09:27:05 Started by user devspace
09:27:05 Running as SYSTEM
09:27:05 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
09:27:05 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12318621561191595759.sh
09:27:05 + source /home/settings.env
09:27:05 ++ OMERO_DB_HOST=pg
09:27:05 ++ OMERO_DB_USER=postgres
09:27:05 ++ OMERO_DB_PASS=
09:27:05 ++ OMERO_ROOT_PASS=omero
09:27:05 ++ OMERO_DATA_DIR=/OMERO
09:27:05 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:27:05 + OMERO_DB_NAME=OMERO-server
09:27:05 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:27:05 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:27:05 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:27:05 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:27:05 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
09:27:05 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:27:05 ++ deactivate nondestructive
09:27:05 ++ '[' -n '' ']'
09:27:05 ++ '[' -n '' ']'
09:27:05 ++ '[' -n /bin/bash -o -n '' ']'
09:27:05 ++ hash -r
09:27:05 ++ '[' -n '' ']'
09:27:05 ++ unset VIRTUAL_ENV
09:27:05 ++ '[' '!' nondestructive = nondestructive ']'
09:27:05 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:27:05 ++ export VIRTUAL_ENV
09:27:05 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:27:05 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:27:05 ++ export PATH
09:27:05 ++ '[' -n '' ']'
09:27:05 ++ '[' -z '' ']'
09:27:05 ++ _OLD_VIRTUAL_PS1=
09:27:05 ++ PS1='(.venv3) '
09:27:05 ++ export PS1
09:27:05 ++ '[' -n /bin/bash -o -n '' ']'
09:27:05 ++ hash -r
09:27:05 + omero admin stop
09:27:22 Server not running
09:27:22 + echo not running
09:27:22 not running
09:27:22 + sleep 5
09:27:27 + deactivate
09:27:27 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:27:27 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:27:27 + export PATH
09:27:27 + unset _OLD_VIRTUAL_PATH
09:27:27 + '[' -n '' ']'
09:27:27 + '[' -n /bin/bash -o -n '' ']'
09:27:27 + hash -r
09:27:27 + '[' -n '' ']'
09:27:27 + unset VIRTUAL_ENV
09:27:27 + '[' '!' '' = nondestructive ']'
09:27:27 + unset -f deactivate
09:27:27 + rm -rf /home/omero/workspace/OMERO-server/.venv3
09:27:28 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
09:27:33 + '[' false = true ']'
09:27:33 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
09:27:33 Skipping PURGE_DATA:CleanDbAndRepo
09:27:33 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
09:27:35 Copied 1 artifact from "OMERO-build" build number 54
09:27:36 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 54
09:27:36 Copied 2 artifacts from "OMERO-build-build" build number 55
09:27:36 [OMERO-server] $ /bin/bash -xe /tmp/jenkins1807841633879869480.sh
09:27:36 + source /home/settings.env
09:27:36 ++ OMERO_DB_HOST=pg
09:27:36 ++ OMERO_DB_USER=postgres
09:27:36 ++ OMERO_DB_PASS=
09:27:36 ++ OMERO_ROOT_PASS=omero
09:27:36 ++ OMERO_DATA_DIR=/OMERO
09:27:36 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:27:36 + OMERO_DB_NAME=OMERO-server
09:27:36 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:27:36 + mkdir -p /home/omero/omero-server-data
09:27:36 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:27:36 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:27:36 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:27:36 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:27:36 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:27:36 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:27:36 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:27:36 ++ ls OMERO.server-5.6.3-460-8485a3c827-ice36.zip
09:27:36 + ZIP=OMERO.server-5.6.3-460-8485a3c827-ice36.zip
09:27:36 + '[' '!' -z '' ']'
09:27:36 + DIST=OMERO.server-5.6.3-460-8485a3c827-ice36
09:27:36 + unzip OMERO.server-5.6.3-460-8485a3c827-ice36.zip
09:27:36 Archive: OMERO.server-5.6.3-460-8485a3c827-ice36.zip
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/blitz/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/grid/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/profiles/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/error/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/grid/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/luts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/luts/janelia/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/luts/ncsa_paledit/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/luts/wcif/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/analysis_scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/annotation_scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/export_scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/figure_scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/import_scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/scripts/omero/util_scripts/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/server/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/share/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/share/licenses/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/misc/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__1/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__10/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__11/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__2/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__3/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__4/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__5/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__6/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__7/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__8/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3A__9/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3__4/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3__5/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3__6/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO3__7/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO4.1__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO4.2__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO4.2__0/t/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO4.3__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO4.4__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO4__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.0__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.1__1/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.2__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.3__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.4DEV__1/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.4DEV__2/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.4DEV__3/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/sql/psql/OMERO5.4__0/
09:27:36 creating: OMERO.server-5.6.3-460-8485a3c827-ice36/var/
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/LICENSE.txt
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/backup.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/blitz/mail-senders.example
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/blitz/mail-server.example
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/build.properties
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/env.bat
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/env.sh
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/hibernate.properties
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/ice.config
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/logback-cli.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/logback-indexing-cli.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/logback-indexing.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/logback.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/mime.types
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/node1.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/node2.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/omero.properties
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/profiles/psql
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/rollover.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/Windows.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/error/maintainance.html
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/grid/README
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/grid/default.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/grid/templates.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/grid/windefault.xml
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/ice.config
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/internal.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/master.cfg
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/templates/robot.template
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/etc/testdropbox.config
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/history.rst
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/OMEZarrReader.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/activation.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/aggdesigner-algorithm.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/aircompressor.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/annotations.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/antlr.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/aopalliance.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/avatica-core.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/avatica-metrics.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/aws-java-sdk-core.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/aws-java-sdk-kms.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/aws-java-sdk-s3.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/base.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-all.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-anim.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-awt-util.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-bridge.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-codec.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-constants.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-css.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-dom.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-ext.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-extension.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-gui-util.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-gvt.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-i18n.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-parser.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-rasterizer-ext.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-rasterizer.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-script.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-slideshow.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-squiggle-ext.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-squiggle.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-svg-dom.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-svgbrowser.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-svggen.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-svgpp.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-svgrasterizer.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-swing.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-transcoder.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-ttf2svg.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-util.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/batik-xml.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/btm.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/bufr.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/c3p0.jar
09:27:36 inflating: OMERO.server-5.6.3-460-8485a3c827-ice36/lib/client/calcite-core.jar
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09:27:38 + rm -f OMERO.server-5.6.3-460-8485a3c827-ice36.zip
09:27:38 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-460-8485a3c827-ice36 /home/omero/workspace/OMERO-server/OMERO.server
09:27:38 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:27:38 ++ deactivate nondestructive
09:27:38 ++ '[' -n '' ']'
09:27:38 ++ '[' -n '' ']'
09:27:38 ++ '[' -n /bin/bash -o -n '' ']'
09:27:38 ++ hash -r
09:27:38 ++ '[' -n '' ']'
09:27:38 ++ unset VIRTUAL_ENV
09:27:38 ++ '[' '!' nondestructive = nondestructive ']'
09:27:38 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:27:38 ++ export VIRTUAL_ENV
09:27:38 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:27:38 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:27:38 ++ export PATH
09:27:38 ++ '[' -n '' ']'
09:27:38 ++ '[' -z '' ']'
09:27:38 ++ _OLD_VIRTUAL_PS1=
09:27:38 ++ PS1='(.venv3) '
09:27:38 ++ export PS1
09:27:38 ++ '[' -n /bin/bash -o -n '' ']'
09:27:38 ++ hash -r
09:27:38 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
09:27:38 Collecting zeroc-ice==3.6.5
09:27:39 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
09:27:41 Installing collected packages: zeroc-ice
09:27:41 Successfully installed zeroc-ice-3.6.5
09:27:41 + pip install -U pip future
09:27:42 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
09:27:42 Collecting pip
09:27:42 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
09:27:42 Collecting future
09:27:42 Using cached future-1.0.0-py3-none-any.whl (491 kB)
09:27:42 Installing collected packages: pip, future
09:27:42 Attempting uninstall: pip
09:27:42 Found existing installation: pip 21.2.3
09:27:42 Uninstalling pip-21.2.3:
09:27:42 Successfully uninstalled pip-21.2.3
09:27:44 Successfully installed future-1.0.0 pip-24.0
09:27:44 + pip install markdown
09:27:45 Collecting markdown
09:27:45 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
09:27:45 Collecting importlib-metadata>=4.4 (from markdown)
09:27:45 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
09:27:45 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
09:27:45 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
09:27:45 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
09:27:45 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
09:27:45 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
09:27:45 Installing collected packages: zipp, importlib-metadata, markdown
09:27:45 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
09:27:45 + pip install reportlab
09:27:46 Collecting reportlab
09:27:46 Using cached reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
09:27:46 Collecting pillow>=9.0.0 (from reportlab)
09:27:46 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
09:27:46 Collecting chardet (from reportlab)
09:27:46 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
09:27:46 Using cached reportlab-4.2.0-py3-none-any.whl (1.9 MB)
09:27:46 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
09:27:46 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
09:27:46 Installing collected packages: pillow, chardet, reportlab
09:27:48 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
09:27:48 + pip install omego
09:27:48 Collecting omego
09:27:48 Using cached omego-0.7.0-py3-none-any.whl
09:27:48 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
09:27:48 Collecting yaclifw>=0.1.1 (from omego)
09:27:48 Using cached yaclifw-0.2.0-py3-none-any.whl
09:27:48 Collecting six (from yaclifw>=0.1.1->omego)
09:27:48 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
09:27:48 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
09:27:49 Installing collected packages: six, yaclifw, omego
09:27:49 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
09:27:49 + pip install tables
09:27:49 Collecting tables
09:27:49 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
09:27:50 Collecting numpy>=1.19.0 (from tables)
09:27:50 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
09:27:50 Collecting numexpr>=2.6.2 (from tables)
09:27:50 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
09:27:50 Collecting packaging (from tables)
09:27:50 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
09:27:50 Collecting py-cpuinfo (from tables)
09:27:50 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
09:27:50 Collecting blosc2>=2.3.0 (from tables)
09:27:51 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
09:27:51 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
09:27:51 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
09:27:51 Collecting msgpack (from blosc2>=2.3.0->tables)
09:27:51 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
09:27:51 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
09:27:51 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
09:27:51 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
09:27:51 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
09:27:51 Using cached packaging-24.0-py3-none-any.whl (53 kB)
09:27:51 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
09:27:51 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
09:27:51 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
09:27:52 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
09:27:55 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
09:27:55 + pip install jinja2
09:27:55 Collecting jinja2
09:27:55 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
09:27:55 Collecting MarkupSafe>=2.0 (from jinja2)
09:27:55 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
09:27:55 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
09:27:55 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
09:27:56 Installing collected packages: MarkupSafe, jinja2
09:27:56 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
09:27:56 + pip install omero-py
09:27:56 Collecting omero-py
09:27:56 Using cached omero_py-5.19.2-py3-none-any.whl.metadata (6.6 kB)
09:27:56 Collecting urllib3<2 (from omero-py)
09:27:56 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
09:27:56 Collecting appdirs (from omero-py)
09:27:56 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
09:27:56 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
09:27:56 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
09:27:56 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
09:27:56 Collecting PyYAML (from omero-py)
09:27:56 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
09:27:56 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
09:27:56 Collecting requests (from omero-py)
09:27:56 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
09:27:56 Collecting portalocker (from omero-py)
09:27:57 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
09:27:57 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
09:27:57 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
09:27:57 Collecting idna<4,>=2.5 (from requests->omero-py)
09:27:57 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
09:27:57 Collecting certifi>=2017.4.17 (from requests->omero-py)
09:27:57 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
09:27:57 Using cached omero_py-5.19.2-py3-none-any.whl (2.8 MB)
09:27:57 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
09:27:57 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
09:27:57 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
09:27:57 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
09:27:57 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
09:27:57 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
09:27:57 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
09:27:57 Using cached idna-3.7-py3-none-any.whl (66 kB)
09:27:57 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
09:27:59 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.2 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
09:27:59 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
09:28:00 Collecting omero-metadata
09:28:00 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-qnkb45t7/omero-metadata_2dd415f7c5d34495bae68667ceae7b9c
09:28:00 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-qnkb45t7/omero-metadata_2dd415f7c5d34495bae68667ceae7b9c
09:28:01 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 40b65ba4f8f0d6e1dae74e667620ccbfd203750b
09:28:01 Installing build dependencies: started
09:28:03 Installing build dependencies: finished with status 'done'
09:28:03 Getting requirements to build wheel: started
09:28:04 Getting requirements to build wheel: finished with status 'done'
09:28:04 Installing backend dependencies: started
09:28:05 Installing backend dependencies: finished with status 'done'
09:28:05 Preparing metadata (pyproject.toml): started
09:28:05 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:05 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.2)
09:28:05 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
09:28:05 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
09:28:05 Collecting pandas (from omero-metadata)
09:28:05 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
09:28:05 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
09:28:05 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
09:28:05 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
09:28:05 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
09:28:05 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.3.0)
09:28:05 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
09:28:05 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
09:28:05 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
09:28:05 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
09:28:05 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
09:28:05 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
09:28:05 Collecting pytz>=2020.1 (from pandas->omero-metadata)
09:28:05 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
09:28:05 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
09:28:05 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
09:28:05 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
09:28:05 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
09:28:05 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
09:28:05 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
09:28:05 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
09:28:06 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
09:28:06 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
09:28:06 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
09:28:06 Building wheels for collected packages: omero-metadata
09:28:06 Building wheel for omero-metadata (pyproject.toml): started
09:28:06 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
09:28:06 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=49f6ce2be0d8ca5b465d8b591330299312826542126cff78f601172a929164d1
09:28:06 Stored in directory: /tmp/pip-ephem-wheel-cache-sz0lwpal/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
09:28:06 Successfully built omero-metadata
09:28:06 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
09:28:11 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
09:28:11 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
09:28:12 Collecting omero-cli-render
09:28:12 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-_4nhf6cw/omero-cli-render_c60434bf7acd4c289c1b196835bd7720
09:28:12 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-_4nhf6cw/omero-cli-render_c60434bf7acd4c289c1b196835bd7720
09:28:13 Running command git checkout -b merge_ci --track origin/merge_ci
09:28:13 Switched to a new branch 'merge_ci'
09:28:13 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:28:13 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 29940f6c0f6a5bd1e36ba2f6b442701a7e3fa72e
09:28:13 Installing build dependencies: started
09:28:15 Installing build dependencies: finished with status 'done'
09:28:15 Getting requirements to build wheel: started
09:28:15 Getting requirements to build wheel: finished with status 'done'
09:28:15 Installing backend dependencies: started
09:28:16 Installing backend dependencies: finished with status 'done'
09:28:16 Preparing metadata (pyproject.toml): started
09:28:16 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:16 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
09:28:16 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.2)
09:28:16 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
09:28:16 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
09:28:16 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
09:28:16 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
09:28:16 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.3.0)
09:28:16 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
09:28:16 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
09:28:16 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
09:28:16 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
09:28:16 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
09:28:16 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
09:28:16 Building wheels for collected packages: omero-cli-render
09:28:16 Building wheel for omero-cli-render (pyproject.toml): started
09:28:16 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
09:28:16 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=2b0aff209878cc975e72d4160cd3ecb22eb3a5562e45d5d48af825f1135f17d3
09:28:16 Stored in directory: /tmp/pip-ephem-wheel-cache-24cw616b/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
09:28:16 Successfully built omero-cli-render
09:28:16 Installing collected packages: omero-cli-render
09:28:16 Successfully installed omero-cli-render-0.8.1.dev0
09:28:17 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
09:28:17 Collecting omero-cli-duplicate
09:28:17 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-g0jt0pxg/omero-cli-duplicate_45c0d070da324cf2aa1781918952844f
09:28:17 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-g0jt0pxg/omero-cli-duplicate_45c0d070da324cf2aa1781918952844f
09:28:18 Running command git checkout -b merge_ci --track origin/merge_ci
09:28:19 Switched to a new branch 'merge_ci'
09:28:19 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:28:19 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 8ca1a9981b8c06672de244ef4408fa836b0ac15e
09:28:19 Installing build dependencies: started
09:28:21 Installing build dependencies: finished with status 'done'
09:28:21 Getting requirements to build wheel: started
09:28:21 Getting requirements to build wheel: finished with status 'done'
09:28:21 Installing backend dependencies: started
09:28:22 Installing backend dependencies: finished with status 'done'
09:28:22 Preparing metadata (pyproject.toml): started
09:28:22 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:22 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.2)
09:28:22 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
09:28:22 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
09:28:22 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
09:28:22 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
09:28:22 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.3.0)
09:28:22 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
09:28:22 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
09:28:22 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
09:28:22 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
09:28:22 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
09:28:22 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
09:28:22 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
09:28:22 Building wheels for collected packages: omero-cli-duplicate
09:28:22 Building wheel for omero-cli-duplicate (pyproject.toml): started
09:28:23 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
09:28:23 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=3ac6e0bd46f341e0e87cdbc606725759c46c8ea2cc66f84fa1b64193188413f7
09:28:23 Stored in directory: /tmp/pip-ephem-wheel-cache-_7edzfhe/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
09:28:23 Successfully built omero-cli-duplicate
09:28:23 Installing collected packages: omero-cli-duplicate
09:28:23 Successfully installed omero-cli-duplicate-0.4.1.dev0
09:28:23 + pip install omero-certificates
09:28:23 Collecting omero-certificates
09:28:23 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
09:28:23 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.2)
09:28:24 Collecting distro==1.8.0 (from omero-certificates)
09:28:24 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
09:28:24 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
09:28:24 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
09:28:24 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
09:28:24 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
09:28:24 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.3.0)
09:28:24 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
09:28:24 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
09:28:24 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
09:28:24 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
09:28:24 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
09:28:24 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
09:28:24 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
09:28:24 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
09:28:24 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
09:28:24 Installing collected packages: distro, omero-certificates
09:28:24 Successfully installed distro-1.8.0 omero-certificates-0.3.2
09:28:24 + for x in *.tar.gz
09:28:24 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
09:28:24 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
09:28:24 Installing build dependencies: started
09:28:26 Installing build dependencies: finished with status 'done'
09:28:26 Getting requirements to build wheel: started
09:28:26 Getting requirements to build wheel: finished with status 'done'
09:28:26 Installing backend dependencies: started
09:28:27 Installing backend dependencies: finished with status 'done'
09:28:27 Preparing metadata (pyproject.toml): started
09:28:27 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:27 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.2)
09:28:27 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
09:28:27 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
09:28:27 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
09:28:27 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
09:28:27 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.3.0)
09:28:27 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
09:28:27 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
09:28:27 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
09:28:27 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
09:28:27 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
09:28:27 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.7)
09:28:27 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
09:28:27 Building wheels for collected packages: omero-dropbox
09:28:27 Building wheel for omero-dropbox (pyproject.toml): started
09:28:28 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
09:28:28 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=eab3167c064e89a608c297d3baee23842028a550a4be3bcacf67822ce6c0adee
09:28:28 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
09:28:28 Successfully built omero-dropbox
09:28:28 Installing collected packages: omero-dropbox
09:28:28 Successfully installed omero-dropbox-5.6.3.dev0
09:28:28 + for x in *.tar.gz
09:28:28 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
09:28:28 Processing ./omero_marshal-0.9.1.dev0.tar.gz
09:28:28 Installing build dependencies: started
09:28:30 Installing build dependencies: finished with status 'done'
09:28:30 Getting requirements to build wheel: started
09:28:31 Getting requirements to build wheel: finished with status 'done'
09:28:31 Installing backend dependencies: started
09:28:32 Installing backend dependencies: finished with status 'done'
09:28:32 Preparing metadata (pyproject.toml): started
09:28:32 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:32 Building wheels for collected packages: omero_marshal
09:28:32 Building wheel for omero_marshal (pyproject.toml): started
09:28:33 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
09:28:33 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=87f1799dea2b77abf735afe11700e435978d5502a99b4d16e06899b63e0bf583
09:28:33 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
09:28:33 Successfully built omero_marshal
09:28:33 Installing collected packages: omero_marshal
09:28:33 Successfully installed omero_marshal-0.9.1.dev0
09:28:33 + for x in *.tar.gz
09:28:33 + pip install -U omero_py-5.19.3.dev0.tar.gz
09:28:34 Processing ./omero_py-5.19.3.dev0.tar.gz
09:28:34 Installing build dependencies: started
09:28:35 Installing build dependencies: finished with status 'done'
09:28:35 Getting requirements to build wheel: started
09:28:36 Getting requirements to build wheel: finished with status 'done'
09:28:36 Installing backend dependencies: started
09:28:37 Installing backend dependencies: finished with status 'done'
09:28:37 Preparing metadata (pyproject.toml): started
09:28:37 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.18)
09:28:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.4.4)
09:28:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.0.0)
09:28:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.4)
09:28:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (10.3.0)
09:28:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (6.0.1)
09:28:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (3.6.5)
09:28:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.31.0)
09:28:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.8.2)
09:28:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.3.2)
09:28:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.7)
09:28:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (2024.2.2)
09:28:37 Building wheels for collected packages: omero-py
09:28:37 Building wheel for omero-py (pyproject.toml): started
09:28:38 Building wheel for omero-py (pyproject.toml): finished with status 'done'
09:28:38 Created wheel for omero-py: filename=omero_py-5.19.3.dev0-py3-none-any.whl size=2782819 sha256=f06f02e6d54fbb63fa9f9ed6938f3122fcf2d9e203acc04e4b4cec37412b4aa2
09:28:38 Stored in directory: /home/omero/.cache/pip/wheels/da/30/d3/f2a83bdd6a0fbad84aa00dad9eb9431eedebb0e1310be5dd41
09:28:38 Successfully built omero-py
09:28:39 Installing collected packages: omero-py
09:28:39 Attempting uninstall: omero-py
09:28:39 Found existing installation: omero-py 5.19.2
09:28:39 Uninstalling omero-py-5.19.2:
09:28:39 Successfully uninstalled omero-py-5.19.2
09:28:41 Successfully installed omero-py-5.19.3.dev0
09:28:41 + for x in *.tar.gz
09:28:41 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
09:28:41 Processing ./omero_scripts-5.8.3.dev0.tar.gz
09:28:41 Installing build dependencies: started
09:28:43 Installing build dependencies: finished with status 'done'
09:28:43 Getting requirements to build wheel: started
09:28:43 Getting requirements to build wheel: finished with status 'done'
09:28:43 Installing backend dependencies: started
09:28:44 Installing backend dependencies: finished with status 'done'
09:28:44 Preparing metadata (pyproject.toml): started
09:28:44 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:44 Building wheels for collected packages: omero-scripts
09:28:44 Building wheel for omero-scripts (pyproject.toml): started
09:28:45 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
09:28:45 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=f23e8e99a1a90b92c4271068e465712922fc65fafac8458a159f840562d2998a
09:28:45 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
09:28:45 Successfully built omero-scripts
09:28:45 Installing collected packages: omero-scripts
09:28:45 Successfully installed omero-scripts-5.8.3.dev0
09:28:45 + for x in *.tar.gz
09:28:45 + pip install -U omero_web-5.25.1.dev0.tar.gz
09:28:46 Processing ./omero_web-5.25.1.dev0.tar.gz
09:28:46 Installing build dependencies: started
09:28:47 Installing build dependencies: finished with status 'done'
09:28:47 Getting requirements to build wheel: started
09:28:48 Getting requirements to build wheel: finished with status 'done'
09:28:48 Installing backend dependencies: started
09:28:49 Installing backend dependencies: finished with status 'done'
09:28:49 Preparing metadata (pyproject.toml): started
09:28:49 Preparing metadata (pyproject.toml): finished with status 'done'
09:28:49 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.3.dev0)
09:28:49 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
09:28:49 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
09:28:49 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
09:28:49 Using cached Django-4.2.12-py3-none-any.whl.metadata (4.2 kB)
09:28:49 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
09:28:49 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
09:28:49 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
09:28:49 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
09:28:49 Collecting django-csp (from omero-web==5.25.1.dev0)
09:28:49 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
09:28:50 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
09:28:50 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
09:28:50 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
09:28:50 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
09:28:50 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
09:28:50 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
09:28:50 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
09:28:50 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
09:28:50 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
09:28:50 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
09:28:50 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
09:28:50 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
09:28:50 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
09:28:50 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
09:28:50 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
09:28:50 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
09:28:50 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
09:28:50 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
09:28:50 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6.5)
09:28:50 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
09:28:50 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
09:28:50 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
09:28:50 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
09:28:50 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.7)
09:28:50 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
09:28:50 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
09:28:50 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
09:28:50 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
09:28:50 Using cached Django-4.2.12-py3-none-any.whl (8.0 MB)
09:28:50 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
09:28:50 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
09:28:50 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
09:28:50 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
09:28:50 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
09:28:50 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
09:28:50 Building wheels for collected packages: omero-web
09:28:50 Building wheel for omero-web (pyproject.toml): started
09:28:51 Building wheel for omero-web (pyproject.toml): finished with status 'done'
09:28:51 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2768887 sha256=b890df4888fff23a0851016adf7e3ca11c47e3427b48d8c5a77391db7a9c73db
09:28:51 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
09:28:51 Successfully built omero-web
09:28:52 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
09:28:54 Successfully installed Django-4.2.12 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-22.0.0 omero-web-5.25.1.dev0 sqlparse-0.5.0 typing-extensions-4.11.0 whitenoise-6.6.0
09:28:55 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:28:56 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:28:56 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:28:56 --2024-05-07 09:28:56-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:28:56 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.108.133, 185.199.109.133, ...
09:28:56 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
09:28:56 HTTP request sent, awaiting response... 200 OK
09:28:56 Length: 94763 (93K) [text/plain]
09:28:56 Saving to: ‘Figure_To_Pdf.py’
09:28:56
09:28:56 0K .......... .......... .......... .......... .......... 54% 2.88M 0s
09:28:56 50K .......... .......... .......... .......... .. 100% 7.33M=0.02s
09:28:56
09:28:56 2024-05-07 09:28:56 (4.00 MB/s) - ‘Figure_To_Pdf.py’ saved [94763/94763]
09:28:56
09:28:56 + chmod 755 Figure_To_Pdf.py
09:28:56 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
09:28:56 + omero config set omero.db.name OMERO-server
09:28:58 + omero config set omero.db.host pg
09:28:59 + omero config set omero.db.user postgres
09:29:00 + omero config set omero.data.dir /home/omero/omero-server-data
09:29:01 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
09:29:03 + omero config set omero.db.poolsize 25
09:29:04 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
09:29:05 + omero config set omero.security.trustStorePassword changeit
09:29:06 + omero config set omero.mail.config true
09:29:08 + omero config set omero.mail.from qa@openmicroscopy.org.uk
09:29:09 + omero config set omero.mail.host smtp.dundee.ac.uk
09:29:10 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
09:29:12 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
09:29:13 + omero certificates
09:29:14 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
09:29:14 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
09:29:14 + '[' false = true ']'
09:29:14 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
09:29:14 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
09:29:14 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG dbcommand => upgrade
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG dbhost => localhost
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG dbname => OMERO-server
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG dbpass => omero
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG dbuser => omero
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG rootpass => omero
09:29:14 2024-05-07 09:29:14,959 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
09:29:14 2024-05-07 09:29:14,959 [omego.extern] INFO Executing : omero version
09:29:16 OMERO.py version:
09:29:16 OMERO.server version:
09:29:16 5.6.3-460-8485a3c827-ice36
09:29:16 5.19.3.dev0
09:29:16 2024-05-07 09:29:16,282 [omego.extern] INFO Completed [1.323 s]
09:29:16 2024-05-07 09:29:16,282 [omego.extern] DEBUG Using omero CLI from omero
09:29:16 2024-05-07 09:29:16,282 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
09:29:16 2024-05-07 09:29:16,282 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:29:16 2024-05-07 09:29:16,282 [omego.extern] INFO Executing : omero config get --show-password
09:29:17 2024-05-07 09:29:17,536 [omego.extern] INFO Completed [1.253 s]
09:29:17 2024-05-07 09:29:17,536 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:29:17 2024-05-07 09:29:17,536 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
09:29:17 2024-05-07 09:29:17,719 [omego.extern] INFO Completed [0.182 s]
09:29:17 2024-05-07 09:29:17,719 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
09:29:17 2024-05-07 09:29:17,719 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
09:29:17
09:29:17 2024-05-07 09:29:17,719 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:29:17 2024-05-07 09:29:17,719 [omego.extern] INFO Executing : omero config get --show-password
09:29:19 2024-05-07 09:29:19,067 [omego.extern] INFO Completed [1.348 s]
09:29:19 2024-05-07 09:29:19,067 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:29:19 2024-05-07 09:29:19,067 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
09:29:19 2024-05-07 09:29:19,179 [omego.extern] INFO Completed [0.111 s]
09:29:19 2024-05-07 09:29:19,179 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.9") at port "5432".\n'
09:29:19 2024-05-07 09:29:19,179 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
09:29:19 2024-05-07 09:29:19,179 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:29:19 2024-05-07 09:29:19,179 [omego.extern] INFO Executing : omero config get --show-password
09:29:20 2024-05-07 09:29:20,511 [omego.extern] INFO Completed [1.332 s]
09:29:20 2024-05-07 09:29:20,511 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:29:20 2024-05-07 09:29:20,511 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
09:29:21 2024-05-07 09:29:21,112 [omego.extern] INFO Completed [0.600 s]
09:29:21 2024-05-07 09:29:21,112 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
09:29:21 2024-05-07 09:29:21,112 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
09:29:21 2024-05-07 09:29:21,114 [ omego.db] INFO Database is already at OMERO5.4__0
09:29:21 + export LANG=en_US.UTF-8
09:29:21 + LANG=en_US.UTF-8
09:29:21 + export LANGUAGE=en_US:en
09:29:21 + LANGUAGE=en_US:en
09:29:21 + export LC_ALL=en_US.UTF-8
09:29:21 + LC_ALL=en_US.UTF-8
09:29:21 + BUILD_ID=DONT_KILL_ME
09:29:21 + omero admin start
09:29:30 No descriptor given. Using etc/grid/default.xml
09:29:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
09:29:39 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
09:29:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
09:29:39 Waiting on startup. Use CTRL-C to exit
09:29:39 + omero admin waitup
09:29:40 Waiting on startup. Use CTRL-C to exit
09:29:40 + omero admin diagnostics
09:29:42
09:29:42 ================================================================================
09:29:42 OMERO Diagnostics (admin)
09:29:42 ================================================================================
09:29:42
09:29:42 Commands: java -version 17.0.11 (/usr/bin/java)
09:29:42 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
09:29:42 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
09:29:42 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
09:29:42 Commands: psql --version 16.2 (/usr/bin/psql)
09:29:42 Commands: openssl version 3.0.71 (/usr/bin/openssl)
09:29:42
09:29:42 Component: OMERO.py 5.19.3.dev0
09:29:42 Component: OMERO.server 5.6.3-460-8485a3c827-ice36
09:29:42
09:29:42 Server: icegridnode running
09:29:42 Server: Blitz-0 active (pid = 2552, enabled)
09:29:42 Server: Indexer-0 activating (enabled)
09:29:42 Server: OMERO.Glacier2 active (pid = 2583, enabled)
09:29:42 Server: OMERO.IceStorm active (pid = 2609, enabled)
09:29:42 Server: Processor-0 activating (enabled)
09:29:42 Server: Tables-0 activating (enabled)
09:29:42
09:29:42 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
09:29:42 Log files: Blitz-0.log 20.7 KB errors=0 warnings=1
09:29:42 Log files: DropBox.log n/a
09:29:42 Log files: FileServer.log n/a
09:29:42 Log files: Indexer-0.log 358 B
09:29:42 Log files: MonitorServer.log n/a
09:29:42 Log files: Processor-0.log 281 B
09:29:42 Log files: Tables-0.log 281 B
09:29:42 Log files: TestDropBox.log n/a
09:29:42 Log files: master.err empty
09:29:42 Log files: master.out 30.1 KB
09:29:42 Log files: Total size 0.05 MB
09:29:42
09:29:42
09:29:42 Environment:OMERO_HOME=(unset)
09:29:42 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:29:42 Environment:OMERO_NODE=(unset)
09:29:42 Environment:OMERO_MASTER=(unset)
09:29:42 Environment:OMERO_USERDIR=(unset)
09:29:42 Environment:OMERO_TMPDIR=(unset)
09:29:42 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:29:42 Environment:PYTHONPATH=(unset)
09:29:42 Environment:ICE_HOME=/opt/ice-3.6.5
09:29:42 Environment:LD_LIBRARY_PATH=(unset)
09:29:42 Environment:DYLD_LIBRARY_PATH=(unset)
09:29:42
09:29:42 OMERO SSL port:4064
09:29:42 OMERO TCP port:4063
09:29:42 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
09:29:42 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
09:29:42
09:29:42 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:29:42 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:29:42 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:29:42 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:29:42
09:29:42 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 7 May 2024 e6a6b88aa0d1d89b791260f3414327f3049386ba
09:29:42 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 7 May 2024 e6a6b88aa0d1d89b791260f3414327f3049386ba
09:29:42 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 7 May 2024 e6a6b88aa0d1d89b791260f3414327f3049386ba
09:29:42 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 7 May 2024 b548b6e32f8d28dad8f493eb8a6672c53028047a
09:29:42 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 7 May 2024 b548b6e32f8d28dad8f493eb8a6672c53028047a
09:29:42 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 7 May 2024 b548b6e32f8d28dad8f493eb8a6672c53028047a
09:29:42 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 7 May 2024 b548b6e32f8d28dad8f493eb8a6672c53028047a
09:29:42 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 7 May 2024 b548b6e32f8d28dad8f493eb8a6672c53028047a
09:29:42 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 7 May 2024 b548b6e32f8d28dad8f493eb8a6672c53028047a
09:29:42 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
09:29:42 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
09:29:42 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
09:29:42 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
09:29:42 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
09:29:42 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
09:29:42 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
09:29:42 + deactivate
09:29:42 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:29:42 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:29:42 + export PATH
09:29:42 + unset _OLD_VIRTUAL_PATH
09:29:42 + '[' -n '' ']'
09:29:42 + '[' -n /bin/bash -o -n '' ']'
09:29:42 + hash -r
09:29:42 + '[' -n '' ']'
09:29:42 + unset VIRTUAL_ENV
09:29:42 + '[' '!' '' = nondestructive ']'
09:29:42 + unset -f deactivate
09:29:43 Finished: SUCCESS
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