05:36:53 Started by upstream project "Trigger" build number 49
05:36:53 originally caused by:
05:36:53 Started by user devspace
05:36:53 Running as SYSTEM
05:36:54 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
05:36:54 [OMERO-server] $ /bin/bash -xe /tmp/jenkins3085614456500534195.sh
05:36:54 + source /home/settings.env
05:36:54 ++ OMERO_DB_HOST=pg
05:36:54 ++ OMERO_DB_USER=postgres
05:36:54 ++ OMERO_DB_PASS=
05:36:54 ++ OMERO_ROOT_PASS=omero
05:36:54 ++ OMERO_DATA_DIR=/OMERO
05:36:54 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
05:36:54 + OMERO_DB_NAME=OMERO-server
05:36:54 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
05:36:54 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:36:54 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:36:54 + OMERO_DATA_DIR=/home/omero/omero-server-data
05:36:54 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
05:36:54 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
05:36:54 ++ deactivate nondestructive
05:36:54 ++ '[' -n '' ']'
05:36:54 ++ '[' -n '' ']'
05:36:54 ++ '[' -n /bin/bash -o -n '' ']'
05:36:54 ++ hash -r
05:36:54 ++ '[' -n '' ']'
05:36:54 ++ unset VIRTUAL_ENV
05:36:54 ++ '[' '!' nondestructive = nondestructive ']'
05:36:54 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
05:36:54 ++ export VIRTUAL_ENV
05:36:54 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:36:54 ++ 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
05:36:54 ++ export PATH
05:36:54 ++ '[' -n '' ']'
05:36:54 ++ '[' -z '' ']'
05:36:54 ++ _OLD_VIRTUAL_PS1=
05:36:54 ++ PS1='(.venv3) '
05:36:54 ++ export PS1
05:36:54 ++ '[' -n /bin/bash -o -n '' ']'
05:36:54 ++ hash -r
05:36:54 + omero admin stop
05:37:05 Waiting on shutdown. Use CTRL-C to exit
05:37:05 .+ sleep 5
05:37:20 + deactivate
05:37:20 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
05:37:20 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:37:20 + export PATH
05:37:20 + unset _OLD_VIRTUAL_PATH
05:37:20 + '[' -n '' ']'
05:37:20 + '[' -n /bin/bash -o -n '' ']'
05:37:20 + hash -r
05:37:20 + '[' -n '' ']'
05:37:20 + unset VIRTUAL_ENV
05:37:20 + '[' '!' '' = nondestructive ']'
05:37:20 + unset -f deactivate
05:37:20 + rm -rf /home/omero/workspace/OMERO-server/.venv3
05:37:26 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
05:37:30 + '[' false = true ']'
05:37:30 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
05:37:30 Skipping PURGE_DATA:CleanDbAndRepo
05:37:30 + 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-5.19.2.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
05:37:34 Copied 1 artifact from "OMERO-build" build number 40
05:37:34 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 40
05:37:34 Copied 2 artifacts from "OMERO-build-build" build number 41
05:37:34 [OMERO-server] $ /bin/bash -xe /tmp/jenkins448488200540655288.sh
05:37:34 + source /home/settings.env
05:37:34 ++ OMERO_DB_HOST=pg
05:37:34 ++ OMERO_DB_USER=postgres
05:37:34 ++ OMERO_DB_PASS=
05:37:34 ++ OMERO_ROOT_PASS=omero
05:37:34 ++ OMERO_DATA_DIR=/OMERO
05:37:34 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
05:37:34 + OMERO_DB_NAME=OMERO-server
05:37:34 + OMERO_DATA_DIR=/home/omero/omero-server-data
05:37:34 + mkdir -p /home/omero/omero-server-data
05:37:34 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
05:37:34 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:37:34 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:37:34 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
05:37:34 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
05:37:34 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
05:37:34 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
05:37:34 ++ ls OMERO.server-5.6.3-456-f824c5f0bb-ice36.zip
05:37:34 + ZIP=OMERO.server-5.6.3-456-f824c5f0bb-ice36.zip
05:37:34 + '[' '!' -z '' ']'
05:37:34 + DIST=OMERO.server-5.6.3-456-f824c5f0bb-ice36
05:37:34 + unzip OMERO.server-5.6.3-456-f824c5f0bb-ice36.zip
05:37:34 Archive: OMERO.server-5.6.3-456-f824c5f0bb-ice36.zip
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/blitz/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/grid/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/profiles/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/error/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/grid/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/luts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/luts/janelia/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/luts/ncsa_paledit/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/luts/wcif/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/analysis_scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/annotation_scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/export_scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/figure_scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/import_scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/scripts/omero/util_scripts/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/server/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/share/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/share/licenses/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/misc/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__1/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__10/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__11/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__2/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__3/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__4/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__5/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__6/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__7/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__8/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3A__9/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3__4/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3__5/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3__6/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO3__7/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO4.1__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO4.2__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO4.2__0/t/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO4.3__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO4.4__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO4__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.0__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.1__1/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.2__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.3__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4DEV__1/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4DEV__2/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4DEV__3/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/
05:37:34 creating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/var/
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/LICENSE.txt
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/backup.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/blitz/mail-senders.example
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/blitz/mail-server.example
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/build.properties
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/env.bat
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/env.sh
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/hibernate.properties
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/ice.config
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/logback-cli.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/logback-indexing-cli.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/logback-indexing.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/logback.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/mime.types
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/node1.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/node2.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/omero.properties
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/profiles/psql
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/rollover.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/Windows.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/error/maintainance.html
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/grid/README
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/grid/default.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/grid/templates.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/grid/windefault.xml
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/ice.config
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/internal.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/master.cfg
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/templates/robot.template
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/etc/testdropbox.config
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/history.rst
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/OMEZarrReader.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/activation.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/aggdesigner-algorithm.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/aircompressor.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/annotations.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/antlr.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/aopalliance.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/avatica-core.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/avatica-metrics.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/aws-java-sdk-core.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/aws-java-sdk-kms.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/aws-java-sdk-s3.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/base.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-all.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-anim.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-awt-util.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-bridge.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-codec.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-constants.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-css.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-dom.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-ext.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-extension.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-gui-util.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-gvt.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-i18n.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-parser.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-rasterizer-ext.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-rasterizer.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-script.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-slideshow.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-squiggle-ext.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-squiggle.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-svg-dom.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-svgbrowser.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-svggen.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-svgpp.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-svgrasterizer.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-swing.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-transcoder.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-ttf2svg.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-util.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/batik-xml.jar
05:37:34 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/lib/client/btm.jar
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05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/psql-header.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/schema.sql
05:37:37 inflating: OMERO.server-5.6.3-456-f824c5f0bb-ice36/sql/psql/OMERO5.4__0/views.sql
05:37:37 + rm -f OMERO.server-5.6.3-456-f824c5f0bb-ice36.zip
05:37:38 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-456-f824c5f0bb-ice36 /home/omero/workspace/OMERO-server/OMERO.server
05:37:38 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
05:37:38 ++ deactivate nondestructive
05:37:38 ++ '[' -n '' ']'
05:37:38 ++ '[' -n '' ']'
05:37:38 ++ '[' -n /bin/bash -o -n '' ']'
05:37:38 ++ hash -r
05:37:38 ++ '[' -n '' ']'
05:37:38 ++ unset VIRTUAL_ENV
05:37:38 ++ '[' '!' nondestructive = nondestructive ']'
05:37:38 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
05:37:38 ++ export VIRTUAL_ENV
05:37:38 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:37:38 ++ 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
05:37:38 ++ export PATH
05:37:38 ++ '[' -n '' ']'
05:37:38 ++ '[' -z '' ']'
05:37:38 ++ _OLD_VIRTUAL_PS1=
05:37:38 ++ PS1='(.venv3) '
05:37:38 ++ export PS1
05:37:38 ++ '[' -n /bin/bash -o -n '' ']'
05:37:38 ++ hash -r
05:37:38 + 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
05:37:38 Collecting zeroc-ice==3.6.5
05:37:39 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)
05:37:41 Installing collected packages: zeroc-ice
05:37:42 Successfully installed zeroc-ice-3.6.5
05:37:42 + pip install -U pip future
05:37:42 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
05:37:42 Collecting pip
05:37:42 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
05:37:43 Collecting future
05:37:43 Using cached future-1.0.0-py3-none-any.whl (491 kB)
05:37:43 Installing collected packages: pip, future
05:37:43 Attempting uninstall: pip
05:37:43 Found existing installation: pip 21.2.3
05:37:43 Uninstalling pip-21.2.3:
05:37:43 Successfully uninstalled pip-21.2.3
05:37:45 Successfully installed future-1.0.0 pip-24.0
05:37:45 + pip install markdown
05:37:46 Collecting markdown
05:37:46 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
05:37:46 Collecting importlib-metadata>=4.4 (from markdown)
05:37:46 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
05:37:46 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
05:37:46 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
05:37:47 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
05:37:47 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
05:37:47 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
05:37:47 Installing collected packages: zipp, importlib-metadata, markdown
05:37:47 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
05:37:47 + pip install reportlab
05:37:48 Collecting reportlab
05:37:48 Using cached reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
05:37:48 Collecting pillow>=9.0.0 (from reportlab)
05:37:48 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
05:37:48 Collecting chardet (from reportlab)
05:37:48 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
05:37:48 Using cached reportlab-4.2.0-py3-none-any.whl (1.9 MB)
05:37:48 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
05:37:48 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
05:37:49 Installing collected packages: pillow, chardet, reportlab
05:37:50 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
05:37:50 + pip install omego
05:37:52 Collecting omego
05:37:52 Using cached omego-0.7.0-py3-none-any.whl
05:37:52 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
05:37:52 Collecting yaclifw>=0.1.1 (from omego)
05:37:52 Using cached yaclifw-0.2.0-py3-none-any.whl
05:37:52 Collecting six (from yaclifw>=0.1.1->omego)
05:37:52 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
05:37:52 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
05:37:52 Installing collected packages: six, yaclifw, omego
05:37:52 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
05:37:52 + pip install tables
05:37:53 Collecting tables
05:37:53 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
05:37:54 Collecting numpy>=1.19.0 (from tables)
05:37:54 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
05:37:54 Collecting numexpr>=2.6.2 (from tables)
05:37:54 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
05:37:54 Collecting packaging (from tables)
05:37:54 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
05:37:54 Collecting py-cpuinfo (from tables)
05:37:54 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
05:37:54 Collecting blosc2>=2.3.0 (from tables)
05:37:54 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
05:37:54 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
05:37:54 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
05:37:54 Collecting msgpack (from blosc2>=2.3.0->tables)
05:37:54 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
05:37:54 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
05:37:54 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
05:37:54 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
05:37:54 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
05:37:55 Using cached packaging-24.0-py3-none-any.whl (53 kB)
05:37:55 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
05:37:55 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
05:37:55 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
05:37:55 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
05:37:59 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
05:37:59 + pip install jinja2
05:38:00 Collecting jinja2
05:38:00 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
05:38:00 Collecting MarkupSafe>=2.0 (from jinja2)
05:38:00 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
05:38:00 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
05:38:00 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
05:38:00 Installing collected packages: MarkupSafe, jinja2
05:38:00 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
05:38:01 + pip install omero-py
05:38:01 Collecting omero-py
05:38:01 Using cached omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
05:38:02 Collecting urllib3<2 (from omero-py)
05:38:02 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
05:38:02 Collecting appdirs (from omero-py)
05:38:02 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
05:38:02 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
05:38:02 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
05:38:02 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
05:38:02 Collecting PyYAML (from omero-py)
05:38:02 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
05:38:02 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
05:38:02 Collecting requests (from omero-py)
05:38:02 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
05:38:02 Collecting portalocker (from omero-py)
05:38:02 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
05:38:02 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
05:38:02 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
05:38:02 Collecting idna<4,>=2.5 (from requests->omero-py)
05:38:02 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
05:38:02 Collecting certifi>=2017.4.17 (from requests->omero-py)
05:38:02 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
05:38:02 Using cached omero_py-5.19.1-py3-none-any.whl (2.8 MB)
05:38:03 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
05:38:03 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
05:38:03 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
05:38:03 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
05:38:03 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
05:38:03 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
05:38:03 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
05:38:03 Using cached idna-3.7-py3-none-any.whl (66 kB)
05:38:03 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
05:38:07 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
05:38:07 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
05:38:08 Collecting omero-metadata
05:38:08 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-920t6pl9/omero-metadata_8924d0f586c64befb046ef905afc3c54
05:38:08 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-920t6pl9/omero-metadata_8924d0f586c64befb046ef905afc3c54
05:38:09 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 8ebacd63f0a49fd2c4caacd50bf684eacacd71b9
05:38:09 Installing build dependencies: started
05:38:11 Installing build dependencies: finished with status 'done'
05:38:11 Getting requirements to build wheel: started
05:38:12 Getting requirements to build wheel: finished with status 'done'
05:38:12 Installing backend dependencies: started
05:38:13 Installing backend dependencies: finished with status 'done'
05:38:13 Preparing metadata (pyproject.toml): started
05:38:13 Preparing metadata (pyproject.toml): finished with status 'done'
05:38:13 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
05:38:13 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
05:38:13 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
05:38:14 Collecting pandas (from omero-metadata)
05:38:14 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
05:38:14 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
05:38:14 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
05:38:14 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
05:38:14 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
05:38:14 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)
05:38:14 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)
05:38:14 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
05:38:14 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
05:38:14 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
05:38:14 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
05:38:14 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
05:38:14 Collecting pytz>=2020.1 (from pandas->omero-metadata)
05:38:14 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
05:38:14 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
05:38:14 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
05:38:14 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)
05:38:14 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)
05:38:14 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)
05:38:14 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)
05:38:14 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
05:38:14 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
05:38:14 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
05:38:14 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
05:38:14 Building wheels for collected packages: omero-metadata
05:38:15 Building wheel for omero-metadata (pyproject.toml): started
05:38:15 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
05:38:15 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=574213cfcfc280eb04eeb2dacaf52b4381244f15fe710d990ad496c60939f03b
05:38:15 Stored in directory: /tmp/pip-ephem-wheel-cache-ltwfs6ng/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
05:38:15 Successfully built omero-metadata
05:38:15 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
05:38:22 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
05:38:23 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
05:38:23 Collecting omero-cli-render
05:38:23 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-h9tp3tma/omero-cli-render_91fa2b8024c0423a8396819c9865401a
05:38:23 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-h9tp3tma/omero-cli-render_91fa2b8024c0423a8396819c9865401a
05:38:24 Running command git checkout -b merge_ci --track origin/merge_ci
05:38:25 Switched to a new branch 'merge_ci'
05:38:25 branch 'merge_ci' set up to track 'origin/merge_ci'.
05:38:25 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 9aa528b86acabc91d416c2db58e658274719bd98
05:38:25 Installing build dependencies: started
05:38:27 Installing build dependencies: finished with status 'done'
05:38:27 Getting requirements to build wheel: started
05:38:27 Getting requirements to build wheel: finished with status 'done'
05:38:27 Installing backend dependencies: started
05:38:29 Installing backend dependencies: finished with status 'done'
05:38:29 Preparing metadata (pyproject.toml): started
05:38:29 Preparing metadata (pyproject.toml): finished with status 'done'
05:38:29 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
05:38:29 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
05:38:29 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
05:38:29 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
05:38:29 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
05:38:29 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
05:38:29 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)
05:38:29 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)
05:38:29 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
05:38:29 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
05:38:29 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)
05:38:29 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)
05:38:29 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)
05:38:29 Building wheels for collected packages: omero-cli-render
05:38:29 Building wheel for omero-cli-render (pyproject.toml): started
05:38:30 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
05:38:30 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=b2a207773118ce49f0e21825b37e526550ed1eea3e98fbdb10a68c4e07675295
05:38:30 Stored in directory: /tmp/pip-ephem-wheel-cache-d_lkm7jj/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
05:38:30 Successfully built omero-cli-render
05:38:30 Installing collected packages: omero-cli-render
05:38:30 Successfully installed omero-cli-render-0.8.1.dev0
05:38:30 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
05:38:31 Collecting omero-cli-duplicate
05:38:31 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-8yekhqj_/omero-cli-duplicate_e7a7426e9fe54261b4ff8aefc7f545b4
05:38:31 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-8yekhqj_/omero-cli-duplicate_e7a7426e9fe54261b4ff8aefc7f545b4
05:38:32 Running command git checkout -b merge_ci --track origin/merge_ci
05:38:33 Switched to a new branch 'merge_ci'
05:38:33 branch 'merge_ci' set up to track 'origin/merge_ci'.
05:38:33 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit c44787f19a7c4b6b7864c352b9c65f36ac178cee
05:38:33 Installing build dependencies: started
05:38:35 Installing build dependencies: finished with status 'done'
05:38:35 Getting requirements to build wheel: started
05:38:36 Getting requirements to build wheel: finished with status 'done'
05:38:36 Installing backend dependencies: started
05:38:37 Installing backend dependencies: finished with status 'done'
05:38:37 Preparing metadata (pyproject.toml): started
05:38:37 Preparing metadata (pyproject.toml): finished with status 'done'
05:38:37 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
05:38:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
05:38:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
05:38:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
05:38:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
05:38:37 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)
05:38:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
05:38:37 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)
05:38:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
05:38:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
05:38:37 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)
05:38:37 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)
05:38:37 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)
05:38:37 Building wheels for collected packages: omero-cli-duplicate
05:38:37 Building wheel for omero-cli-duplicate (pyproject.toml): started
05:38:38 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
05:38:38 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=0b62db7cdd470d4e1e7d46d5d88e6de364900a3e6c078bc5afeac01f47f36948
05:38:38 Stored in directory: /tmp/pip-ephem-wheel-cache-_1c5296m/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
05:38:38 Successfully built omero-cli-duplicate
05:38:38 Installing collected packages: omero-cli-duplicate
05:38:38 Successfully installed omero-cli-duplicate-0.4.1.dev0
05:38:38 + pip install omero-certificates
05:38:39 Collecting omero-certificates
05:38:39 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
05:38:39 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
05:38:39 Collecting distro==1.8.0 (from omero-certificates)
05:38:39 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
05:38:39 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
05:38:39 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
05:38:39 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
05:38:39 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
05:38:39 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)
05:38:39 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
05:38:39 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)
05:38:39 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
05:38:39 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
05:38:39 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)
05:38:39 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)
05:38:39 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)
05:38:39 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
05:38:39 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
05:38:40 Installing collected packages: distro, omero-certificates
05:38:40 Successfully installed distro-1.8.0 omero-certificates-0.3.2
05:38:40 + for x in *.tar.gz
05:38:40 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
05:38:41 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
05:38:41 Installing build dependencies: started
05:38:44 Installing build dependencies: finished with status 'done'
05:38:44 Getting requirements to build wheel: started
05:38:45 Getting requirements to build wheel: finished with status 'done'
05:38:45 Installing backend dependencies: started
05:38:47 Installing backend dependencies: finished with status 'done'
05:38:47 Preparing metadata (pyproject.toml): started
05:38:47 Preparing metadata (pyproject.toml): finished with status 'done'
05:38:47 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
05:38:47 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
05:38:47 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
05:38:47 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
05:38:47 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
05:38:47 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)
05:38:47 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
05:38:47 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)
05:38:47 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
05:38:47 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
05:38:47 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)
05:38:47 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)
05:38:47 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)
05:38:47 Building wheels for collected packages: omero-dropbox
05:38:47 Building wheel for omero-dropbox (pyproject.toml): started
05:38:48 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
05:38:48 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=6a1cfb1c464f2afe40f1137f23b539b577a18964f5abdfe0a80477abc4691bcd
05:38:48 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
05:38:48 Successfully built omero-dropbox
05:38:48 Installing collected packages: omero-dropbox
05:38:48 Successfully installed omero-dropbox-5.6.3.dev0
05:38:49 + for x in *.tar.gz
05:38:49 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
05:38:49 Processing ./omero_marshal-0.9.1.dev0.tar.gz
05:38:49 Installing build dependencies: started
05:38:53 Installing build dependencies: finished with status 'done'
05:38:53 Getting requirements to build wheel: started
05:38:53 Getting requirements to build wheel: finished with status 'done'
05:38:53 Installing backend dependencies: started
05:38:54 Installing backend dependencies: finished with status 'done'
05:38:54 Preparing metadata (pyproject.toml): started
05:38:55 Preparing metadata (pyproject.toml): finished with status 'done'
05:38:55 Building wheels for collected packages: omero_marshal
05:38:55 Building wheel for omero_marshal (pyproject.toml): started
05:38:55 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
05:38:55 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=1dfc8ed3ee747c53b8f8bf59c3687e0f489cf7de9baddb283d5cf6ffa109d4c9
05:38:55 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
05:38:55 Successfully built omero_marshal
05:38:56 Installing collected packages: omero_marshal
05:38:56 Successfully installed omero_marshal-0.9.1.dev0
05:38:56 + for x in *.tar.gz
05:38:56 + pip install -U omero_py-5.19.2.dev0.tar.gz
05:38:57 Processing ./omero_py-5.19.2.dev0.tar.gz
05:38:57 Installing build dependencies: started
05:39:01 Installing build dependencies: finished with status 'done'
05:39:01 Getting requirements to build wheel: started
05:39:01 Getting requirements to build wheel: finished with status 'done'
05:39:01 Installing backend dependencies: started
05:39:03 Installing backend dependencies: finished with status 'done'
05:39:03 Preparing metadata (pyproject.toml): started
05:39:03 Preparing metadata (pyproject.toml): finished with status 'done'
05:39:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
05:39:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
05:39:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
05:39:03 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
05:39:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.3.0)
05:39:03 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
05:39:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (3.6.5)
05:39:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
05:39:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
05:39:03 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.3.2)
05:39:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.7)
05:39:03 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (2024.2.2)
05:39:03 Building wheels for collected packages: omero-py
05:39:03 Building wheel for omero-py (pyproject.toml): started
05:39:05 Building wheel for omero-py (pyproject.toml): finished with status 'done'
05:39:05 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2782056 sha256=5ab8967f4bbfc2e873d507876cf8fc772cc586564df5e08345427c0a18fa6091
05:39:05 Stored in directory: /home/omero/.cache/pip/wheels/ea/20/e5/a97f3d9612c4992136d63e55f22641013e62a9095142003978
05:39:05 Successfully built omero-py
05:39:05 Installing collected packages: omero-py
05:39:05 Attempting uninstall: omero-py
05:39:05 Found existing installation: omero-py 5.19.1
05:39:05 Uninstalling omero-py-5.19.1:
05:39:05 Successfully uninstalled omero-py-5.19.1
05:39:08 Successfully installed omero-py-5.19.2.dev0
05:39:08 + for x in *.tar.gz
05:39:08 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
05:39:08 Processing ./omero_scripts-5.8.3.dev0.tar.gz
05:39:09 Installing build dependencies: started
05:39:11 Installing build dependencies: finished with status 'done'
05:39:11 Getting requirements to build wheel: started
05:39:11 Getting requirements to build wheel: finished with status 'done'
05:39:11 Installing backend dependencies: started
05:39:13 Installing backend dependencies: finished with status 'done'
05:39:13 Preparing metadata (pyproject.toml): started
05:39:13 Preparing metadata (pyproject.toml): finished with status 'done'
05:39:13 Building wheels for collected packages: omero-scripts
05:39:13 Building wheel for omero-scripts (pyproject.toml): started
05:39:13 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
05:39:13 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=650a0592ae380a3e70b6f2f9bcdc58f8b6985ff71522e4f4f516705671ce658c
05:39:13 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
05:39:14 Successfully built omero-scripts
05:39:14 Installing collected packages: omero-scripts
05:39:14 Successfully installed omero-scripts-5.8.3.dev0
05:39:14 + for x in *.tar.gz
05:39:14 + pip install -U omero_web-5.25.1.dev0.tar.gz
05:39:15 Processing ./omero_web-5.25.1.dev0.tar.gz
05:39:15 Installing build dependencies: started
05:39:18 Installing build dependencies: finished with status 'done'
05:39:18 Getting requirements to build wheel: started
05:39:18 Getting requirements to build wheel: finished with status 'done'
05:39:18 Installing backend dependencies: started
05:39:20 Installing backend dependencies: finished with status 'done'
05:39:20 Preparing metadata (pyproject.toml): started
05:39:20 Preparing metadata (pyproject.toml): finished with status 'done'
05:39:20 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.2.dev0)
05:39:20 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
05:39:20 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
05:39:20 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
05:39:20 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
05:39:21 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
05:39:21 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
05:39:21 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
05:39:21 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
05:39:21 Collecting django-csp (from omero-web==5.25.1.dev0)
05:39:21 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
05:39:21 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
05:39:21 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
05:39:21 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
05:39:21 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
05:39:21 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)
05:39:21 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
05:39:21 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
05:39:21 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
05:39:21 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
05:39:21 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
05:39:21 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
05:39:21 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
05:39:21 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
05:39:21 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)
05:39:21 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)
05:39:21 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)
05:39:21 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)
05:39:21 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)
05:39:21 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)
05:39:21 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)
05:39:22 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
05:39:22 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
05:39:22 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)
05:39:22 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)
05:39:22 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)
05:39:22 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
05:39:22 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
05:39:22 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
05:39:22 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
05:39:22 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
05:39:22 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
05:39:22 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
05:39:22 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
05:39:22 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
05:39:22 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
05:39:22 Building wheels for collected packages: omero-web
05:39:22 Building wheel for omero-web (pyproject.toml): started
05:39:24 Building wheel for omero-web (pyproject.toml): finished with status 'done'
05:39:24 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2770170 sha256=fd6a08f9e373d9f30b7c8369c745bdb26fcac4e481b6e14823274cc0e6d970a3
05:39:24 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
05:39:24 Successfully built omero-web
05:39:24 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
05:39:27 Successfully installed Django-4.2.11 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
05:39:27 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
05:39:28 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
05:39:28 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
05:39:28 --2024-04-23 05:39:28-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
05:39:28 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.108.133, 185.199.109.133, ...
05:39:28 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
05:39:29 HTTP request sent, awaiting response... 200 OK
05:39:29 Length: 94637 (92K) [text/plain]
05:39:29 Saving to: ‘Figure_To_Pdf.py’
05:39:29
05:39:29 0K .......... .......... .......... .......... .......... 54% 1.15M 0s
05:39:29 50K .......... .......... .......... .......... .. 100% 1.98M=0.06s
05:39:29
05:39:29 2024-04-23 05:39:29 (1.42 MB/s) - ‘Figure_To_Pdf.py’ saved [94637/94637]
05:39:29
05:39:29 + chmod 755 Figure_To_Pdf.py
05:39:29 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
05:39:29 + omero config set omero.db.name OMERO-server
05:39:32 + omero config set omero.db.host pg
05:39:34 + omero config set omero.db.user postgres
05:39:36 + omero config set omero.data.dir /home/omero/omero-server-data
05:39:38 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
05:39:41 + omero config set omero.db.poolsize 25
05:39:43 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
05:39:45 + omero config set omero.security.trustStorePassword changeit
05:39:47 + omero config set omero.mail.config true
05:39:50 + omero config set omero.mail.from qa@openmicroscopy.org.uk
05:39:52 + omero config set omero.mail.host smtp.dundee.ac.uk
05:39:53 + omero certificates
05:39:55 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
05:39:55 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
05:39:56 + '[' false = true ']'
05:39:56 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
05:39:56 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
05:39:56 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG dbcommand => upgrade
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG dbhost => localhost
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG dbname => OMERO-server
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG dbpass => omero
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG dbuser => omero
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG rootpass => omero
05:39:56 2024-04-23 05:39:56,314 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
05:39:56 2024-04-23 05:39:56,314 [omego.extern] INFO Executing : omero version
05:39:57 OMERO.py version:
05:39:58 OMERO.server version:
05:39:58 5.6.3-456-f824c5f0bb-ice36
05:39:58 5.19.2.dev0
05:39:58 2024-04-23 05:39:58,587 [omego.extern] INFO Completed [2.273 s]
05:39:58 2024-04-23 05:39:58,588 [omego.extern] DEBUG Using omero CLI from omero
05:39:58 2024-04-23 05:39:58,588 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
05:39:58 2024-04-23 05:39:58,588 [omego.extern] INFO Running [current environment]: omero config get --show-password
05:39:58 2024-04-23 05:39:58,588 [omego.extern] INFO Executing : omero config get --show-password
05:40:00 2024-04-23 05:40:00,767 [omego.extern] INFO Completed [2.179 s]
05:40:00 2024-04-23 05:40:00,768 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
05:40:00 2024-04-23 05:40:00,768 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
05:40:00 2024-04-23 05:40:00,973 [omego.extern] INFO Completed [0.205 s]
05:40:00 2024-04-23 05:40:00,973 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
05:40:00 2024-04-23 05:40:00,973 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
05:40:00
05:40:00 2024-04-23 05:40:00,973 [omego.extern] INFO Running [current environment]: omero config get --show-password
05:40:00 2024-04-23 05:40:00,974 [omego.extern] INFO Executing : omero config get --show-password
05:40:03 2024-04-23 05:40:03,758 [omego.extern] INFO Completed [2.784 s]
05:40:03 2024-04-23 05:40:03,759 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
05:40:03 2024-04-23 05:40:03,759 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
05:40:03 2024-04-23 05:40:03,908 [omego.extern] INFO Completed [0.149 s]
05:40:03 2024-04-23 05:40:03,909 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.6") at port "5432".\n'
05:40:03 2024-04-23 05:40:03,909 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
05:40:03 2024-04-23 05:40:03,909 [omego.extern] INFO Running [current environment]: omero config get --show-password
05:40:03 2024-04-23 05:40:03,909 [omego.extern] INFO Executing : omero config get --show-password
05:40:07 2024-04-23 05:40:07,541 [omego.extern] INFO Completed [3.632 s]
05:40:07 2024-04-23 05:40:07,542 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
05:40:07 2024-04-23 05:40:07,542 [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
05:40:07 2024-04-23 05:40:07,643 [omego.extern] INFO Completed [0.101 s]
05:40:07 2024-04-23 05:40:07,643 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
05:40:07 2024-04-23 05:40:07,643 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
05:40:07 2024-04-23 05:40:07,647 [ omego.db] INFO Database is already at OMERO5.4__0
05:40:07 + export LANG=en_US.UTF-8
05:40:07 + LANG=en_US.UTF-8
05:40:07 + export LANGUAGE=en_US:en
05:40:07 + LANGUAGE=en_US:en
05:40:07 + export LC_ALL=en_US.UTF-8
05:40:07 + LC_ALL=en_US.UTF-8
05:40:07 + BUILD_ID=DONT_KILL_ME
05:40:07 + omero admin start
05:40:29 No descriptor given. Using etc/grid/default.xml
05:41:04 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
05:41:04 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
05:41:04 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
05:41:04 Waiting on startup. Use CTRL-C to exit
05:41:05 + omero admin waitup
05:41:08 Waiting on startup. Use CTRL-C to exit
05:41:08 + omero admin diagnostics
05:41:10
05:41:10 ================================================================================
05:41:10 OMERO Diagnostics (admin)
05:41:10 ================================================================================
05:41:10
05:41:10 Commands: java -version 11.0.22 (/usr/bin/java)
05:41:10 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
05:41:10 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
05:41:10 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
05:41:11 Commands: psql --version 16.2 (/usr/bin/psql)
05:41:11 Commands: openssl version 3.0.71 (/usr/bin/openssl)
05:41:11
05:41:11 Component: OMERO.py 5.19.2.dev0
05:41:11 Component: OMERO.server 5.6.3-456-f824c5f0bb-ice36
05:41:11
05:41:11 Server: icegridnode running
05:41:11 Server: Blitz-0 active (pid = 36469, enabled)
05:41:11 Server: DropBox active (pid = 36491, enabled)
05:41:11 Server: FileServer active (pid = 36500, enabled)
05:41:11 Server: Indexer-0 active (pid = 36543, enabled)
05:41:11 Server: MonitorServer active (pid = 36503, enabled)
05:41:11 Server: OMERO.Glacier2 active (pid = 36502, enabled)
05:41:11 Server: OMERO.IceStorm active (pid = 36508, enabled)
05:41:11 Server: PixelData-0 active (pid = 36511, enabled)
05:41:11 Server: Processor-0 activating (enabled)
05:41:11 Server: Tables-0 activating (enabled)
05:41:11 Server: TestDropBox inactive (enabled)
05:41:11
05:41:11 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
05:41:11 Log files: Blitz-0.log 25.7 KB errors=0 warnings=1
05:41:11 Log files: DropBox.log 1.2 KB
05:41:11 Log files: FileServer.log 114 B
05:41:11 Log files: Indexer-0.log 2.6 KB
05:41:11 Log files: MonitorServer.log 1.1 KB
05:41:11 Log files: PixelData-0.log 3.4 KB
05:41:11 Log files: Processor-0.log 592 B
05:41:11 Log files: Tables-0.log 841 B
05:41:11 Log files: TestDropBox.log n/a
05:41:11 Log files: master.err 2.1 KB
05:41:11 Log files: master.out 41.5 KB
05:41:11 Log files: Total size 0.08 MB
05:41:11
05:41:11
05:41:11 Environment:OMERO_HOME=(unset)
05:41:11 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:41:11 Environment:OMERO_NODE=(unset)
05:41:11 Environment:OMERO_MASTER=(unset)
05:41:11 Environment:OMERO_USERDIR=(unset)
05:41:11 Environment:OMERO_TMPDIR=(unset)
05:41:11 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
05:41:11 Environment:PYTHONPATH=(unset)
05:41:11 Environment:ICE_HOME=/opt/ice-3.6.5
05:41:11 Environment:LD_LIBRARY_PATH=(unset)
05:41:11 Environment:DYLD_LIBRARY_PATH=(unset)
05:41:11
05:41:11 OMERO SSL port:4064
05:41:11 OMERO TCP port:4063
05:41:11 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
05:41:11 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
05:41:11
05:41:11 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:41:11 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:41:11 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:41:11 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:41:11
05:41:11 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 23 April 2024 529b1ea07172f91a2a0d32d9e00bd4c3b0900d04
05:41:11 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 23 April 2024 529b1ea07172f91a2a0d32d9e00bd4c3b0900d04
05:41:11 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 23 April 2024 529b1ea07172f91a2a0d32d9e00bd4c3b0900d04
05:41:11 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 23 April 2024 e8a6b1f22aeacdc5d3c9740f8bbe19e1d158bdaf
05:41:11 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 23 April 2024 e8a6b1f22aeacdc5d3c9740f8bbe19e1d158bdaf
05:41:11 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 23 April 2024 e8a6b1f22aeacdc5d3c9740f8bbe19e1d158bdaf
05:41:11 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 23 April 2024 e8a6b1f22aeacdc5d3c9740f8bbe19e1d158bdaf
05:41:11 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 23 April 2024 e8a6b1f22aeacdc5d3c9740f8bbe19e1d158bdaf
05:41:11 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 23 April 2024 e8a6b1f22aeacdc5d3c9740f8bbe19e1d158bdaf
05:41:11 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
05:41:11 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
05:41:11 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
05:41:11 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
05:41:11 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
05:41:11 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
05:41:11 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
05:41:12 + deactivate
05:41:12 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
05:41:12 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:41:12 + export PATH
05:41:12 + unset _OLD_VIRTUAL_PATH
05:41:12 + '[' -n '' ']'
05:41:12 + '[' -n /bin/bash -o -n '' ']'
05:41:12 + hash -r
05:41:12 + '[' -n '' ']'
05:41:12 + unset VIRTUAL_ENV
05:41:12 + '[' '!' '' = nondestructive ']'
05:41:12 + unset -f deactivate
05:41:12 Finished: SUCCESS
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