian buster/main armhf libpmix2 armhf 3.1.2-3 [449 kB] Get: 96 http://deb.debian.org/debian buster/main armhf libopenmpi3 armhf 3.1.3-11 [1890 kB] Get: 97 http://deb.debian.org/debian buster/main armhf openmpi-common all 3.1.3-11 [165 kB] Get: 98 http://deb.debian.org/debian buster/main armhf openmpi-bin armhf 3.1.3-11 [198 kB] Get: 99 http://deb.debian.org/debian buster/main armhf libopenmpi-dev armhf 3.1.3-11 [964 kB] Get: 100 http://deb.debian.org/debian buster/main armhf libpython2.7 armhf 2.7.16-2+deb10u1 [892 kB] Get: 101 http://deb.debian.org/debian buster/main armhf libpython2.7-dev armhf 2.7.16-2+deb10u1 [31.0 MB] Get: 102 http://deb.debian.org/debian buster/main armhf libpython2-dev armhf 2.7.16-1 [20.9 kB] Get: 103 http://deb.debian.org/debian buster/main armhf libpython-dev armhf 2.7.16-1 [20.9 kB] Get: 104 http://deb.debian.org/debian buster/main armhf mpi-default-dev armhf 1.13 [5476 B] Get: 105 http://deb.debian.org/debian buster/main armhf python-pkg-resources all 40.8.0-1 [182 kB] Get: 106 http://deb.debian.org/debian buster/main armhf python-setuptools all 40.8.0-1 [382 kB] Get: 107 http://deb.debian.org/debian buster/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [207 kB] Fetched 70.2 MB in 34s (2080 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:armhf. (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 ... 18932 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_armhf.deb ... Unpacking libbsd0:armhf (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_armhf.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../02-libuchardet0_0.0.6-3_armhf.deb ... 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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 ... 20397 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_armhf.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 ... 20430 files and directories currently installed.) Preparing to unpack .../00-python_2.7.16-1_armhf.deb ... Unpacking python (2.7.16-1) ... Selecting previously unselected package libncurses6:armhf. Preparing to unpack .../01-libncurses6_6.1+20181013-2+deb10u2_armhf.deb ... Unpacking libncurses6:armhf (6.1+20181013-2+deb10u2) ... Selecting previously unselected package libprocps7:armhf. Preparing to unpack .../02-libprocps7_2%3a3.3.15-2_armhf.deb ... Unpacking libprocps7:armhf (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_armhf.deb ... Unpacking procps (2:3.3.15-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../05-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../06-libmagic-mgc_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../07-libmagic1_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking libmagic1:armhf (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../09-gettext-base_0.19.8.1-9_armhf.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:armhf. Preparing to unpack .../10-libedit2_3.1-20181209-1_armhf.deb ... Unpacking libedit2:armhf (3.1-20181209-1) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../11-libkeyutils1_1.6-6_armhf.deb ... Unpacking libkeyutils1:armhf (1.6-6) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../12-libkrb5support0_1.17-3_armhf.deb ... Unpacking libkrb5support0:armhf (1.17-3) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../13-libk5crypto3_1.17-3_armhf.deb ... Unpacking libk5crypto3:armhf (1.17-3) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../14-libkrb5-3_1.17-3_armhf.deb ... Unpacking libkrb5-3:armhf (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../15-libgssapi-krb5-2_1.17-3_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.17-3) ... Selecting previously unselected package openssh-client. Preparing to unpack .../16-openssh-client_1%3a7.9p1-10+deb10u2_armhf.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../17-libsigsegv2_2.12-2_armhf.deb ... Unpacking libsigsegv2:armhf (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../18-m4_1.4.18-2_armhf.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../19-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../20-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../21-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../22-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../23-cmake-data_3.13.4-1_all.deb ... Unpacking cmake-data (3.13.4-1) ... Selecting previously unselected package libicu63:armhf. Preparing to unpack .../24-libicu63_63.1-6+deb10u1_armhf.deb ... Unpacking libicu63:armhf (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../25-libxml2_2.9.4+dfsg1-7+b3_armhf.deb ... Unpacking libxml2:armhf (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libarchive13:armhf. Preparing to unpack .../26-libarchive13_3.3.3-4+deb10u1_armhf.deb ... Unpacking libarchive13:armhf (3.3.3-4+deb10u1) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../27-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../28-libsasl2-2_2.1.27+dfsg-1+deb10u1_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../29-libldap-common_2.4.47+dfsg-3+deb10u2_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libldap-2.4-2:armhf. Preparing to unpack .../30-libldap-2.4-2_2.4.47+dfsg-3+deb10u2_armhf.deb ... Unpacking libldap-2.4-2:armhf (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../31-libnghttp2-14_1.36.0-2+deb10u1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../32-libpsl5_0.20.2-2_armhf.deb ... Unpacking libpsl5:armhf (0.20.2-2) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../33-librtmp1_2.4+20151223.gitfa8646d.1-2_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh2-1:armhf. Preparing to unpack .../34-libssh2-1_1.8.0-2.1_armhf.deb ... Unpacking libssh2-1:armhf (1.8.0-2.1) ... Selecting previously unselected package libcurl4:armhf. Preparing to unpack .../35-libcurl4_7.64.0-4+deb10u1_armhf.deb ... Unpacking libcurl4:armhf (7.64.0-4+deb10u1) ... Selecting previously unselected package libjsoncpp1:armhf. Preparing to unpack .../36-libjsoncpp1_1.7.4-3_armhf.deb ... Unpacking libjsoncpp1:armhf (1.7.4-3) ... Selecting previously unselected package librhash0:armhf. Preparing to unpack .../37-librhash0_1.3.8-1_armhf.deb ... Unpacking librhash0:armhf (1.3.8-1) ... Selecting previously unselected package libuv1:armhf. Preparing to unpack .../38-libuv1_1.24.1-1_armhf.deb ... Unpacking libuv1:armhf (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../39-cmake_3.13.4-1_armhf.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:armhf. Preparing to unpack .../45-libelf1_0.176-1.1_armhf.deb ... Unpacking libelf1:armhf (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../46-dwz_0.12-3_armhf.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:armhf. Preparing to unpack .../47-libglib2.0-0_2.58.3-2+deb10u2_armhf.deb ... Unpacking libglib2.0-0:armhf (2.58.3-2+deb10u2) ... Selecting previously unselected package libcroco3:armhf. Preparing to unpack .../48-libcroco3_0.6.12-3_armhf.deb ... Unpacking libcroco3:armhf (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../49-gettext_0.19.8.1-9_armhf.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:armhf. Preparing to unpack .../53-libnl-3-200_3.4.0-1_armhf.deb ... Unpacking libnl-3-200:armhf (3.4.0-1) ... Selecting previously unselected package libnl-route-3-200:armhf. Preparing to unpack .../54-libnl-route-3-200_3.4.0-1_armhf.deb ... Unpacking libnl-route-3-200:armhf (3.4.0-1) ... Selecting previously unselected package libibverbs1:armhf. Preparing to unpack .../55-libibverbs1_22.1-1_armhf.deb ... Unpacking libibverbs1:armhf (22.1-1) ... Selecting previously unselected package ibverbs-providers:armhf. Preparing to unpack .../56-ibverbs-providers_22.1-1_armhf.deb ... Unpacking ibverbs-providers:armhf (22.1-1) ... Selecting previously unselected package libevent-2.1-6:armhf. Preparing to unpack .../57-libevent-2.1-6_2.1.8-stable-4_armhf.deb ... Unpacking libevent-2.1-6:armhf (2.1.8-stable-4) ... Selecting previously unselected package libevent-core-2.1-6:armhf. Preparing to unpack .../58-libevent-core-2.1-6_2.1.8-stable-4_armhf.deb ... Unpacking libevent-core-2.1-6:armhf (2.1.8-stable-4) ... Selecting previously unselected package libevent-pthreads-2.1-6:armhf. Preparing to unpack .../59-libevent-pthreads-2.1-6_2.1.8-stable-4_armhf.deb ... Unpacking libevent-pthreads-2.1-6:armhf (2.1.8-stable-4) ... Selecting previously unselected package libexpat1-dev:armhf. Preparing to unpack .../60-libexpat1-dev_2.2.6-2+deb10u1_armhf.deb ... Unpacking libexpat1-dev:armhf (2.2.6-2+deb10u1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../61-libgfortran5_8.3.0-6_armhf.deb ... Unpacking libgfortran5:armhf (8.3.0-6) ... Selecting previously unselected package libltdl7:armhf. Preparing to unpack .../62-libltdl7_2.4.6-9_armhf.deb ... Unpacking libltdl7:armhf (2.4.6-9) ... Selecting previously unselected package libhwloc5:armhf. Preparing to unpack .../63-libhwloc5_1.11.12-3_armhf.deb ... Unpacking libhwloc5:armhf (1.11.12-3) ... Selecting previously unselected package libltdl-dev:armhf. Preparing to unpack .../64-libltdl-dev_2.4.6-9_armhf.deb ... Unpacking libltdl-dev:armhf (2.4.6-9) ... Selecting previously unselected package libhwloc-dev:armhf. Preparing to unpack .../65-libhwloc-dev_1.11.12-3_armhf.deb ... Unpacking libhwloc-dev:armhf (1.11.12-3) ... Selecting previously unselected package libpciaccess0:armhf. Preparing to unpack .../66-libpciaccess0_0.14-1_armhf.deb ... Unpacking libpciaccess0:armhf (0.14-1) ... Selecting previously unselected package ocl-icd-libopencl1:armhf. Preparing to unpack .../67-ocl-icd-libopencl1_2.2.12-2_armhf.deb ... Unpacking ocl-icd-libopencl1:armhf (2.2.12-2) ... Selecting previously unselected package libhwloc-plugins:armhf. Preparing to unpack .../68-libhwloc-plugins_1.11.12-3_armhf.deb ... Unpacking libhwloc-plugins:armhf (1.11.12-3) ... Selecting previously unselected package libnl-3-dev:armhf. Preparing to unpack .../69-libnl-3-dev_3.4.0-1_armhf.deb ... Unpacking libnl-3-dev:armhf (3.4.0-1) ... Selecting previously unselected package libnl-route-3-dev:armhf. Preparing to unpack .../70-libnl-route-3-dev_3.4.0-1_armhf.deb ... Unpacking libnl-route-3-dev:armhf (3.4.0-1) ... Selecting previously unselected package libibverbs-dev:armhf. Preparing to unpack .../71-libibverbs-dev_22.1-1_armhf.deb ... Unpacking libibverbs-dev:armhf (22.1-1) ... Selecting previously unselected package libmaloc1. Preparing to unpack .../72-libmaloc1_0.2-3.1_armhf.deb ... Unpacking libmaloc1 (0.2-3.1) ... Selecting previously unselected package libmaloc-dev. Preparing to unpack .../73-libmaloc-dev_0.2-3.1_armhf.deb ... Unpacking libmaloc-dev (0.2-3.1) ... Selecting previously unselected package libpmix2:armhf. Preparing to unpack .../74-libpmix2_3.1.2-3_armhf.deb ... Unpacking libpmix2:armhf (3.1.2-3) ... Selecting previously unselected package libopenmpi3:armhf. Preparing to unpack .../75-libopenmpi3_3.1.3-11_armhf.deb ... Unpacking libopenmpi3:armhf (3.1.3-11) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../76-openmpi-common_3.1.3-11_all.deb ... Unpacking openmpi-common (3.1.3-11) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../77-openmpi-bin_3.1.3-11_armhf.deb ... Unpacking openmpi-bin (3.1.3-11) ... Selecting previously unselected package libopenmpi-dev:armhf. Preparing to unpack .../78-libopenmpi-dev_3.1.3-11_armhf.deb ... Unpacking libopenmpi-dev:armhf (3.1.3-11) ... Selecting previously unselected package libpython2.7:armhf. Preparing to unpack .../79-libpython2.7_2.7.16-2+deb10u1_armhf.deb ... Unpacking libpython2.7:armhf (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2.7-dev:armhf. Preparing to unpack .../80-libpython2.7-dev_2.7.16-2+deb10u1_armhf.deb ... Unpacking libpython2.7-dev:armhf (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2-dev:armhf. Preparing to unpack .../81-libpython2-dev_2.7.16-1_armhf.deb ... Unpacking libpython2-dev:armhf (2.7.16-1) ... Selecting previously unselected package libpython-dev:armhf. Preparing to unpack .../82-libpython-dev_2.7.16-1_armhf.deb ... Unpacking libpython-dev:armhf (2.7.16-1) ... Selecting previously unselected package mpi-default-dev. Preparing to unpack .../83-mpi-default-dev_1.13_armhf.deb ... Unpacking mpi-default-dev (1.13) ... Selecting previously unselected package python-pkg-resources. Preparing to unpack .../84-python-pkg-resources_40.8.0-1_all.deb ... Unpacking python-pkg-resources (40.8.0-1) ... Selecting previously unselected package python-setuptools. Preparing to unpack .../85-python-setuptools_40.8.0-1_all.deb ... Unpacking python-setuptools (40.8.0-1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../86-zlib1g-dev_1%3a1.2.11.dfsg-1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-1) ... Setting up libmaloc1 (0.2-3.1) ... Setting up libexpat1:armhf (2.2.6-2+deb10u1) ... Setting up libpipeline1:armhf (1.5.1-2) ... Setting up lsb-base (10.2019051400) ... Setting up libpciaccess0:armhf (0.14-1) ... Setting up libkeyutils1:armhf (1.6-6) ... Setting up libpsl5:armhf (0.20.2-2) ... Setting up mime-support (3.62) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:armhf (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libssl1.1:armhf (1.1.1d-0+deb10u3) ... Setting up libprocps7:armhf (2:3.3.15-2) ... Setting up libnghttp2-14:armhf (1.36.0-2+deb10u1) ... Setting up libmagic1:armhf (1:5.35-4+deb10u1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u2) ... Setting up libicu63:armhf (63.1-6+deb10u1) ... Setting up libkrb5support0:armhf (1.17-3) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-1+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libuv1:armhf (1.24.1-1) ... Setting up libexpat1-dev:armhf (2.2.6-2+deb10u1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:armhf (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:armhf (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libk5crypto3:armhf (1.17-3) ... Setting up libltdl7:armhf (2.4.6-9) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-1+deb10u1) ... Setting up libevent-core-2.1-6:armhf (2.1.8-stable-4) ... Setting up libgfortran5:armhf (8.3.0-6) ... Setting up libevent-2.1-6:armhf (2.1.8-stable-4) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ... Setting up sensible-utils (0.0.12) ... Setting up ocl-icd-libopencl1:armhf (2.2.12-2) ... Setting up librhash0:armhf (1.3.8-1) ... Setting up libuchardet0:armhf (0.0.6-3) ... Setting up procps (2:3.3.15-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libnl-3-200:armhf (3.4.0-1) ... Setting up openmpi-common (3.1.3-11) ... Setting up libssh2-1:armhf (1.8.0-2.1) ... Setting up cmake-data (3.13.4-1) ... Setting up libkrb5-3:armhf (1.17-3) ... Setting up libbsd0:armhf (0.9.1-2) ... Setting up libelf1:armhf (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:armhf (2.9.4+dfsg1-7+b3) ... Setting up libmaloc-dev (0.2-3.1) ... Setting up libjsoncpp1:armhf (1.7.4-3) ... Setting up libreadline7:armhf (7.0-5) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libevent-pthreads-2.1-6:armhf (2.1.8-stable-4) ... Setting up libtool (2.4.6-9) ... Setting up libarchive13:armhf (3.3.3-4+deb10u1) ... Setting up libhwloc5:armhf (1.11.12-3) ... Setting up libedit2:armhf (3.1-20181209-1) ... Setting up libldap-2.4-2:armhf (2.4.47+dfsg-3+deb10u2) ... Setting up m4 (1.4.18-2) ... Setting up libhwloc-plugins:armhf (1.11.12-3) ... Setting up libnl-route-3-200:armhf (3.4.0-1) ... Setting up libpython2.7-stdlib:armhf (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:armhf (1.17-3) ... Setting up libcroco3:armhf (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up libnl-3-dev:armhf (3.4.0-1) ... Setting up groff-base (1.22.4-3) ... Setting up libcurl4:armhf (7.64.0-4+deb10u1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:armhf (22.1-1) ... Setting up libpython2.7:armhf (2.7.16-2+deb10u1) ... Setting up libpython2.7-dev:armhf (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:armhf (3.1.2-3) ... Setting up ibverbs-providers:armhf (22.1-1) ... Setting up libpython2-stdlib:armhf (2.7.16-1) ... Setting up openssh-client (1:7.9p1-10+deb10u2) ... Setting up libopenmpi3:armhf (3.1.3-11) ... 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:armhf (3.4.0-1) ... Setting up libltdl-dev:armhf (2.4.6-9) ... Setting up libpython-stdlib:armhf (2.7.16-1) ... Setting up cmake (3.13.4-1) ... Setting up libpython2-dev:armhf (2.7.16-1) ... Setting up libhwloc-dev:armhf (1.11.12-3) ... Setting up python (2.7.16-1) ... 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 python-pkg-resources (40.8.0-1) ... Setting up po-debconf (1.0.21) ... Setting up libibverbs-dev:armhf (22.1-1) ... Setting up libpython-dev:armhf (2.7.16-1) ... Setting up python-setuptools (40.8.0-1) ... Setting up libopenmpi-dev:armhf (3.1.3-11) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) 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 armhf 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-arm-linux-gnueabihf && 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/arm-linux-gnueabihf -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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/libz.so (found version "1.2.11") -- The zlib library was found: /usr/lib/arm-linux-gnueabihf/libz.so -- Inline functions enabled -- Looking for python components -- Found PythonInterp: /usr/bin/python (found version "2.7.16") -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/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/arm-linux-gnueabihf/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/arm-linux-gnueabihf/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/arm-linux-gnueabihf/libm.so;/usr/lib/arm-linux-gnueabihf/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/arm-linux-gnueabihf/libz.so;-fopenmp;/usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so;/usr/lib/arm-linux-gnueabihf/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/arm-linux-gnueabihf/libm.so;/usr/lib/arm-linux-gnueabihf/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/arm-linux-gnueabihf/libz.so;-fopenmp;/usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so;/usr/lib/arm-linux-gnueabihf/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/arm-linux-gnueabihf/libm.so;/usr/lib/arm-linux-gnueabihf/libnsl.so;/usr/lib/libmaloc.so;/usr/lib/arm-linux-gnueabihf/libz.so;-fopenmp;/usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so;/usr/lib/arm-linux-gnueabihf/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-arm-linux-gnueabihf 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-arm-linux-gnueabihf && make -j4 make[1]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/apbs-1.4 -B/build/apbs-1.4/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-arm-linux-gnueabihf/CMakeFiles /build/apbs-1.4/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/pmgc /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc/CMakeFiles/apbs_pmgc.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/generic /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic/CMakeFiles/apbs_generic.dir/DependInfo.cmake --color= Scanning dependencies of target apbs_generic make[3]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' make[3]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' [ 2%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildAd.c.o [ 4%] Building C object src/generic/CMakeFiles/apbs_generic.dir/mgparm.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 6%] Building C object src/generic/CMakeFiles/apbs_generic.dir/nosh.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 9%] Building C object src/generic/CMakeFiles/apbs_generic.dir/femparm.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 11%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildBd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 13%] Building C object src/generic/CMakeFiles/apbs_generic.dir/pbeparm.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 16%] Building C object src/generic/CMakeFiles/apbs_generic.dir/apolparm.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 18%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildGd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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/generic/CMakeFiles/apbs_generic.dir/vacc.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 23%] Building C object src/generic/CMakeFiles/apbs_generic.dir/valist.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 25%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vatom.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 27%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vpbe.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 30%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vcap.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_generic.dir/vcap.c.o -c /build/apbs-1.4/src/generic/vcap.c [ 32%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vclist.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 34%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vstring.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 37%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vparam.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 39%] Building C object src/generic/CMakeFiles/apbs_generic.dir/vgreen.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 41%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/buildPd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/buildPd.c.o -c /build/apbs-1.4/src/pmgc/buildPd.c [ 44%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/cgd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/cgd.c.o -c /build/apbs-1.4/src/pmgc/cgd.c [ 46%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/gsd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/gsd.c.o -c /build/apbs-1.4/src/pmgc/gsd.c [ 48%] Linking C static library ../../../lib/libapbs_generic.a cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic && /usr/bin/cmake -P CMakeFiles/apbs_generic.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 48%] Built target apbs_generic [ 51%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/matvecd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 53%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgcsd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 55%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgdrvd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 58%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgsubd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 60%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mikpckd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 62%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mlinpckd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 65%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mypdec.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 67%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newtond.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 69%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/newdrvd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/newdrvd.c.o -c /build/apbs-1.4/src/pmgc/newdrvd.c [ 72%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/powerd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/powerd.c.o -c /build/apbs-1.4/src/pmgc/powerd.c [ 74%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/smoothd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/smoothd.c.o -c /build/apbs-1.4/src/pmgc/smoothd.c [ 76%] Building C object src/pmgc/CMakeFiles/apbs_pmgc.dir/mgfasd.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/openmpi/include -I/build/apbs-1.4/src -g -O2 -ffile-prefix-map=/build/apbs-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -o CMakeFiles/apbs_pmgc.dir/mgfasd.c.o -c /build/apbs-1.4/src/pmgc/mgfasd.c [ 79%] Linking C static library ../../../lib/libapbs_pmgc.a cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc && /usr/bin/cmake -P CMakeFiles/apbs_pmgc.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 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-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/mg /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src/mg /build/apbs-1.4/obj-arm-linux-gnueabihf/src/mg/CMakeFiles/apbs_mg.dir/DependInfo.cmake --color= Scanning dependencies of target apbs_mg make[3]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' [ 81%] Building C object src/mg/CMakeFiles/apbs_mg.dir/vgrid.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src/mg && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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-arm-linux-gnueabihf/src/mg && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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-arm-linux-gnueabihf/src/mg && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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-arm-linux-gnueabihf/src/mg && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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-arm-linux-gnueabihf/src/mg && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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-arm-linux-gnueabihf/src/mg && /usr/bin/cmake -P CMakeFiles/apbs_mg.dir/cmake_clean_target.cmake cd /build/apbs-1.4/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' [ 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-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src /build/apbs-1.4/obj-arm-linux-gnueabihf/src/CMakeFiles/apbs.dir/DependInfo.cmake --color= Scanning dependencies of target apbs make[3]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/build make[3]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' [ 95%] Building C object src/CMakeFiles/apbs.dir/routines.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 [ 97%] Building C object src/CMakeFiles/apbs.dir/main.c.o cd /build/apbs-1.4/obj-arm-linux-gnueabihf/src && /usr/bin/cc -I/usr/lib/arm-linux-gnueabihf/openmpi/include/openmpi -I/usr/lib/arm-linux-gnueabihf/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 /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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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/arm-linux-gnueabihf/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-arm-linux-gnueabihf/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/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/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/arm-linux-gnueabihf/openmpi/lib/libmpi_cxx.so /usr/lib/arm-linux-gnueabihf/openmpi/lib/libmpi.so make[3]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' [100%] Built target apbs make[2]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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: 0.038593 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: 91.908848 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-smol-auto.in Testing computed result -2.290124252387E+02 against expected result -2.290124E+02 *** PASSED *** Elapsed time: 73.849602 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: 464.991060 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: 467.179015 seconds -------------------------------------------------------------------------------- Total elapsed time: 1097.967118 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: 595.335306 seconds -------------------------------------------------------------------------------- Total elapsed time: 595.335306 seconds Test results have been logged -------------------------------------------------------------------------------- Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. Vio_ctor2: Gethostbyname fail INET sock <> dueto asc_getToken: Error occurred (bailing out). Vio_scanf: Format problem with input. [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto Vio_ctor2: Gethostbyname fail INET sock <> dueto [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! [focusFillBound()]: WARNING: Unusually large potential values detected on the focusing boundary! Convergence not guaranteed for NPBE/NRPBE calculations! Running 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: 357.565172 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: 321.140118 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file 1d7i-dss-mol.in Testing computed result 1.442499933667E+01 against expected result 1.442501E+01 *** FAILED *** APBS returned 1.442500000000e+01 Expected result is 1.442501000000e+01 (0.0005% error) Elapsed time: 345.027593 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: 221.348088 seconds -------------------------------------------------------------------------------- Total elapsed time: 1245.080971 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: 282.242358 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: 149.175116 seconds -------------------------------------------------------------------------------- Total elapsed time: 431.417474 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: 108.644749 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 -4.7Vio_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. 21246714829E+02 against expected result -4.721247E+02 *** PASSED *** Elapsed time: 88.107173 seconds -------------------------------------------------------------------------------- Total elapsed time: 196.751922 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: 120.488238 seconds -------------------------------------------------------------------------------- Total elapsed time: 120.488238 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: 627.139257 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: 291.685492 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file apbs-mol-surf.in Testing computed result 1.192607686581E+02 against expected result 1.192608E+02 *** PASSED *** Elapsed time: 310.166108 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: 307.368780 seconds -------------------------------------------------------------------------------- Total elapsed time: 1536.359637 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: 25.008514 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_2.in Testing computed result 8.906694086750E+00 against expected result 8.906694E+00 *** PASSED *** Elapsed time: 24.637432 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_3.in Testing computed result 5.909599816984E+00 against expected result 5.909600E+00 *** PASSED *** Elapsed time: 18.577617 seconds -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Testing input file complex-0_4.in Testing computed result 4.430144947418E+00 against expected result 4.430145E+00 *** PASSED *** Elapsed time: 19.329573 seconds -------------------------------------------------------------------------------- Total elapsed time: 87.553136 seconds Test results have been logged ------------------------------------------------------------------------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 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. -------- Running 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: 37.193333 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: 36.340178 seconds -------------------------------------------------------------------------------- Total elapsed time: 73.533511 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-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/apbs-1.4/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/apbs-1.4 -B/build/apbs-1.4/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-arm-linux-gnueabihf/CMakeFiles /build/apbs-1.4/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/generic /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic /build/apbs-1.4/obj-arm-linux-gnueabihf/src/generic/CMakeFiles/apbs_generic.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/pmgc /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc /build/apbs-1.4/obj-arm-linux-gnueabihf/src/pmgc/CMakeFiles/apbs_pmgc.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' make[4]: Nothing to be done for 'src/pmgc/CMakeFiles/apbs_pmgc.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make -f src/generic/CMakeFiles/apbs_generic.dir/build.make src/generic/CMakeFiles/apbs_generic.dir/build [ 44%] Built target apbs_pmgc make[4]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'src/generic/CMakeFiles/apbs_generic.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' [ 79%] Built target apbs_generic make -f src/mg/CMakeFiles/apbs_mg.dir/build.make src/mg/CMakeFiles/apbs_mg.dir/depend make[4]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src/mg /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src/mg /build/apbs-1.4/obj-arm-linux-gnueabihf/src/mg/CMakeFiles/apbs_mg.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' make[4]: Nothing to be done for 'src/mg/CMakeFiles/apbs_mg.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' [ 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-arm-linux-gnueabihf' cd /build/apbs-1.4/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/apbs-1.4 /build/apbs-1.4/src /build/apbs-1.4/obj-arm-linux-gnueabihf /build/apbs-1.4/obj-arm-linux-gnueabihf/src /build/apbs-1.4/obj-arm-linux-gnueabihf/src/CMakeFiles/apbs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/apbs.dir/build.make src/CMakeFiles/apbs.dir/build make[4]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'src/CMakeFiles/apbs.dir/build'. make[4]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' [100%] Built target apbs make[3]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/apbs-1.4/obj-arm-linux-gnueabihf/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/apbs-1.4/obj-arm-linux-gnueabihf' 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/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.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/license/LICENSE.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/README -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/CMakeLists.txt -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/doc/programmer -- 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/programmer/Doxyfile.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso-smol.out -- 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/dmso-min.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-min.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso-complex.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/pqr2qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/bindf.oldlog -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/bindf.inp -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/1d7h-min.qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/dmso-min.qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso/UHBD/bindf.log -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso-mol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-min.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso-smol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss-complex.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/dss-min.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss-mol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss-mol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss-smol.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/io.mc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7h-dmso-mol.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss/UHBD -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/bindf.inp -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/dss-min.qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/1d7i-min.qcd -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/FKBP/1d7i-dss/UHBD/bindf.log -- 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/complex.pqr -- 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/UHBD -- 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/srsrf.dot -- 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/bindf-nmap.out -- 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-nmap.inp -- 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/README.html -- 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/apbs-mol.in -- 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/acet.pqr -- 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/io.mc -- 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/point-pmf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/mol2.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_4.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_2.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_2.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_3.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_3.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_2.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_3.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/mol0.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/mol4.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_1.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/runme.sh -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_4.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_1.out -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/energy.dat -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/mol1.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/io.mc -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/mol3.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_1.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/point-pmf-0.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/apbs.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/point-pmf/complex-0_4.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/test.sh -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/PDB -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/PDB/model_outBoxB19.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/PDB/model_outNpep.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/PDB/model_outNB.pdb -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/README.html -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/postprocess.sh -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/model_outBoxB19.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/examples/protein-rna/model_outNB.pqr -- 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/build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/pka/apbs-smol-vdw.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/Two_ions_complex -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/Two_ions_complex/Two_Ions.zip -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/Two_ions_complex/solvated-two-ions.inm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/Two_ions_complex/ref-two-ions.inm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/Two_ions_complex/twoions.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/Two_ions_complex/TwoIons.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/born-ion -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/born-ion/solvated-born.inm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/born-ion/born.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/born-ion/born-ion.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/born-ion/ref-born.inm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/DNA -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/DNA/DNA25.pdb.pqr -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/DNA/ref-DNA.inm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/DNA/DNA.in -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/DNA/solvated-DNA.inm -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/Examples/DNA/DNA_used_by_MATLAB.pqr -- 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/dx_export.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/parameters.m -- 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/fbc.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/BuildA.m -- 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/BoundaryCondition.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/MATLAB_PB_SOLVER_5.tex -- 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/centerofgrid.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/MAPBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/parameters.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/gridinf.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/fbc.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_PB_SOLVER_AND_GUI.pdf -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS_FOCUS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/comparison_pot.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/energy.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MATLAB_APBS_FOCUS.fig -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/centerofgrid.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/MAPBS.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/mapbs_comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_7/comparison_pot.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2 -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/dx_export.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/data_parse.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/BuildA.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/comparison.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/BoundaryCondition.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/read_inm.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/discretization.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/MATLAB_PB_SOLVER_2/main.m -- Installing: /build/apbs-1.4/debian/tmp/usr/share/apbs/tools/matlab/solver/two-ions-model-example.pdf -- 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-arm-linux-gnueabihf' 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_generic.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/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/vopot.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vpmg.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/mg/vgrid.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/vmgrid.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/mgdrvd.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/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/smoothd.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/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/pmgc/mgfasd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mgsubd.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/include/apbs/pmgc/mlinpckd.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/matvecd.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/mgcsd.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/mikpckd.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/mgparm.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/pbeparm.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/vacc.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/vpbe.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/vmatrix.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/nosh.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/femparm.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/vhal.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/README.txt exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/NSI configuration/apbs.nsi exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/configuration headers/maloccf.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/configuration headers/apbscfg.h exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/command-line support/apbs-cli.bat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/visual studio property pages/Release build properties.props exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/visual studio property pages/Debug build properties.props exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/windows/visual studio property pages/Generic build properties.props exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/pot.cfg exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/surface.cfg exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/pot.cm exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/pot.net exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/surface.net exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/potacc.cfg exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/multipot.cfg exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/potacc.cm exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/multipot.net exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/visualization/opendx/potacc.net exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/psize.pyc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/coulomb.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/inputgen.pyc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/inputgen.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/psize.py exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/manip/born.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/amber2charmm.sh exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/qcd2pqr.awk exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/WHATIF2AMBER.sed exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/amber2uhbd.sh exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/weiner86-param.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/c-alpha.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/pdb2pqr/amber-param.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/vparam/vparam-amber-parm94.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/conversion/param/vparam/vparam-amber-parm94.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/tools/mesh/analysis.c exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: 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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/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/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/complex.pqr 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 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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/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/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/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/prot4.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/actin-dimer/UHBD/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/misc/mache.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/misc/fas2.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/misc/README exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/misc/achbp.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/misc/param.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/misc/apbs-PDB.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/misc/apbs.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/smpbe/24dup.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/smpbe/apbs-smpbe-24dup.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/smpbe/apbs-smpbe-ion.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/smpbe/ion.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/apbs-mol.in 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/apbs-mol.out 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-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/Makefile.in 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.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.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.out.orig.exam 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/neopentane.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/ethane.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/mol.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/cyclopentane.pdb 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/parm.dat 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/propane.pdb 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/isobutane.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/Makefile.in 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/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/pentane.pdb 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/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/README.html 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/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.pqr 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/apbs-smol.in 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/acetic-acid.xml 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.pdb.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/ion-pmf/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/parm.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/complex.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/ion-pmf.pdb exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/ion-pmf.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/polarforces exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/ion-pmf.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/runme.sh exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/apolarforces exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/ion-pmf/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE1.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE0.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE3.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE0.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/pmf.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE0.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE3.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE1.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-fem-extmesh.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/mesh.m exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE0.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE1.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-apolar.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-auto.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/parm.dat exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-auto.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-auto.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE3.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE3.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/potential.dx.gz exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/polarforces exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE1.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apolarforces exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-auto.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE2.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-fem.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/ion.xml exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-fem.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-smol-parallel-PE2.out exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/io.mc exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-mol-parallel-PE2.in exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/ion.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/born/apbs-forces.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/README.html exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/opal/actin-mol1.pqr exists in /build/apbs-1.4/debian/tmp but is not installed to anywhere dh_missing: usr/share/apbs/examples/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-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/actin-dimer-para.in 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/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/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' in '../apbs_1.4-1_armhf.deb'. dpkg-deb: building package 'apbs-dbgsym' in '../apbs-dbgsym_1.4-1_armhf.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../apbs_1.4-1_armhf.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/26912/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/26912/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/26912 and its subdirectories I: Current time: Tue Jun 9 16:35:48 +14 2020 I: pbuilder-time-stamp: 1591670148