08:32:53 Started by upstream project "Trigger" build number 396
08:32:53 originally caused by:
08:32:53 Started by timer
08:32:53 Running as SYSTEM
08:32:53 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
08:32:54 [OMERO-server] $ /bin/bash -xe /tmp/jenkins18177884270938394362.sh
08:32:54 + source /home/settings.env
08:32:54 ++ OMERO_DB_HOST=pg
08:32:54 ++ OMERO_DB_USER=postgres
08:32:54 ++ OMERO_DB_PASS=
08:32:54 ++ OMERO_ROOT_PASS=omero
08:32:54 ++ OMERO_DATA_DIR=/OMERO
08:32:54 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
08:32:54 + OMERO_DB_NAME=OMERO-server
08:32:54 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
08:32:54 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:32:54 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:32:54 + OMERO_DATA_DIR=/home/omero/omero-server-data
08:32:54 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
08:32:54 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
08:32:54 ++ deactivate nondestructive
08:32:54 ++ '[' -n '' ']'
08:32:54 ++ '[' -n '' ']'
08:32:54 ++ '[' -n /bin/bash -o -n '' ']'
08:32:54 ++ hash -r
08:32:54 ++ '[' -n '' ']'
08:32:54 ++ unset VIRTUAL_ENV
08:32:54 ++ '[' '!' nondestructive = nondestructive ']'
08:32:54 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
08:32:54 ++ export VIRTUAL_ENV
08:32:54 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:32:54 ++ 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
08:32:54 ++ export PATH
08:32:54 ++ '[' -n '' ']'
08:32:54 ++ '[' -z '' ']'
08:32:54 ++ _OLD_VIRTUAL_PS1=
08:32:54 ++ PS1='(.venv3) '
08:32:54 ++ export PS1
08:32:54 ++ '[' -n /bin/bash -o -n '' ']'
08:32:54 ++ hash -r
08:32:54 + omero admin stop
08:33:11 Waiting on shutdown. Use CTRL-C to exit
08:33:11 .+ sleep 5
08:33:26 + deactivate
08:33:26 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
08:33:26 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:33:26 + export PATH
08:33:26 + unset _OLD_VIRTUAL_PATH
08:33:26 + '[' -n '' ']'
08:33:26 + '[' -n /bin/bash -o -n '' ']'
08:33:26 + hash -r
08:33:26 + '[' -n '' ']'
08:33:26 + unset VIRTUAL_ENV
08:33:26 + '[' '!' '' = nondestructive ']'
08:33:26 + unset -f deactivate
08:33:26 + rm -rf /home/omero/workspace/OMERO-server/.venv3
08:33:27 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
08:33:31 + '[' false = true ']'
08:33:31 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
08:33:31 Skipping PURGE_DATA:CleanDbAndRepo
08:33:31 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.1-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.7.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.29.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
08:33:44 Copied 1 artifact from "OMERO-build" build number 342
08:33:44 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 338
08:33:44 Copied 2 artifacts from "OMERO-build-build" build number 351
08:33:44 [OMERO-server] $ /bin/bash -xe /tmp/jenkins2796818139364423313.sh
08:33:44 + source /home/settings.env
08:33:44 ++ OMERO_DB_HOST=pg
08:33:44 ++ OMERO_DB_USER=postgres
08:33:44 ++ OMERO_DB_PASS=
08:33:44 ++ OMERO_ROOT_PASS=omero
08:33:44 ++ OMERO_DATA_DIR=/OMERO
08:33:44 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
08:33:44 + OMERO_DB_NAME=OMERO-server
08:33:44 + OMERO_DATA_DIR=/home/omero/omero-server-data
08:33:44 + mkdir -p /home/omero/omero-server-data
08:33:45 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
08:33:45 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:33:45 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:33:45 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
08:33:45 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
08:33:45 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
08:33:45 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
08:33:45 ++ ls OMERO.server-5.6.3-543-0d4d6a64dd-ice36.zip
08:33:45 + ZIP=OMERO.server-5.6.3-543-0d4d6a64dd-ice36.zip
08:33:45 + '[' '!' -z '' ']'
08:33:45 + DIST=OMERO.server-5.6.3-543-0d4d6a64dd-ice36
08:33:45 + unzip OMERO.server-5.6.3-543-0d4d6a64dd-ice36.zip
08:33:45 Archive: OMERO.server-5.6.3-543-0d4d6a64dd-ice36.zip
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/blitz/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/grid/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/profiles/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/error/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/grid/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/luts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/luts/janelia/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/luts/matplotlib/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/luts/ncsa_paledit/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/luts/seaborn/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/luts/wcif/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/analysis_scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/annotation_scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/export_scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/figure_scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/import_scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/scripts/omero/util_scripts/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/server/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/share/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/share/licenses/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/misc/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__1/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__10/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__11/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__2/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__3/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__4/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__5/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__6/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__7/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__8/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3A__9/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3__4/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3__5/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3__6/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO3__7/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO4.1__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO4.2__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO4.2__0/t/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO4.3__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO4.4__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO4__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.0__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.1__1/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.2__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.3__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4DEV__1/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4DEV__2/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4DEV__3/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/
08:33:45 creating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/var/
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/LICENSE.txt
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/backup.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/blitz/mail-senders.example
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/blitz/mail-server.example
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/build.properties
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/env.bat
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/env.sh
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/hibernate.properties
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/ice.config
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/logback-cli.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/logback-indexing-cli.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/logback-indexing.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/logback.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/mime.types
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/node1.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/node2.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/omero.properties
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/profiles/psql
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/rollover.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/Windows.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/error/maintainance.html
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/grid/README
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/grid/default.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/grid/templates.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/grid/windefault.xml
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/ice.config
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/internal.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/master.cfg
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/templates/robot.template
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/etc/testdropbox.config
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/history.rst
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/OMEZarrReader.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/activation.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/aggdesigner-algorithm.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/aircompressor.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/annotations.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/antlr.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/aopalliance.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/avatica-core.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/avatica-metrics.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/aws-java-sdk-core.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/aws-java-sdk-kms.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/aws-java-sdk-s3.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/base.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-all.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-anim.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-awt-util.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-bridge.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-codec.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-constants.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-css.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-dom.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-ext.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-extension.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-gui-util.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-gvt.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-i18n.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-parser.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-rasterizer-ext.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-rasterizer.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-script.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-slideshow.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-squiggle-ext.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-squiggle.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-svg-dom.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-svgbrowser.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-svggen.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-svgpp.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-svgrasterizer.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-swing.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-transcoder.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-ttf2svg.jar
08:33:45 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/lib/client/batik-util.jar
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08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/psql-header.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/schema.sql
08:33:47 inflating: OMERO.server-5.6.3-543-0d4d6a64dd-ice36/sql/psql/OMERO5.4__0/views.sql
08:33:47 + rm -f OMERO.server-5.6.3-543-0d4d6a64dd-ice36.zip
08:33:47 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-543-0d4d6a64dd-ice36 /home/omero/workspace/OMERO-server/OMERO.server
08:33:47 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
08:33:47 ++ deactivate nondestructive
08:33:47 ++ '[' -n '' ']'
08:33:47 ++ '[' -n '' ']'
08:33:47 ++ '[' -n /bin/bash -o -n '' ']'
08:33:47 ++ hash -r
08:33:47 ++ '[' -n '' ']'
08:33:47 ++ unset VIRTUAL_ENV
08:33:47 ++ '[' '!' nondestructive = nondestructive ']'
08:33:47 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
08:33:47 ++ export VIRTUAL_ENV
08:33:47 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:33:47 ++ 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
08:33:47 ++ export PATH
08:33:47 ++ '[' -n '' ']'
08:33:47 ++ '[' -z '' ']'
08:33:47 ++ _OLD_VIRTUAL_PS1=
08:33:47 ++ PS1='(.venv3) '
08:33:47 ++ export PS1
08:33:47 ++ '[' -n /bin/bash -o -n '' ']'
08:33:47 ++ hash -r
08:33:47 + 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
08:33:48 Collecting zeroc-ice==3.6.5
08:33:48 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)
08:33:50 Installing collected packages: zeroc-ice
08:33:51 Successfully installed zeroc-ice-3.6.5
08:33:51 + pip install -U pip future
08:33:51 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
08:33:51 Collecting pip
08:33:51 Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
08:33:52 Collecting future
08:33:52 Using cached future-1.0.0-py3-none-any.whl (491 kB)
08:33:52 Installing collected packages: pip, future
08:33:52 Attempting uninstall: pip
08:33:52 Found existing installation: pip 21.2.3
08:33:52 Uninstalling pip-21.2.3:
08:33:52 Successfully uninstalled pip-21.2.3
08:33:53 Successfully installed future-1.0.0 pip-25.0.1
08:33:53 + pip install markdown
08:33:54 Collecting markdown
08:33:54 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
08:33:54 Collecting importlib-metadata>=4.4 (from markdown)
08:33:54 Using cached importlib_metadata-8.6.1-py3-none-any.whl.metadata (4.7 kB)
08:33:54 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
08:33:54 Using cached zipp-3.21.0-py3-none-any.whl.metadata (3.7 kB)
08:33:54 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
08:33:54 Using cached importlib_metadata-8.6.1-py3-none-any.whl (26 kB)
08:33:54 Using cached zipp-3.21.0-py3-none-any.whl (9.6 kB)
08:33:54 Installing collected packages: zipp, importlib-metadata, markdown
08:33:55 Successfully installed importlib-metadata-8.6.1 markdown-3.7 zipp-3.21.0
08:33:55 + pip install reportlab
08:33:55 Collecting reportlab
08:33:55 Using cached reportlab-4.3.1-py3-none-any.whl.metadata (1.7 kB)
08:33:56 Collecting pillow>=9.0.0 (from reportlab)
08:33:56 Using cached pillow-11.1.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.1 kB)
08:33:56 Collecting chardet (from reportlab)
08:33:56 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
08:33:56 Using cached reportlab-4.3.1-py3-none-any.whl (1.9 MB)
08:33:56 Using cached pillow-11.1.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
08:33:56 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
08:33:56 Installing collected packages: pillow, chardet, reportlab
08:33:57 Successfully installed chardet-5.2.0 pillow-11.1.0 reportlab-4.3.1
08:33:58 + pip install omego
08:33:58 Collecting omego
08:33:58 Using cached omego-0.7.0-py3-none-any.whl
08:33:58 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
08:33:58 Collecting yaclifw>=0.1.1 (from omego)
08:33:58 Using cached yaclifw-0.2.0-py3-none-any.whl
08:33:59 Collecting six (from yaclifw>=0.1.1->omego)
08:33:59 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
08:33:59 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
08:33:59 Installing collected packages: six, yaclifw, omego
08:33:59 Successfully installed omego-0.7.0 six-1.17.0 yaclifw-0.2.0
08:33:59 + pip install tables
08:33:59 Collecting tables
08:33:59 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
08:34:00 Collecting numpy>=1.19.0 (from tables)
08:34:00 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
08:34:00 Collecting numexpr>=2.6.2 (from tables)
08:34:00 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
08:34:00 Collecting packaging (from tables)
08:34:00 Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
08:34:00 Collecting py-cpuinfo (from tables)
08:34:00 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
08:34:00 Collecting blosc2>=2.3.0 (from tables)
08:34:00 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
08:34:00 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
08:34:00 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
08:34:01 Collecting msgpack (from blosc2>=2.3.0->tables)
08:34:01 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
08:34:01 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
08:34:01 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
08:34:01 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (396 kB)
08:34:01 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
08:34:01 Using cached packaging-24.2-py3-none-any.whl (65 kB)
08:34:02 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
08:34:02 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
08:34:02 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
08:34:02 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
08:34:06 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.0.2 packaging-24.2 py-cpuinfo-9.0.0 tables-3.9.2
08:34:07 + pip install jinja2
08:34:07 Collecting jinja2
08:34:07 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
08:34:07 Collecting MarkupSafe>=2.0 (from jinja2)
08:34:07 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
08:34:07 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
08:34:07 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB)
08:34:07 Installing collected packages: MarkupSafe, jinja2
08:34:08 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.6
08:34:08 + pip install omero-py
08:34:08 Collecting omero-py
08:34:08 Using cached omero_py-5.19.6-py3-none-any.whl.metadata (6.4 kB)
08:34:08 Collecting urllib3<2 (from omero-py)
08:34:08 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
08:34:09 Collecting appdirs (from omero-py)
08:34:09 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
08:34:09 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
08:34:09 Collecting numpy<2 (from omero-py)
08:34:09 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
08:34:09 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (11.1.0)
08:34:09 Collecting PyYAML (from omero-py)
08:34:09 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
08:34:09 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
08:34:09 Collecting requests (from omero-py)
08:34:09 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
08:34:09 Collecting portalocker (from omero-py)
08:34:09 Using cached portalocker-3.1.1-py3-none-any.whl.metadata (8.6 kB)
08:34:09 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
08:34:09 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
08:34:09 Collecting idna<4,>=2.5 (from requests->omero-py)
08:34:10 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
08:34:10 Collecting certifi>=2017.4.17 (from requests->omero-py)
08:34:10 Using cached certifi-2025.1.31-py3-none-any.whl.metadata (2.5 kB)
08:34:10 Using cached omero_py-5.19.6-py3-none-any.whl (2.8 MB)
08:34:10 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
08:34:10 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
08:34:10 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
08:34:10 Using cached portalocker-3.1.1-py3-none-any.whl (19 kB)
08:34:10 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
08:34:10 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
08:34:10 Using cached certifi-2025.1.31-py3-none-any.whl (166 kB)
08:34:10 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (146 kB)
08:34:10 Using cached idna-3.10-py3-none-any.whl (70 kB)
08:34:11 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
08:34:12 Attempting uninstall: numpy
08:34:12 Found existing installation: numpy 2.0.2
08:34:12 Uninstalling numpy-2.0.2:
08:34:12 Successfully uninstalled numpy-2.0.2
08:34:16 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2025.1.31 charset-normalizer-3.4.1 idna-3.10 numpy-1.26.4 omero-py-5.19.6 portalocker-3.1.1 requests-2.32.3 urllib3-1.26.20
08:34:17 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
08:34:17 Collecting omero-metadata
08:34:17 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-9d0bitoh/omero-metadata_18c3dc4b74b54443a7e937ed238dcb1a
08:34:17 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-9d0bitoh/omero-metadata_18c3dc4b74b54443a7e937ed238dcb1a
08:34:19 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 010bd91f2ea8fa624c5e41545a18d05b3c753c48
08:34:19 Installing build dependencies: started
08:34:21 Installing build dependencies: finished with status 'done'
08:34:21 Getting requirements to build wheel: started
08:34:21 Getting requirements to build wheel: finished with status 'done'
08:34:21 Preparing metadata (pyproject.toml): started
08:34:21 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:21 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.6)
08:34:21 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
08:34:21 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.6)
08:34:22 Collecting pandas (from omero-metadata)
08:34:22 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
08:34:22 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
08:34:22 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
08:34:22 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
08:34:22 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
08:34:22 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (11.1.0)
08:34:22 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)
08:34:22 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
08:34:22 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.1.1)
08:34:22 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (3.0.2)
08:34:22 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
08:34:22 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
08:34:22 Collecting pytz>=2020.1 (from pandas->omero-metadata)
08:34:22 Using cached pytz-2025.1-py2.py3-none-any.whl.metadata (22 kB)
08:34:22 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
08:34:22 Using cached tzdata-2025.1-py2.py3-none-any.whl.metadata (1.4 kB)
08:34:22 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
08:34:22 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.1)
08:34:22 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
08:34:22 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.1.31)
08:34:22 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
08:34:22 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
08:34:22 Using cached pytz-2025.1-py2.py3-none-any.whl (507 kB)
08:34:22 Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
08:34:22 Building wheels for collected packages: omero-metadata
08:34:22 Building wheel for omero-metadata (pyproject.toml): started
08:34:23 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
08:34:23 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39249 sha256=2bef5caba5a934e9c64f171de34854abfe0ce5dc62a01b5e21bfec9d54d8cc05
08:34:23 Stored in directory: /tmp/pip-ephem-wheel-cache-5xowfw00/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
08:34:23 Successfully built omero-metadata
08:34:23 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
08:34:28 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2025.1 tzdata-2025.1
08:34:28 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
08:34:28 Collecting omero-cli-render
08:34:28 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-r4l4f4mm/omero-cli-render_8ca0b3b9e5ea462d9d4598bcbaec4099
08:34:28 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-r4l4f4mm/omero-cli-render_8ca0b3b9e5ea462d9d4598bcbaec4099
08:34:29 Running command git checkout -b merge_ci --track origin/merge_ci
08:34:30 Switched to a new branch 'merge_ci'
08:34:30 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:34:30 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit e46205a84c2122baedfa568df651ccc0ddb9b770
08:34:30 Installing build dependencies: started
08:34:31 Installing build dependencies: finished with status 'done'
08:34:31 Getting requirements to build wheel: started
08:34:31 Getting requirements to build wheel: finished with status 'done'
08:34:31 Preparing metadata (pyproject.toml): started
08:34:32 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:32 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
08:34:32 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.6)
08:34:32 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
08:34:32 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
08:34:32 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
08:34:32 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
08:34:32 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.1.0)
08:34:32 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)
08:34:32 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
08:34:32 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.1.1)
08:34:32 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.1)
08:34:32 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
08:34:32 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.1.31)
08:34:32 Building wheels for collected packages: omero-cli-render
08:34:32 Building wheel for omero-cli-render (pyproject.toml): started
08:34:32 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
08:34:32 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19566 sha256=fd8a8da5e21a42ae25e7811597967e508927f4c890717b471184c8a33bceb3be
08:34:32 Stored in directory: /tmp/pip-ephem-wheel-cache-9jmkr5lb/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
08:34:32 Successfully built omero-cli-render
08:34:32 Installing collected packages: omero-cli-render
08:34:32 Successfully installed omero-cli-render-0.8.2.dev0
08:34:32 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
08:34:33 Collecting omero-cli-duplicate
08:34:33 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-4gljqek4/omero-cli-duplicate_f7e5f66c0920469fa9a96222469e8106
08:34:33 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-4gljqek4/omero-cli-duplicate_f7e5f66c0920469fa9a96222469e8106
08:34:33 Running command git checkout -b merge_ci --track origin/merge_ci
08:34:34 Switched to a new branch 'merge_ci'
08:34:34 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:34:34 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit e4e4ef4bfad9b8216d48382b4205aa34edefa7a1
08:34:34 Installing build dependencies: started
08:34:35 Installing build dependencies: finished with status 'done'
08:34:35 Getting requirements to build wheel: started
08:34:36 Getting requirements to build wheel: finished with status 'done'
08:34:36 Preparing metadata (pyproject.toml): started
08:34:36 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:36 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.6)
08:34:36 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
08:34:36 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
08:34:36 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
08:34:36 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
08:34:36 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.1.0)
08:34:36 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
08:34:36 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)
08:34:36 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
08:34:36 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.1.1)
08:34:36 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.1)
08:34:36 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
08:34:36 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.1.31)
08:34:36 Building wheels for collected packages: omero-cli-duplicate
08:34:36 Building wheel for omero-cli-duplicate (pyproject.toml): started
08:34:36 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
08:34:36 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11508 sha256=26eb6f46f9d6ac90737e07a0be95d44a9282ce004b3620ad2662753e75b0ae67
08:34:36 Stored in directory: /tmp/pip-ephem-wheel-cache-kmnte7g3/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
08:34:36 Successfully built omero-cli-duplicate
08:34:36 Installing collected packages: omero-cli-duplicate
08:34:36 Successfully installed omero-cli-duplicate-0.4.1.dev0
08:34:36 + pip install omero-certificates
08:34:37 Collecting omero-certificates
08:34:37 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
08:34:37 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.6)
08:34:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
08:34:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
08:34:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
08:34:37 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
08:34:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (11.1.0)
08:34:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
08:34:37 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)
08:34:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
08:34:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.1.1)
08:34:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.1)
08:34:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
08:34:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.1.31)
08:34:37 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
08:34:37 Installing collected packages: omero-certificates
08:34:37 Successfully installed omero-certificates-0.4.0
08:34:37 + for x in *.tar.gz
08:34:37 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
08:34:37 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
08:34:37 Installing build dependencies: started
08:34:39 Installing build dependencies: finished with status 'done'
08:34:39 Getting requirements to build wheel: started
08:34:39 Getting requirements to build wheel: finished with status 'done'
08:34:39 Preparing metadata (pyproject.toml): started
08:34:39 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:39 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.6)
08:34:40 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
08:34:40 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
08:34:40 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
08:34:40 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
08:34:40 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.1.0)
08:34:40 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
08:34:40 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
08:34:40 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
08:34:40 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.1.1)
08:34:40 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.1)
08:34:40 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
08:34:40 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.1.31)
08:34:40 Building wheels for collected packages: omero-dropbox
08:34:40 Building wheel for omero-dropbox (pyproject.toml): started
08:34:40 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
08:34:40 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49106 sha256=e5d1e16a83d075b3b2b3bff47292cfbce488583e98f4c9b76fab99ef0d72a8ef
08:34:40 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
08:34:40 Successfully built omero-dropbox
08:34:40 Installing collected packages: omero-dropbox
08:34:40 Successfully installed omero-dropbox-5.7.1.dev0
08:34:40 + for x in *.tar.gz
08:34:40 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
08:34:40 Processing ./omero_marshal-0.9.1.dev0.tar.gz
08:34:41 Installing build dependencies: started
08:34:42 Installing build dependencies: finished with status 'done'
08:34:42 Getting requirements to build wheel: started
08:34:43 Getting requirements to build wheel: finished with status 'done'
08:34:43 Preparing metadata (pyproject.toml): started
08:34:43 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:43 Building wheels for collected packages: omero_marshal
08:34:43 Building wheel for omero_marshal (pyproject.toml): started
08:34:43 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
08:34:43 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88094 sha256=3e79b9b8fd34e207e3184bd2addda1af20823c72d8e8776136620e022d18ac20
08:34:43 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
08:34:43 Successfully built omero_marshal
08:34:43 Installing collected packages: omero_marshal
08:34:43 Successfully installed omero_marshal-0.9.1.dev0
08:34:43 + for x in *.tar.gz
08:34:43 + pip install -U omero_py-5.19.7.dev0.tar.gz
08:34:44 Processing ./omero_py-5.19.7.dev0.tar.gz
08:34:44 Installing build dependencies: started
08:34:46 Installing build dependencies: finished with status 'done'
08:34:46 Getting requirements to build wheel: started
08:34:46 Getting requirements to build wheel: finished with status 'done'
08:34:46 Preparing metadata (pyproject.toml): started
08:34:46 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:46 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.26.20)
08:34:46 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.4.4)
08:34:46 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.0.0)
08:34:46 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.26.4)
08:34:46 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (11.1.0)
08:34:46 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (6.0.2)
08:34:46 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (3.6.5)
08:34:46 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (2.32.3)
08:34:46 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (3.1.1)
08:34:46 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.7.dev0) (3.4.1)
08:34:46 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.7.dev0) (3.10)
08:34:46 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.7.dev0) (2025.1.31)
08:34:46 Building wheels for collected packages: omero-py
08:34:46 Building wheel for omero-py (pyproject.toml): started
08:34:48 Building wheel for omero-py (pyproject.toml): finished with status 'done'
08:34:48 Created wheel for omero-py: filename=omero_py-5.19.7.dev0-py3-none-any.whl size=2783368 sha256=26596df32f324f4ccf9df561597a54027efb3c708db89342dfabdd378e62bb16
08:34:48 Stored in directory: /home/omero/.cache/pip/wheels/f7/4b/64/80f70975ab0fd7430ae6a8e09a093688abe603abcb5090fc1b
08:34:48 Successfully built omero-py
08:34:48 Installing collected packages: omero-py
08:34:48 Attempting uninstall: omero-py
08:34:48 Found existing installation: omero-py 5.19.6
08:34:48 Uninstalling omero-py-5.19.6:
08:34:48 Successfully uninstalled omero-py-5.19.6
08:34:50 Successfully installed omero-py-5.19.7.dev0
08:34:50 + for x in *.tar.gz
08:34:50 + pip install -U omero_scripts-5.9.1.dev0.tar.gz
08:34:51 Processing ./omero_scripts-5.9.1.dev0.tar.gz
08:34:51 Installing build dependencies: started
08:34:53 Installing build dependencies: finished with status 'done'
08:34:53 Getting requirements to build wheel: started
08:34:53 Getting requirements to build wheel: finished with status 'done'
08:34:53 Preparing metadata (pyproject.toml): started
08:34:54 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:54 Building wheels for collected packages: omero-scripts
08:34:54 Building wheel for omero-scripts (pyproject.toml): started
08:34:54 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
08:34:54 Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136850 sha256=a7b49fe1f0b13a8baac6bcd9a9dc8185abf1bf58a58f56b832fb44ca2fc97be5
08:34:54 Stored in directory: /home/omero/.cache/pip/wheels/4d/ea/13/654c1b7c00351342c84d3e545702a0063ab8e12d260d83323c
08:34:54 Successfully built omero-scripts
08:34:54 Installing collected packages: omero-scripts
08:34:54 Successfully installed omero-scripts-5.9.1.dev0
08:34:54 + for x in *.tar.gz
08:34:54 + pip install -U omero_web-5.29.1.dev0.tar.gz
08:34:55 Processing ./omero_web-5.29.1.dev0.tar.gz
08:34:55 Installing build dependencies: started
08:34:57 Installing build dependencies: finished with status 'done'
08:34:57 Getting requirements to build wheel: started
08:34:57 Getting requirements to build wheel: finished with status 'done'
08:34:57 Preparing metadata (pyproject.toml): started
08:34:57 Preparing metadata (pyproject.toml): finished with status 'done'
08:34:57 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (5.19.7.dev0)
08:34:57 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.29.1.dev0)
08:34:57 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
08:34:57 Collecting Django<4.3,>=4.2.3 (from omero-web==5.29.1.dev0)
08:34:57 Using cached Django-4.2.20-py3-none-any.whl.metadata (4.1 kB)
08:34:58 Collecting django-pipeline (from omero-web==5.29.1.dev0)
08:34:58 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
08:34:58 Collecting django-cors-headers==3.7.0 (from omero-web==5.29.1.dev0)
08:34:58 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
08:34:58 Collecting django-csp (from omero-web==5.29.1.dev0)
08:34:58 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
08:34:58 Collecting whitenoise>=5.3.0 (from omero-web==5.29.1.dev0)
08:34:58 Using cached whitenoise-6.9.0-py3-none-any.whl.metadata (3.6 kB)
08:34:58 Collecting gunicorn>=19.3 (from omero-web==5.29.1.dev0)
08:34:58 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
08:34:58 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (0.9.1.dev0)
08:34:58 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (11.1.0)
08:34:58 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (2025.1)
08:34:58 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (3.1.1)
08:34:58 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (24.2)
08:34:58 Collecting importlib-resources (from omero-web==5.29.1.dev0)
08:34:58 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
08:34:58 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
08:34:58 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
08:34:58 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
08:34:58 Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
08:34:58 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.20)
08:34:58 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.4.4)
08:34:58 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.0.0)
08:34:58 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.4)
08:34:58 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (6.0.2)
08:34:58 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==5.29.1.dev0) (3.6.5)
08:34:58 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.32.3)
08:34:58 Requirement already satisfied: setuptools in ./.venv3/lib/python3.9/site-packages (from django-pipeline->omero-web==5.29.1.dev0) (53.0.0)
08:34:59 Collecting wheel (from django-pipeline->omero-web==5.29.1.dev0)
08:34:59 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
08:34:59 Requirement already satisfied: zipp>=3.1.0 in ./.venv3/lib/python3.9/site-packages (from importlib-resources->omero-web==5.29.1.dev0) (3.21.0)
08:34:59 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
08:34:59 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
08:34:59 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.4.1)
08:34:59 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.10)
08:34:59 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (2025.1.31)
08:34:59 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
08:34:59 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
08:34:59 Using cached Django-4.2.20-py3-none-any.whl (8.0 MB)
08:34:59 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
08:34:59 Using cached whitenoise-6.9.0-py3-none-any.whl (20 kB)
08:34:59 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
08:34:59 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
08:34:59 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
08:34:59 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
08:35:00 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
08:35:00 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
08:35:00 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
08:35:00 Building wheels for collected packages: omero-web
08:35:00 Building wheel for omero-web (pyproject.toml): started
08:35:01 Building wheel for omero-web (pyproject.toml): finished with status 'done'
08:35:01 Created wheel for omero-web: filename=omero_web-5.29.1.dev0-py3-none-any.whl size=2817454 sha256=bcd4609ca47e555f2333166889a5ddeda7406def0b75bf3b7e1414693eac3425
08:35:01 Stored in directory: /home/omero/.cache/pip/wheels/20/6a/be/a0eb92c362960a201e1b2f293382a92507134b48bed64ccadd
08:35:01 Successfully built omero-web
08:35:01 Installing collected packages: whitenoise, wheel, typing-extensions, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, django-pipeline, asgiref, Django, django-csp, django-cors-headers, omero-web
08:35:05 Successfully installed Django-4.2.20 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.29.1.dev0 sqlparse-0.5.3 typing-extensions-4.12.2 wheel-0.45.1 whitenoise-6.9.0
08:35:05 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
08:35:06 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
08:35:06 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
08:35:06 --2025-03-10 08:35:06-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
08:35:06 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.110.133, ...
08:35:06 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
08:35:06 HTTP request sent, awaiting response... 200 OK
08:35:06 Length: 115529 (113K) [text/plain]
08:35:06 Saving to: ‘Figure_To_Pdf.py’
08:35:06
08:35:06 0K .......... .......... .......... .......... .......... 44% 3.48M 0s
08:35:06 50K .......... .......... .......... .......... .......... 88% 4.88M 0s
08:35:06 100K .......... .. 100% 194M=0.02s
08:35:06
08:35:06 2025-03-10 08:35:06 (4.57 MB/s) - ‘Figure_To_Pdf.py’ saved [115529/115529]
08:35:06
08:35:06 + chmod 755 Figure_To_Pdf.py
08:35:06 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
08:35:06 + omero config set omero.db.name OMERO-server
08:35:07 + omero config set omero.db.host pg
08:35:09 + omero config set omero.db.user postgres
08:35:10 + omero config set omero.data.dir /home/omero/omero-server-data
08:35:11 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
08:35:13 + omero config set omero.db.poolsize 25
08:35:14 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
08:35:15 + omero config set omero.security.trustStorePassword changeit
08:35:17 + omero config set omero.mail.config true
08:35:18 + omero config set omero.mail.from qa@openmicroscopy.org.uk
08:35:19 + omero config set omero.mail.host smtp.dundee.ac.uk
08:35:20 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
08:35:22 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
08:35:23 + omero certificates
08:35:24 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
08:35:24 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
08:35:25 + '[' false = true ']'
08:35:25 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
08:35:25 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
08:35:25 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
08:35:25 2025-03-10 08:35:25,205 [ omego.db] DEBUG dbcommand => upgrade
08:35:25 2025-03-10 08:35:25,205 [ omego.db] DEBUG dbhost => localhost
08:35:25 2025-03-10 08:35:25,205 [ omego.db] DEBUG dbname => OMERO-server
08:35:25 2025-03-10 08:35:25,205 [ omego.db] DEBUG dbpass => omero
08:35:25 2025-03-10 08:35:25,205 [ omego.db] DEBUG dbuser => omero
08:35:25 2025-03-10 08:35:25,206 [ omego.db] DEBUG rootpass => omero
08:35:25 2025-03-10 08:35:25,206 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
08:35:25 2025-03-10 08:35:25,206 [omego.extern] INFO Executing : omero version
08:35:26 OMERO.py version:
08:35:26 OMERO.server version:
08:35:26 5.6.3-543-0d4d6a64dd-ice36
08:35:26 5.19.7.dev0
08:35:26 2025-03-10 08:35:26,587 [omego.extern] INFO Completed [1.381 s]
08:35:26 2025-03-10 08:35:26,587 [omego.extern] DEBUG Using omero CLI from omero
08:35:26 2025-03-10 08:35:26,587 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
08:35:26 2025-03-10 08:35:26,588 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:35:26 2025-03-10 08:35:26,588 [omego.extern] INFO Executing : omero config get --show-password
08:35:27 2025-03-10 08:35:27,885 [omego.extern] INFO Completed [1.297 s]
08:35:27 2025-03-10 08:35:27,885 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:35:27 2025-03-10 08:35:27,885 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
08:35:28 2025-03-10 08:35:28,383 [omego.extern] INFO Completed [0.498 s]
08:35:28 2025-03-10 08:35:28,383 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
08:35:28 2025-03-10 08:35:28,383 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4
08:35:28
08:35:28 2025-03-10 08:35:28,384 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:35:28 2025-03-10 08:35:28,384 [omego.extern] INFO Executing : omero config get --show-password
08:35:29 2025-03-10 08:35:29,664 [omego.extern] INFO Completed [1.281 s]
08:35:29 2025-03-10 08:35:29,665 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:35:29 2025-03-10 08:35:29,665 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
08:35:29 2025-03-10 08:35:29,765 [omego.extern] INFO Completed [0.100 s]
08:35:29 2025-03-10 08:35:29,765 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.7") at port "5432".\n'
08:35:29 2025-03-10 08:35:29,765 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
08:35:29 2025-03-10 08:35:29,765 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:35:29 2025-03-10 08:35:29,766 [omego.extern] INFO Executing : omero config get --show-password
08:35:31 2025-03-10 08:35:31,050 [omego.extern] INFO Completed [1.284 s]
08:35:31 2025-03-10 08:35:31,050 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:35:31 2025-03-10 08:35:31,050 [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
08:35:31 2025-03-10 08:35:31,184 [omego.extern] INFO Completed [0.134 s]
08:35:31 2025-03-10 08:35:31,185 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
08:35:31 2025-03-10 08:35:31,185 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
08:35:31 2025-03-10 08:35:31,187 [ omego.db] INFO Database is already at OMERO5.4__0
08:35:31 + export LANG=en_US.UTF-8
08:35:31 + LANG=en_US.UTF-8
08:35:31 + export LANGUAGE=en_US:en
08:35:31 + LANGUAGE=en_US:en
08:35:31 + export LC_ALL=en_US.UTF-8
08:35:31 + LC_ALL=en_US.UTF-8
08:35:31 + BUILD_ID=DONT_KILL_ME
08:35:31 + omero admin start
08:35:41 No descriptor given. Using etc/grid/default.xml
08:35:52 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
08:35:52 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
08:35:52 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
08:35:52 Waiting on startup. Use CTRL-C to exit
08:35:52 + omero admin waitup
08:35:53 Waiting on startup. Use CTRL-C to exit
08:35:54 + omero admin diagnostics
08:35:55
08:35:55 ================================================================================
08:35:55 OMERO Diagnostics (admin)
08:35:55 ================================================================================
08:35:55
08:35:55 Commands: java -version 11.0.24 (/usr/bin/java)
08:35:55 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
08:35:55 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
08:35:55 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
08:35:55 Commands: psql --version 16.4 (/usr/bin/psql)
08:35:55 Commands: openssl version 3.0.71 (/usr/bin/openssl)
08:35:55
08:35:55 Component: OMERO.py 5.19.7.dev0
08:35:55 Component: OMERO.server 5.6.3-543-0d4d6a64dd-ice36
08:35:55
08:35:55 Server: icegridnode running
08:35:55 Server: Blitz-0 active (pid = 53920, enabled)
08:35:55 Server: Indexer-0 activating (enabled)
08:35:55 Server: OMERO.Glacier2 active (pid = 53946, enabled)
08:35:55 Server: OMERO.IceStorm active (pid = 53973, enabled)
08:35:55 Server: Processor-0 active (pid = 53953, enabled)
08:35:55 Server: Tables-0 active (pid = 53970, enabled)
08:35:55
08:35:55 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
08:35:55 Log files: Blitz-0.log 32.9 KB errors=0 warnings=1
08:35:55 Log files: DropBox.log n/a
08:35:55 Log files: FileServer.log n/a
08:35:55 Log files: Indexer-0.log 478 B
08:35:55 Log files: MonitorServer.log n/a
08:35:55 Log files: Processor-0.log 735 B
08:35:55 Log files: Tables-0.log 961 B
08:35:55 Log files: TestDropBox.log n/a
08:35:55 Log files: master.err 24.7 KB
08:35:55 Log files: master.out 30.5 KB
08:35:55 Log files: Total size 0.09 MB
08:35:55
08:35:55
08:35:55 Environment:OMERO_HOME=(unset)
08:35:55 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:35:55 Environment:OMERO_NODE=(unset)
08:35:55 Environment:OMERO_MASTER=(unset)
08:35:55 Environment:OMERO_USERDIR=(unset)
08:35:55 Environment:OMERO_TMPDIR=(unset)
08:35:55 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
08:35:55 Environment:PYTHONPATH=(unset)
08:35:55 Environment:ICE_HOME=/opt/ice-3.6.5
08:35:55 Environment:LD_LIBRARY_PATH=(unset)
08:35:55 Environment:DYLD_LIBRARY_PATH=(unset)
08:35:55
08:35:55 OMERO SSL port:4064
08:35:55 OMERO TCP port:4063
08:35:55 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
08:35:55 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
08:35:55
08:35:55 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:35:55 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:35:55 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:35:55 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:35:56
08:35:56 Jar: lib/server/formats-api.jar Bio-Formats API 8.2.0-SNAPSHOT 10 March 2025 eed9600cbc0f5595a832b50cb92cafb6a14b8cc2
08:35:56 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.2.0-SNAPSHOT 10 March 2025 eed9600cbc0f5595a832b50cb92cafb6a14b8cc2
08:35:56 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.2.0-SNAPSHOT 10 March 2025 eed9600cbc0f5595a832b50cb92cafb6a14b8cc2
08:35:56 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 10 March 2025 b6193e53a9b13412f16366e7155b6050d126c49c
08:35:56 Jar: lib/server/ome-common.jar OME Common Java 6.0.26-SNAPSHOT 10 March 2025 b6193e53a9b13412f16366e7155b6050d126c49c
08:35:56 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 10 March 2025 b6193e53a9b13412f16366e7155b6050d126c49c
08:35:56 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 10 March 2025 b6193e53a9b13412f16366e7155b6050d126c49c
08:35:56 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 10 March 2025 b6193e53a9b13412f16366e7155b6050d126c49c
08:35:56 Jar: lib/server/ome-xml.jar OME XML library 6.5.0-SNAPSHOT 10 March 2025 b6193e53a9b13412f16366e7155b6050d126c49c
08:35:56 Jar: lib/server/omero-blitz.jar jar 5.8.1-SNAPSHOT
08:35:56 Jar: lib/server/omero-common.jar jar 5.7.1-SNAPSHOT
08:35:56 Jar: lib/server/omero-gateway.jar jar 5.10.1-SNAPSHOT
08:35:56 Jar: lib/server/omero-model.jar jar 5.7.1-SNAPSHOT
08:35:56 Jar: lib/server/omero-renderer.jar jar 5.6.1-SNAPSHOT
08:35:56 Jar: lib/server/omero-romio.jar jar 5.8.1-SNAPSHOT
08:35:56 Jar: lib/server/omero-server.jar jar 5.7.1-SNAPSHOT
08:35:56 + deactivate
08:35:56 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
08:35:56 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:35:56 + export PATH
08:35:56 + unset _OLD_VIRTUAL_PATH
08:35:56 + '[' -n '' ']'
08:35:56 + '[' -n /bin/bash -o -n '' ']'
08:35:56 + hash -r
08:35:56 + '[' -n '' ']'
08:35:56 + unset VIRTUAL_ENV
08:35:56 + '[' '!' '' = nondestructive ']'
08:35:56 + unset -f deactivate
08:35:56 Finished: SUCCESS
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