Thu Jan 23 09:31:25 CET 2020 currently architecture is x86_64 systype: x86_64-ubuntu-18.04.3 update_libtool: 1 update_config_guess_sub: 1 patch system has patch m4 system has m4 g++ system has g++ libxext-dev system has libxext-dev libxmu-dev system has libxmu-dev libxt-dev system has libxt-dev libc6-dev system has libc6-dev libncurses5-dev system has libncurses5-dev libglu1-mesa-dev system has libglu1-mesa-dev libjpeg-dev system has libjpeg-dev mesa-common-dev system has mesa-common-dev libgtk2.0-dev system has libgtk2.0-dev libgnomecanvas2-dev system has libgnomecanvas2-dev AUTOBUILD_BUILD=/home/ullmann/autobuild/building AUTOBUILD_INSTALLED=/home/ullmann/autobuild/Linux-homer AUTOBUILD_SOURCES=/home/ullmann/autobuild/building/sources BASH=/bin/bash BASHOPTS=cmdhist:complete_fullquote:extquote:force_fignore:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_ENV=/usr/share/modules/init/bash BASH_LINENO=([0]="0") BASH_REMATCH=([0]=":/usr/share/man:") BASH_SOURCE=([0]="build-it") BASH_VERSINFO=([0]="4" [1]="4" [2]="20" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='4.4.20(1)-release' BINARY_INSTALL_CMD=www-placement CBIN=/sw/sci/app/ccp4/destination/ccp4-7.0/bin CCP4=/sw/sci/app/ccp4/destination/ccp4-7.0 CCP4I_TCLTK=/sw/sci/app/ccp4/destination/ccp4-7.0/bin CCP4I_TOP=/sw/sci/app/ccp4/destination/ccp4-7.0/share/ccp4i CCP4_HELPDIR=/sw/sci/app/ccp4/destination/ccp4-7.0/help/ CCP4_MASTER=/sw/sci/app/ccp4/destination CCP4_OPEN=UNKNOWN CCP4_SCR=/tmp/ullmann CETC=/sw/sci/app/ccp4/destination/ccp4-7.0/etc CEXAM=/sw/sci/app/ccp4/destination/ccp4-7.0/examples CHTML=/sw/sci/app/ccp4/destination/ccp4-7.0/html CINCL=/sw/sci/app/ccp4/destination/ccp4-7.0/include CLIB=/sw/sci/app/ccp4/destination/ccp4-7.0/lib CLIBD=/sw/sci/app/ccp4/destination/ccp4-7.0/lib/data CLIBD_MON=/sw/sci/app/ccp4/destination/ccp4-7.0/lib/data/monomers/ COLORFGBG='15;0' COLORTERM=truecolor CRANK=/sw/sci/app/ccp4/destination/ccp4-7.0/share/ccp4i/crank DBUS_SESSION_BUS_ADDRESS=unix:path=/run/user/1120358/bus DEFAULTS_PATH=/usr/share/gconf/plasma.default.path DESKTOP_SESSION=plasma DIRSTACK=() DISPLAY=:0 EDITOR=vim ENABLE_GUILE_COOT=yes ENABLE_PYTHON_COOT=yes ENV=/usr/share/modules/init/profile.sh EUID=1120358 GDMSESSION=plasma GFORTRAN_UNBUFFERED_PRECONNECTED=Y GPG_AGENT_INFO=/run/user/1120358/gnupg/S.gpg-agent:0:1 GROUP=ag_ullmann GROUPS=() GS_LIB=/home/ullmann/.fonts GTK2_RC_FILES=/etc/gtk-2.0/gtkrc:/home/ullmann/.gtkrc-2.0:/home/ullmann/.config/gtkrc-2.0 GTK_CSD=0 GTK_MODULES=gail:atk-bridge GTK_RC_FILES=/etc/gtk/gtkrc:/home/ullmann/.gtkrc:/home/ullmann/.config/gtkrc HOME=/home/ullmann HOST=homer HOSTNAME=homer HOSTTYPE=x86_64-linux IFS=$' \t\n' KDE_FULL_SESSION=true KDE_SESSION_UID=1120358 KDE_SESSION_VERSION=5 KONSOLE_DBUS_SERVICE=:1.110 KONSOLE_DBUS_SESSION=/Sessions/1 KONSOLE_DBUS_WINDOW=/Windows/1 KONSOLE_PROFILE_NAME=Default KRB5CCNAME=FILE:/tmp/krb5cc_1120358_hQ6zg7 LANGUAGE= LD_LIBRARY_PATH=/sw/sci/app/orca/openmpi-2.1.6/lib/:/sw/sci/app/modeller/modeller.9.10//lib/x86_64-intel8:/usr/lib/x86_64-linux-gnu/:/local/ullmann/COMODO/programs/lapackpp-2.5.4/lib LD_PRELOAD=libgtk3-nocsd.so.0 LOADEDMODULES= LOGNAME=ullmann LOGS=/home/ullmann/public_html/build-logs/Linux-homer MACHTYPE=x86_64 MANDATORY_PATH=/usr/share/gconf/plasma.mandatory.path MANPATH=/sw/sci/app/ccp4/destination/ccp4-7.0/share/man:/usr/share/man MMCIFDIC=/sw/sci/app/ccp4/destination/ccp4-7.0/lib/ccp4/cif_mmdic.lib MODELLER=/sw/sci/app/modeller/modeller.9.10/ MODULEPATH=/agh/sw/Modules/modulefiles MODULESHOME=/usr/share/modules MODULES_CMD=/usr/lib/x86_64-linux-gnu/modulecmd.tcl MODULES_USE_COMPAT_VERSION=0 NETCDFHOME=/sw/sci/app/gmt/gmt-4.5.7/netcdf-3.6.3 NIGHTLY_DEST_DIR=/home/ullmann/public_html/software/binaries/nightlies/pre-release OPENMPI=/sw/sci/app/orca/openmpi-2.1.6 OPTERR=1 OPTIND=1 ORCA=/sw/sci/app/orca/orca_4_2_1_linux_x86-64_openmpi216 OS=Linux OSTYPE=linux PAM_KWALLET5_LOGIN=/run/user/1120358/kwallet5.socket PATH=/home/ullmann/autobuild/Linux-homer-pre-release-gtk2/bin:/sw/sci/app/phenix/phenix-1.17.1-3660/build/bin:/sw/sci/app/ccp4/destination/arp_warp_8.0/bin/bin-x86_64-Linux:/sw/sci/app/ccp4/destination/ccp4-7.0/etc:/sw/sci/app/ccp4/destination/ccp4-7.0/bin:.:/home/ullmann/apbs-install/bin:/home/ullmann/apbs-install/share/apbs/tools/bin/:/sw/sci/app/orca/orca_4_2_1_linux_x86-64_openmpi216:/sw/sci/app/orca/openmpi-2.1.6/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/home/ullmann/bin:/home/ullmann/exe/scripts:/home/ullmann/exe/x86_64-linux:/sw/sci/bin/x86_64-linux:/sw/sci/app/python-modules/bin/:/sw/sci/app/intel/bin:/usr/share/php:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc PATH_CONNECT=/home/ullmann/Parameter/HBX PDYNAMO_PARAMETERS=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/parameters PDYNAMO_PBABEL=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pBabel-1.9.0 PDYNAMO_PCORE=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pCore-1.9.0 PDYNAMO_PMOLECULE=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pMolecule-1.9.0 PDYNAMO_PMOLECULESCRIPTS=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pMoleculeScripts-1.9.0 PDYNAMO_ROOT=/data/ullmann/Software/pdynamo/pDynamo-1.9.0 PDYNAMO_SCRATCH=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/scratch PDYNAMO_STYLE=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/parameters/ccsStyleSheets/defaultStyle.css PDYNAMO_VER=1.9.0 PHENIX=/sw/sci/app/phenix/phenix-1.17.1-3660 PHENIX_VERSION=1.17.1-3660 PIPESTATUS=([0]="1") PPID=16926 PRINTER=Ullmann_HP_PageWide PROFILEHOME= PS4='+ ' PSE_FILE=/home/ullmann/GIT/parameter/period-table-info.txt PWD=/home/ullmann/Software/Coot/new PYTHONPATH=/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pBabel-1.9.0:/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pCore-1.9.0:/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pMolecule-1.9.0:/data/ullmann/Software/pdynamo/pDynamo-1.9.0/pMoleculeScripts-1.9.0:/sw/sci/app/python-modules/lib/python2.7/site-packages/:/home/ullmann/.local/lib/python2.7/site-packages QT_ACCESSIBILITY=1 QT_AUTO_SCREEN_SCALE_FACTOR=0 SESSION_MANAGER=local/homer:@/tmp/.ICE-unix/4011,unix/homer:/tmp/.ICE-unix/4011 SHELL=/bin/tcsh SHELLOPTS=braceexpand:hashall:interactive-comments SHELL_SESSION_ID=620ca4b6193348eba75a4a4f70a6852a SHLVL=2 SSH_AGENT_PID=3937 SSH_AUTH_SOCK=/tmp/ssh-tApG7qridirT/agent.3807 SSL_CERT_FILE=/sw/sci/app/ccp4/destination/ccp4-7.0/etc/ssl/cacert.pem STABLE_DEST_DIR=/home/ullmann/public_html/software/binaries/stable S_COLORS=auto TERM=xterm-256color UID=1120358 USER=ullmann VENDOR=unknown WINDOWID=148897798 XAUTHORITY=/tmp/xauth-1120358-_0 XCURSOR_THEME=breeze_cursors XDG_CACHE_HOME=/var/cache/users/ullmann/.cache XDG_CONFIG_DIRS=/etc/xdg/xdg-plasma:/etc/xdg:/usr/share/kubuntu-default-settings/kf5-settings XDG_CURRENT_DESKTOP=KDE XDG_DATA_DIRS=/usr/share/plasma:/usr/local/share:/usr/share:/var/lib/snapd/desktop XDG_GREETER_DATA_DIR=/var/lib/lightdm-data/ullmann XDG_RUNTIME_DIR=/run/user/1120358 XDG_SEAT=seat0 XDG_SEAT_PATH=/org/freedesktop/DisplayManager/Seat0 XDG_SESSION_DESKTOP=plasma XDG_SESSION_ID=c4 XDG_SESSION_PATH=/org/freedesktop/DisplayManager/Session1 XDG_SESSION_TYPE=x11 XDG_VTNR=7 _=']' arch=x86_64 architecture=x86_64 build_coot_prerelease=1 build_type=gtk2-python dep=libgnomecanvas2-dev dep_list=$'\n patch\n m4\n g++\n libxext-dev\n libxmu-dev\n libxt-dev\n libc6-dev\n libncurses5-dev\n libglu1-mesa-dev \n libjpeg-dev\n mesa-common-dev\n libgtk2.0-dev\n libgnomecanvas2-dev' dist_name=ubuntu dist_ver=18.04.3 do_nightlies=1 fallback_coot_version=coot-0.4 have_malloc=1 manpath=/sw/sci/app/ccp4/destination/ccp4-7.0/share/man:/usr/share/man no_proxy=.corp.net.com processor=GNU/Linux proxy_host=myproxy.com proxy_port=800 publish=: publish_logs=: run_second_test=true run_tests=false script_version=5.35 shared_lib_ext=so shared_static_flag=--disable-shared specs=/home/ullmann/autobuild/build-scripts/homer-specials systype=x86_64-ubuntu-18.04.3 update_config_guess_sub=1 update_libtool=1 use_proxy= warpbin=/sw/sci/app/ccp4/destination/arp_warp_8.0/bin/bin-x86_64-Linux warpdoc=/sw/sci/app/ccp4/destination/arp_warp_8.0/manual _moduleraw () { unset _mlre _mlIFS _mlshdbg; if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = '1' ]; then case "$-" in *v*x*) set +vx; _mlshdbg='vx' ;; *v*) set +v; _mlshdbg='v' ;; *x*) set +x; _mlshdbg='x' ;; *) _mlshdbg='' ;; esac; fi; if [ -n "${IFS+x}" ]; then _mlIFS=$IFS; fi; IFS=' '; for _mlv in ${MODULES_RUN_QUARANTINE:-}; do if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then if [ -n "`eval 'echo ${'$_mlv'+x}'`" ]; then _mlre="${_mlre:-}${_mlv}_modquar='`eval 'echo ${'$_mlv'}'`' "; fi; _mlrv="MODULES_RUNENV_${_mlv}"; _mlre="${_mlre:-}${_mlv}='`eval 'echo ${'$_mlrv':-}'`' "; fi; done; if [ -n "${_mlre:-}" ]; then _mlre="eval ${_mlre}"; fi; eval `${_mlre:-}/usr/bin/tclsh /usr/lib/x86_64-linux-gnu/modulecmd.tcl bash $*`; _mlstatus=$?; if [ -n "${_mlIFS+x}" ]; then IFS=$_mlIFS; else unset IFS; fi; if [ -n "${_mlshdbg:-}" ]; then set -$_mlshdbg; fi; unset _mlre _mlv _mlrv _mlIFS _mlshdbg; return $_mlstatus } fixup_libcurl () { sed s,-L/usr/lib,, curl-config > curl-config.tmp; mv curl-config.tmp curl-config; sed s,-L/usr/lib,, lib/libcurl.la > lib/libcurl.la.tmp; mv lib/libcurl.la.tmp lib/libcurl.la } make_tar () { echo in make_tar args: $1 $2; echo in make_tar: in dir: $PWD; tar_dir=$1; tar_file_name=$2; cd $install_top_dir/..; if [ -e $tar_dir ]; then echo taring nightly... from $tar_dir to $tar_file_name; tar czf $tar_file_name $tar_dir; status=$?; if [ "$status" != 0 ]; then echo ERROR:: tar czf $tar_file_name $tar_dir failed.; echo ERROR:: while in directory $(pwd); echo ERROR:: tar failed > $tar_file_name.md5sum; rm $tar_file_name; else md5sum $tar_file_name > $tar_file_name.md5sum; /bin/ls -l $tar_file_name >> $tar_file_name.md5sum; echo done tar successfully.; fi; else echo ERROR:: tar target directory $tar_dir does not exist.; fi } mkdir_maybe () { dir=$1; if [ ! -e "$dir" ]; then mkdir $dir; fi } module () { _moduleraw "$*" 2>&1 } my_exit () { exit_arg=$1; shift; extra_args=$*; echo fail-build $extra_args > $LOGS/$build-status; if [ -e $LOGS/$test-status ]; then rm $LOGS/$test-status; fi; exit $exit_arg } post_install_slim () { echo we are slimming directory $1; fat_dir="$1"; cleaned_dir="$2"; clear_type="$3"; echo fat_dir is $fat_dir; echo clear_type is $clear_type; echo cleaned_dir is $cleaned_dir; mkdir_maybe $cleaned_dir; mkdir_maybe $cleaned_dir/bin; mkdir_maybe $cleaned_dir/lib; if [ "$ENABLE_PYTHON_COOT" = yes ]; then mkdir_maybe $cleaned_dir/include; mkdir_maybe $cleaned_dir/include/$python_version; fi; lib_sos=`cd $fat_dir && ls -1 lib/lib*.so*`; lib_as=`cd $fat_dir && ls -1 lib/lib*.a`; if [ "$clear_type" = "clear-dynamic" ]; then keep_lib_archs="$lib_as"; fi; if [ "$clear_type" = "clear-static" ]; then keep_lib_archs="$lib_sos"; fi; file_list="etc info man share libexec libexec/coot-bin libexec/findwaters-bin libexec/findligand-bin libexec/mini-rsr-bin libexec/density-score-by-residue-bin bin/coot bin/findwaters bin/findligand bin/guile bin/coot-density-score-by-residue bin/coot-available-comp-id bin/coot-compare-dictionaries bin/coot-dictionary-bond-distributions bin/coot-make-shelx-restraints bin/lidia bin/curl $keep_lib_archs"; if [ "$ENABLE_PYTHON_COOT" = yes ]; then file_list="$file_list html lib/$python_version include/$python_version"; fi; echo rsyncing...; for file in $file_list; do dn=$(dirname $file); if [ -e $fat_dir/$file ]; then rsync -axr $fat_dir/$file $cleaned_dir/$dn; else echo $fat_dir/$file does not exist; fi; done; echo done rsyncing. } setup_ccp4 () { if test "$OS" = Linux; then setup_file=/y/programs/xtal/ccp4-6.0.2/ccp4-6.0.2/include/ccp4.setup-sh; if test -e $setup_file; then . $setup_file; else if [ "$systype" = x86_64-centos-6 ]; then setup_file=/home/emsley/ccp4/setup-scripts/sh/ccp4.setup; else if [ "$systype" = x86_64-centos-5 ]; then setup_file=/home/emsley/ccp4/ccp4-6.2.0/include/ccp4.setup-sh; else setup_file=setup-ccp4; fi; fi; if test -e $setup_file; then echo evaluating $setup_file; . $setup_file; else echo WARNING:: ccp4 setup file $setup_file does not exist.; fi; fi; fi; if test "$OS" = Darwin; then . /usr/local/ccp4-6.0.2/bin/ccp4.setup-sh; fi } ssh_copy () { if [ "$do_ssh_copy" = true ]; then dir=public_html/software/binaries/nightlies/pre-release/; echo ssh_copy copying over files using $HOME/bin/sput-with-dir $bin_tar_file $dir; $HOME/bin/sput-with-dir $bin_tar_file $dir; if [ -e $bin_tar_file.md5sum ]; then $HOME/bin/sput-with-dir $bin_tar_file.md5sum dir; fi; else echo Not ssh copying file to York, $domainname; fi } ssh_copy_logs_to_biop () { local_log_dir=$1; target_dir=$2; if [ "$do_ssh_biop_copy" = true ]; then echo copying over log files to Biop...; target_dir=$2; $HOME/bin/sput-with-dir $local_log_dir $target_dir; else echo Not ssh copying log files to biop; fi } ssh_copy_to_biop () { bin_tar_file=$1; if [ "$do_ssh_biop_copy" = true ]; then target_dir=public_html/coot/software/binaries/pre-releases/; echo copying over files to Biop: $HOME/bin/sput-with-dir $bin_tar_file $target_dir; $HOME/bin/sput-with-dir $bin_tar_file $target_dir; if [ -e $bin_tar_file.md5sum ]; then echo and also: $HOME/bin/sput-with-dir $bin_tar_file.md5sum $target_dir; $HOME/bin/sput-with-dir $bin_tar_file.md5sum $target_dir; fi; else echo Not ssh copying file to biop; fi } switchml () { typeset swfound=1; if [ "${MODULES_USE_COMPAT_VERSION:-0}" = '1' ]; then typeset swname='main'; if [ -e /usr/lib/x86_64-linux-gnu/modulecmd.tcl ]; then typeset swfound=0; unset MODULES_USE_COMPAT_VERSION; fi; else typeset swname='compatibility'; if [ -e /usr/lib/x86_64-linux-gnu/modulecmd-compat ]; then typeset swfound=0; MODULES_USE_COMPAT_VERSION=1; export MODULES_USE_COMPAT_VERSION; fi; fi; if [ $swfound -eq 0 ]; then echo "Switching to Modules $swname version"; source /usr/share/modules/init/bash; else echo "Cannot switch to Modules $swname version, command not found"; return 1; fi } test_coot () { echo testing with greg; echo testing with greg 1>&2; echo currently we are here:; pwd; date; if [ "$1" != "" ]; then coot_binary=$1; else coot_binary=$install_top_dir/libexec/coot-bin; fi; if test "$run_tests" = true; then COOT_PYTHON_DIR=$install_top_dir/share/coot/python; PYTHONPATH=$COOT_PYTHON_DIR; PYTHONHOME=$install_top_dir; export COOT_PYTHON_DIR; export PYTHONPATH; export PYTHONHOME; if [ ! -d greg-tests ]; then echo greg-tests dir missing in this directory:; pwd; return 1; fi; setup_ccp4; cat > command-line-greg.scm <&2; echo currently we are here:; pwd; if test "$run_tests" = true; then COOT_PYTHON_DIR=$install_top_dir/share/coot/python; PYTHONPATH=$COOT_PYTHON_DIR; PYTHONHOME=$install_top_dir; export COOT_PYTHON_DIR; export PYTHONPATH; export PYTHONHOME; echo $install_top_dir/bin/coot --no-graphics --script python-tests/coot_unittest.py; $install_top_dir/bin/coot --no-graphics --script python-tests/coot_unittest.py; status=$?; if [ $status = 0 ]; then echo test_coot_python: coot test passed; return 0; else echo test_coot_python: coot test failed; return 1; fi; else return 1; fi } INFO:: MACHTYPE is x86_64 INFO:: systype is x86_64-ubuntu-18.04.3 g++ (Ubuntu 7.4.0-1ubuntu1~18.04.1) 7.4.0 Copyright (C) 2017 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. new version path need_guile_unused_values_patch is true Testing version of make GNU Make 4.1 Built for x86_64-pc-linux-gnu Copyright (C) 1988-2014 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. using 8 processors in compilation MAKE set to make -j8 testing for patch testing awk type (prefer GNU awk) GNU Awk 4.1.4, API: 1.1 (GNU MPFR 4.0.1, GNU MP 6.1.2) Copyright (C) 1989, 1991-2016 Free Software Foundation. This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/. good, you have an awk from GNU. Date: 2020-01-23__T08_31_26 checking wget which wget /usr/bin/wget doing the awk coot-0.8.9.3-pre-revision-7957 coot-0.8.9.3-pre-revision-7969 coot-0.8.9.3-pre-revision-8011 coot-0.8.9.3-pre-revision-8031 coot-0.8.9.3-pre-revision-8032 coot-0.8.9.3-pre-revision-8033 coot-0.8.9.3-pre-revision-8034 pre_release_files_html /home/ullmann/autobuild/building/sources/index-pre-release.html coot_version_tmp : coot-0.8.9.3-pre-revision-8034 : clever coot_version succeeded, setting coot_version to coot-0.8.9.3-pre-revision-8034 from extraction debug:: wget -P /home/ullmann/autobuild/building/sources -O /home/ullmann/autobuild/building/sources/index.html -o /home/ullmann/autobuild/building/sources/wget-e.s.p.log http://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/source/pre-releases/ INFO:: building pre-release and coot_version_pre is coot-0.8.9.3-pre-revision-8034 DEBUG:: set coot_source_tar_file to http://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/source/pre-releases/coot-0.8.9.3-pre-revision-8034.tar.gz INFO:: set the target destination for binary tar file (BINARY_TAR_DEST_DIR) to /home/ullmann/public_html/software/binaries/nightlies/pre-release INFO:: binary tar destination dir: BINARY_TAR_DEST_DIR is /home/ullmann/public_html/software/binaries/nightlies/pre-release coot_version_pre is coot-0.8.9.3-pre-revision-8034 build_coot_prerelease: 1 release_server_dir http://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/source/releases coot_version coot-0.8.9.3-pre-revision-8034 testing for install_top_dir: /home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python /home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python does not exist making directory /home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python done testing for /home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python making /home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python/lib ccp4_system_type linux fftw should be built curl should be built installation does not have libidn, libcurl should be built also pkg-config is /usr/bin/pkg-config pkg-config is new enough 0.29.1 COOT_CCP4_PACKAGES PKG_CONFIG_PATH is now /home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python/lib/pkgconfig system/installation has freetype2 glib is not up to date, rebuild glib - maybe. :::::::: gtk version is at least 2.10 :::::::: gtk version is 2.24.32 gtk is new enough for guile-gtk freeglut should be built libtool should be built system has libgnomecanvas gmp should be built readline needs to be built atempting to run installed guile-config (this may fail, that's OK). guile-config failed. guile should be built guile-gui needs to be installed guile-lib needs to be installed testing for greg using guile greg status 127 greg should be built python should be built gsl should be built gtkglext should be built installation does not have guile-gtk guile-gtk.h not found, guile-gtk should be built 2.30.3 goocanvas: recent enough gtk+ version goocanvas: recent enough cairo version goocanvas: goocanvas_args set to --with-goocanvas-prefix=/home/ullmann/autobuild/Linux-homer-pre-release-gtk2-python installation has no mmdb, build mmdb. SSM not found - needs to be built mmdb needs to be built, so clipper needs building. BUILDING: libccp4 gzip: /home/ullmann/autobuild/building/sources/libccp4-6.5.1.tar.gz: No such file or directory tar: This does not look like a tar archive tar: Exiting with failure status due to previous errors build-it: line 2413: cd: libccp4-6.5.1: No such file or directory build-it: line 2414: ./configure: No such file or directory BUILDING mmdb: wget -N -P /home/ullmann/autobuild/building/sources http://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/dependencies/mmdb2-2.0.19.tar.gz BUILDING SSM: BUILDING fftw: BUILDING clipper: BUILDING freeglut: BUILDING gtkglext: status from gtkglext build was 0 BUILDING goocanvas BUILDING Python 2.7.15: wget -N -P /home/ullmann/autobuild/building/sources http://www.python.org/ftp/python/2.7.15/Python-2.7.15.tgz got Python-2.7.15.tgz post linking python to python2.7 removing old python linking new... done python linking. BUILDING pygobject: INFO:: pkg-config is new enough to build pygobject path 1 wget -N -P /home/ullmann/autobuild/building/sources http://ftp.gnome.org/pub/GNOME/sources/pygobject/2.8/pygobject-2.8.0.tar.gz OK got pygobject-2.8.0.tar.gz BUILDING pygtk: BUILDING gmp: BUILDING libtool: BUILDING readline: BUILDING guile: building greg: BUILDING guile-gtk: GTK minor version is good enough, 24 BUILDING guile-gui: BUILDING guile-lib: BUILDING libidn: BUILDING curl: BUILDING gsl: BUILDING coot: version coot-0.8.9.3-pre-revision-8034, guile=yes, python=yes using coot version coot-0.8.9.3-pre-revision-8034 19280 -rw-r--r-- 1 ullmann ag_ullmann 19735022 Jan 2 18:01 /home/ullmann/autobuild/building/sources/coot-0.8.9.3-pre-revision-8034.tar.gz good /home/ullmann/autobuild/building/sources/coot-0.8.9.3-pre-revision-8034.tar.gz exists Thu Jan 23 10:00:28 CET 2020 /home/ullmann/autobuild/building/homer_2020-01-23__T08_31_26 BUILDING coot: version coot-0.8.9.3-pre-revision-8034, python=yes coot build failed, exiting.