00:44:01 Started by upstream project "Trigger" build number 440
00:44:01 originally caused by:
00:44:01 Started by timer
00:44:01 Running as SYSTEM
00:44:01 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:44:01 [OMERO-server] $ /bin/bash -xe /tmp/jenkins11873590228584525307.sh
00:44:01 + source /home/settings.env
00:44:01 ++ OMERO_DB_HOST=pg
00:44:01 ++ OMERO_DB_USER=postgres
00:44:01 ++ OMERO_DB_PASS=
00:44:01 ++ OMERO_ROOT_PASS=omero
00:44:01 ++ OMERO_DATA_DIR=/OMERO
00:44:01 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:44:01 + OMERO_DB_NAME=OMERO-server
00:44:01 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:44:01 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:44:01 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:44:01 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:44:01 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:44:01 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:44:01 ++ deactivate nondestructive
00:44:01 ++ '[' -n '' ']'
00:44:01 ++ '[' -n '' ']'
00:44:01 ++ hash -r
00:44:01 ++ '[' -n '' ']'
00:44:01 ++ unset VIRTUAL_ENV
00:44:01 ++ unset VIRTUAL_ENV_PROMPT
00:44:01 ++ '[' '!' nondestructive = nondestructive ']'
00:44:01 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:44:01 ++ export VIRTUAL_ENV
00:44:01 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:44:01 ++ 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
00:44:01 ++ export PATH
00:44:01 ++ '[' -n '' ']'
00:44:01 ++ '[' -z '' ']'
00:44:01 ++ _OLD_VIRTUAL_PS1=
00:44:01 ++ PS1='(.venv3) '
00:44:01 ++ export PS1
00:44:01 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:44:01 ++ export VIRTUAL_ENV_PROMPT
00:44:01 ++ hash -r
00:44:01 + omero admin stop
00:44:02 Waiting on shutdown. Use CTRL-C to exit
00:44:02 .+ sleep 5
00:44:17 + deactivate
00:44:17 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:44:17 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:44:17 + export PATH
00:44:17 + unset _OLD_VIRTUAL_PATH
00:44:17 + '[' -n '' ']'
00:44:17 + hash -r
00:44:17 + '[' -n '' ']'
00:44:17 + unset VIRTUAL_ENV
00:44:17 + unset VIRTUAL_ENV_PROMPT
00:44:17 + '[' '!' '' = nondestructive ']'
00:44:17 + unset -f deactivate
00:44:17 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:44:18 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
00:44:21 + '[' false = true ']'
00:44:21 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:44:21 Skipping PURGE_DATA:CleanDbAndRepo
00:44:21 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.3-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-5.20.1.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
00:44:24 Copied 1 artifact from "OMERO-build" build number 382
00:44:24 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 374
00:44:24 Copied 2 artifacts from "OMERO-build-build" build number 399
00:44:24 [OMERO-server] $ /bin/bash -xe /tmp/jenkins9144053305973382619.sh
00:44:24 + source /home/settings.env
00:44:24 ++ OMERO_DB_HOST=pg
00:44:24 ++ OMERO_DB_USER=postgres
00:44:24 ++ OMERO_DB_PASS=
00:44:24 ++ OMERO_ROOT_PASS=omero
00:44:24 ++ OMERO_DATA_DIR=/OMERO
00:44:24 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:44:24 + OMERO_DB_NAME=OMERO-server
00:44:24 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:44:24 + mkdir -p /home/omero/omero-server-data
00:44:24 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:44:24 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:44:24 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:44:24 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:44:24 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:44:24 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:44:24 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:44:24 ++ ls OMERO.server-5.6.3-552-efb0b4a240-ice36-b382.zip
00:44:24 + ZIP=OMERO.server-5.6.3-552-efb0b4a240-ice36-b382.zip
00:44:24 + '[' '!' -z '' ']'
00:44:24 + DIST=OMERO.server-5.6.3-552-efb0b4a240-ice36-b382
00:44:24 + unzip OMERO.server-5.6.3-552-efb0b4a240-ice36-b382.zip
00:44:24 Archive: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382.zip
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/blitz/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/grid/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/profiles/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/error/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/grid/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/luts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/luts/janelia/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/luts/matplotlib/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/luts/ncsa_paledit/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/luts/seaborn/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/luts/wcif/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/analysis_scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/annotation_scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/export_scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/figure_scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/import_scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/scripts/omero/util_scripts/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/server/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/share/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/share/licenses/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/misc/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__1/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__10/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__11/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__2/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__3/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__4/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__5/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__6/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__7/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__8/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3A__9/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3__4/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3__5/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3__6/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3__7/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.1__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.2__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.2__0/t/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.3__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.4__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.0__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.1__1/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.2__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4DEV__1/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4DEV__2/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4DEV__3/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/
00:44:24 creating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/var/
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/LICENSE.txt
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/backup.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/blitz/mail-senders.example
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/blitz/mail-server.example
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/build.properties
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/env.bat
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/env.sh
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/hibernate.properties
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/ice.config
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/logback-cli.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/logback-indexing-cli.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/logback-indexing.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/logback.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/mime.types
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/node1.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/node2.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/omero.properties
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/profiles/psql
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/rollover.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/Windows.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/error/maintainance.html
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/grid/README
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/grid/default.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/grid/templates.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/grid/windefault.xml
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/ice.config
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/internal.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/master.cfg
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/templates/robot.template
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/etc/testdropbox.config
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/history.rst
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/OMEZarrReader.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/activation.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/aggdesigner-algorithm.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/aircompressor.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/annotations.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/antlr.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/aopalliance.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/avatica-core.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/avatica-metrics.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/aws-java-sdk-core.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/aws-java-sdk-kms.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/aws-java-sdk-s3.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/base.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-all.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-anim.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-awt-util.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-bridge.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-codec.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-constants.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-css.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-dom.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-ext.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-extension.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-gui-util.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-gvt.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-i18n.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-parser.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-rasterizer-ext.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-rasterizer.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-script.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-slideshow.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-squiggle-ext.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-squiggle.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-svg-dom.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-svgbrowser.jar
00:44:24 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/lib/client/batik-svggen.jar
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00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO3__7/OMERO3__6.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.1__0/OMERO4__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO4__0/OMERO3A__11.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/psql-footer.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/psql-header.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/schema.sql
00:44:26 inflating: OMERO.server-5.6.3-552-efb0b4a240-ice36-b382/sql/psql/OMERO5.4__0/views.sql
00:44:26 + rm -f OMERO.server-5.6.3-552-efb0b4a240-ice36-b382.zip
00:44:26 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-552-efb0b4a240-ice36-b382 /home/omero/workspace/OMERO-server/OMERO.server
00:44:26 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:44:26 ++ deactivate nondestructive
00:44:26 ++ '[' -n '' ']'
00:44:26 ++ '[' -n '' ']'
00:44:26 ++ hash -r
00:44:26 ++ '[' -n '' ']'
00:44:26 ++ unset VIRTUAL_ENV
00:44:26 ++ unset VIRTUAL_ENV_PROMPT
00:44:26 ++ '[' '!' nondestructive = nondestructive ']'
00:44:26 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:44:26 ++ export VIRTUAL_ENV
00:44:26 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:44:26 ++ 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
00:44:26 ++ export PATH
00:44:26 ++ '[' -n '' ']'
00:44:26 ++ '[' -z '' ']'
00:44:26 ++ _OLD_VIRTUAL_PS1=
00:44:26 ++ PS1='(.venv3) '
00:44:26 ++ export PS1
00:44:26 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:44:26 ++ export VIRTUAL_ENV_PROMPT
00:44:26 ++ hash -r
00:44:26 + pip install -U pip
00:44:27 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
00:44:27 Collecting pip
00:44:27 Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
00:44:27 Installing collected packages: pip
00:44:27 Attempting uninstall: pip
00:44:27 Found existing installation: pip 22.3.1
00:44:27 Uninstalling pip-22.3.1:
00:44:27 Successfully uninstalled pip-22.3.1
00:44:28 Successfully installed pip-25.0.1
00:44:28 WARNING: There was an error checking the latest version of pip.
00:44:28 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
00:44:29 Collecting zeroc-ice==3.6.5
00:44:29 Downloading https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
00:44:32 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 12.1 MB/s eta 0:00:00
00:44:32 Installing collected packages: zeroc-ice
00:44:33 Successfully installed zeroc-ice-3.6.5
00:44:33 + pip install markdown
00:44:34 Collecting markdown
00:44:34 Using cached markdown-3.8-py3-none-any.whl.metadata (5.1 kB)
00:44:34 Using cached markdown-3.8-py3-none-any.whl (106 kB)
00:44:34 Installing collected packages: markdown
00:44:34 Successfully installed markdown-3.8
00:44:34 + pip install reportlab
00:44:34 Collecting reportlab
00:44:34 Using cached reportlab-4.3.1-py3-none-any.whl.metadata (1.7 kB)
00:44:35 Collecting pillow>=9.0.0 (from reportlab)
00:44:35 Using cached pillow-11.2.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (8.9 kB)
00:44:35 Collecting chardet (from reportlab)
00:44:35 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:44:35 Using cached reportlab-4.3.1-py3-none-any.whl (1.9 MB)
00:44:35 Using cached pillow-11.2.1-cp311-cp311-manylinux_2_28_x86_64.whl (4.6 MB)
00:44:35 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:44:35 Installing collected packages: pillow, chardet, reportlab
00:44:37 Successfully installed chardet-5.2.0 pillow-11.2.1 reportlab-4.3.1
00:44:37 + pip install omego
00:44:38 Collecting omego
00:44:38 Using cached omego-0.7.0-py3-none-any.whl
00:44:38 Collecting future (from omego)
00:44:38 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
00:44:38 Collecting yaclifw>=0.1.1 (from omego)
00:44:38 Using cached yaclifw-0.2.0-py3-none-any.whl
00:44:38 Collecting six (from yaclifw>=0.1.1->omego)
00:44:38 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:44:38 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:44:38 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:44:38 Installing collected packages: six, future, yaclifw, omego
00:44:38 Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:44:38 + pip install tables
00:44:39 Collecting tables
00:44:39 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB)
00:44:39 Collecting numpy>=1.20.0 (from tables)
00:44:39 Using cached numpy-2.2.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
00:44:39 Collecting numexpr>=2.6.2 (from tables)
00:44:39 Using cached numexpr-2.10.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:44:39 Collecting packaging (from tables)
00:44:39 Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
00:44:39 Collecting py-cpuinfo (from tables)
00:44:39 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:44:39 Collecting blosc2>=2.3.0 (from tables)
00:44:39 Using cached blosc2-3.3.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.9 kB)
00:44:39 Collecting typing-extensions>=4.4.0 (from tables)
00:44:39 Using cached typing_extensions-4.13.2-py3-none-any.whl.metadata (3.0 kB)
00:44:39 Collecting ndindex (from blosc2>=2.3.0->tables)
00:44:39 Using cached ndindex-1.9.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
00:44:39 Collecting msgpack (from blosc2>=2.3.0->tables)
00:44:39 Using cached msgpack-1.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:44:39 Collecting platformdirs (from blosc2>=2.3.0->tables)
00:44:39 Using cached platformdirs-4.3.7-py3-none-any.whl.metadata (11 kB)
00:44:39 Collecting requests (from blosc2>=2.3.0->tables)
00:44:39 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:44:39 Collecting charset-normalizer<4,>=2 (from requests->blosc2>=2.3.0->tables)
00:44:39 Using cached charset_normalizer-3.4.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
00:44:39 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
00:44:39 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:44:39 Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables)
00:44:39 Using cached urllib3-2.4.0-py3-none-any.whl.metadata (6.5 kB)
00:44:39 Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables)
00:44:39 Using cached certifi-2025.1.31-py3-none-any.whl.metadata (2.5 kB)
00:44:39 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:44:39 Using cached blosc2-3.3.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:44:39 Using cached numexpr-2.10.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (398 kB)
00:44:39 Using cached numpy-2.2.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.4 MB)
00:44:39 Using cached typing_extensions-4.13.2-py3-none-any.whl (45 kB)
00:44:39 Using cached packaging-24.2-py3-none-any.whl (65 kB)
00:44:39 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:44:39 Using cached msgpack-1.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (403 kB)
00:44:39 Using cached ndindex-1.9.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (506 kB)
00:44:39 Using cached platformdirs-4.3.7-py3-none-any.whl (18 kB)
00:44:39 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:44:39 Using cached certifi-2025.1.31-py3-none-any.whl (166 kB)
00:44:39 Using cached charset_normalizer-3.4.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (143 kB)
00:44:39 Using cached idna-3.10-py3-none-any.whl (70 kB)
00:44:39 Using cached urllib3-2.4.0-py3-none-any.whl (128 kB)
00:44:40 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, charset-normalizer, certifi, requests, numexpr, blosc2, tables
00:44:43 Successfully installed blosc2-3.3.0 certifi-2025.1.31 charset-normalizer-3.4.1 idna-3.10 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.2.4 packaging-24.2 platformdirs-4.3.7 py-cpuinfo-9.0.0 requests-2.32.3 tables-3.10.2 typing-extensions-4.13.2 urllib3-2.4.0
00:44:43 + pip install jinja2
00:44:43 Collecting jinja2
00:44:43 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
00:44:43 Collecting MarkupSafe>=2.0 (from jinja2)
00:44:43 Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
00:44:43 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
00:44:43 Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (23 kB)
00:44:44 Installing collected packages: MarkupSafe, jinja2
00:44:44 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.6
00:44:44 + pip install omero-py
00:44:44 Collecting omero-py
00:44:44 Using cached omero_py-5.20.0-py3-none-any.whl.metadata (6.5 kB)
00:44:44 Collecting urllib3<2 (from omero-py)
00:44:44 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:44:44 Collecting appdirs (from omero-py)
00:44:44 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:44:44 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
00:44:44 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.2.4)
00:44:44 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (11.2.1)
00:44:44 Collecting PyYAML (from omero-py)
00:44:44 Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:44:44 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
00:44:44 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.3)
00:44:44 Collecting portalocker (from omero-py)
00:44:44 Using cached portalocker-3.1.1-py3-none-any.whl.metadata (8.6 kB)
00:44:44 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.1)
00:44:44 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.10)
00:44:44 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2025.1.31)
00:44:44 Using cached omero_py-5.20.0-py3-none-any.whl (2.8 MB)
00:44:44 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:44:44 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:44:44 Using cached portalocker-3.1.1-py3-none-any.whl (19 kB)
00:44:44 Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (762 kB)
00:44:44 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, omero-py
00:44:44 Attempting uninstall: urllib3
00:44:44 Found existing installation: urllib3 2.4.0
00:44:44 Uninstalling urllib3-2.4.0:
00:44:44 Successfully uninstalled urllib3-2.4.0
00:44:46 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 omero-py-5.20.0 portalocker-3.1.1 urllib3-1.26.20
00:44:46 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:44:47 Collecting omero-metadata
00:44:47 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-q8zs15_t/omero-metadata_f00fbe928a434bb497337668ade8fb85
00:44:47 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-q8zs15_t/omero-metadata_f00fbe928a434bb497337668ade8fb85
00:44:47 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 81d5a866b9aad209bb504263e25ff06f6f4590d5
00:44:47 Installing build dependencies: started
00:44:49 Installing build dependencies: finished with status 'done'
00:44:49 Getting requirements to build wheel: started
00:44:49 Getting requirements to build wheel: finished with status 'done'
00:44:49 Preparing metadata (pyproject.toml): started
00:44:49 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:49 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.20.0)
00:44:49 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.2)
00:44:49 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
00:44:49 Collecting pandas (from omero-metadata)
00:44:49 Using cached pandas-2.2.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
00:44:50 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:44:50 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:44:50 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:44:50 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.2.4)
00:44:50 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (11.2.1)
00:44:50 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:44:50 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
00:44:50 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.1.1)
00:44:50 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.2)
00:44:50 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:44:50 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:44:50 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:44:50 Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
00:44:50 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:44:50 Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
00:44:50 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:44:50 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.1)
00:44:50 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
00:44:50 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.1.31)
00:44:50 Using cached pandas-2.2.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:44:50 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:44:50 Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
00:44:50 Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
00:44:50 Building wheels for collected packages: omero-metadata
00:44:50 Building wheel for omero-metadata (pyproject.toml): started
00:44:50 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:44:50 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39281 sha256=84771ac19155412ecbcd6a6418aefd8eec82f3dcad3e9753953775364c364404
00:44:50 Stored in directory: /tmp/pip-ephem-wheel-cache-82lzedza/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
00:44:50 Successfully built omero-metadata
00:44:50 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:44:55 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2025.2 tzdata-2025.2
00:44:55 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:44:55 Collecting omero-cli-render
00:44:55 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-nj6728s8/omero-cli-render_9078e7acb0e74f39b7148c92f9c0b14d
00:44:55 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-nj6728s8/omero-cli-render_9078e7acb0e74f39b7148c92f9c0b14d
00:44:57 Running command git checkout -b merge_ci --track origin/merge_ci
00:44:57 Switched to a new branch 'merge_ci'
00:44:57 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:44:57 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit d5f14609bf68c8caa8510006a37c8e03df1897a9
00:44:57 Installing build dependencies: started
00:44:58 Installing build dependencies: finished with status 'done'
00:44:58 Getting requirements to build wheel: started
00:44:59 Getting requirements to build wheel: finished with status 'done'
00:44:59 Preparing metadata (pyproject.toml): started
00:44:59 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:59 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.2)
00:44:59 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.20.0)
00:44:59 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:44:59 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:44:59 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:44:59 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.2.4)
00:44:59 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.2.1)
00:44:59 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:44:59 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
00:44:59 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.1.1)
00:44:59 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.1)
00:44:59 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
00:44:59 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.1.31)
00:44:59 Building wheels for collected packages: omero-cli-render
00:44:59 Building wheel for omero-cli-render (pyproject.toml): started
00:44:59 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:44:59 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19592 sha256=c84ff631cd1045134bb109c7e7d7c0a11605b88e7d4ccaebfa3a572f0fedba94
00:44:59 Stored in directory: /tmp/pip-ephem-wheel-cache-1h652b39/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
00:44:59 Successfully built omero-cli-render
00:44:59 Installing collected packages: omero-cli-render
00:44:59 Successfully installed omero-cli-render-0.8.2.dev0
00:44:59 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:45:00 Collecting omero-cli-duplicate
00:45:00 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-t4j1u7ay/omero-cli-duplicate_a46054f5208b48039809dfaa84b0b493
00:45:00 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-t4j1u7ay/omero-cli-duplicate_a46054f5208b48039809dfaa84b0b493
00:45:00 Running command git checkout -b merge_ci --track origin/merge_ci
00:45:01 Switched to a new branch 'merge_ci'
00:45:01 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:45:01 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit eb3b089dfa5391b1b8a982a2c01fa77edc339daa
00:45:01 Installing build dependencies: started
00:45:02 Installing build dependencies: finished with status 'done'
00:45:02 Getting requirements to build wheel: started
00:45:02 Getting requirements to build wheel: finished with status 'done'
00:45:02 Preparing metadata (pyproject.toml): started
00:45:02 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:02 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.20.0)
00:45:02 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:45:02 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:45:02 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:45:02 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.2.4)
00:45:02 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.2.1)
00:45:02 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:45:02 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:45:02 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
00:45:02 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.1.1)
00:45:02 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.1)
00:45:02 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
00:45:02 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.1.31)
00:45:02 Building wheels for collected packages: omero-cli-duplicate
00:45:02 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:45:03 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:45:03 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=e22563f194eb1103f3a4aa254021051e1e66c9f7d46951fddc494c703ad8ad25
00:45:03 Stored in directory: /tmp/pip-ephem-wheel-cache-w12zk432/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
00:45:03 Successfully built omero-cli-duplicate
00:45:03 Installing collected packages: omero-cli-duplicate
00:45:03 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:45:03 + pip install omero-certificates
00:45:03 Collecting omero-certificates
00:45:03 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
00:45:03 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.20.0)
00:45:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:45:03 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:45:03 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:45:03 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.2.4)
00:45:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (11.2.1)
00:45:03 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:45:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:45:03 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
00:45:03 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.1.1)
00:45:03 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.1)
00:45:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
00:45:03 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.1.31)
00:45:03 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
00:45:03 Installing collected packages: omero-certificates
00:45:04 Successfully installed omero-certificates-0.4.0
00:45:04 + for x in *.tar.gz
00:45:04 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:45:04 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:45:04 Installing build dependencies: started
00:45:06 Installing build dependencies: finished with status 'done'
00:45:06 Getting requirements to build wheel: started
00:45:06 Getting requirements to build wheel: finished with status 'done'
00:45:06 Preparing metadata (pyproject.toml): started
00:45:06 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:06 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.20.0)
00:45:06 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:45:06 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:45:06 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:45:06 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.2.4)
00:45:06 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.2.1)
00:45:06 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:45:06 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
00:45:06 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
00:45:06 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.1.1)
00:45:06 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.1)
00:45:06 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
00:45:06 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.1.31)
00:45:06 Building wheels for collected packages: omero-dropbox
00:45:06 Building wheel for omero-dropbox (pyproject.toml): started
00:45:06 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:45:06 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49141 sha256=c833901d1534ed22f9b137e0da1962e56db2d86f560bddd6578239394c663e65
00:45:06 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
00:45:06 Successfully built omero-dropbox
00:45:06 Installing collected packages: omero-dropbox
00:45:06 Successfully installed omero-dropbox-5.7.1.dev0
00:45:06 + for x in *.tar.gz
00:45:06 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:45:07 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:45:07 Installing build dependencies: started
00:45:08 Installing build dependencies: finished with status 'done'
00:45:08 Getting requirements to build wheel: started
00:45:09 Getting requirements to build wheel: finished with status 'done'
00:45:09 Preparing metadata (pyproject.toml): started
00:45:09 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:09 Building wheels for collected packages: omero_marshal
00:45:09 Building wheel for omero_marshal (pyproject.toml): started
00:45:09 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:45:09 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88125 sha256=ccd404bcdfbfbed14f9ba1a9d2af5c75b178fe6f9eeea4bb2679a85d563f1d4d
00:45:09 Stored in directory: /home/omero/.cache/pip/wheels/c6/fe/20/4909beb8cad01183b3ea19e12252f8ddec6c22448a9830df18
00:45:09 Successfully built omero_marshal
00:45:09 Installing collected packages: omero_marshal
00:45:09 Successfully installed omero_marshal-0.9.1.dev0
00:45:09 + for x in *.tar.gz
00:45:09 + pip install -U omero_py-5.20.1.dev0.tar.gz
00:45:10 Processing ./omero_py-5.20.1.dev0.tar.gz
00:45:10 Installing build dependencies: started
00:45:12 Installing build dependencies: finished with status 'done'
00:45:12 Getting requirements to build wheel: started
00:45:12 Getting requirements to build wheel: finished with status 'done'
00:45:12 Preparing metadata (pyproject.toml): started
00:45:12 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:12 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.26.20)
00:45:12 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.4.4)
00:45:12 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.0.0)
00:45:12 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (2.2.4)
00:45:12 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (11.2.1)
00:45:12 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (6.0.2)
00:45:12 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (3.6.5)
00:45:12 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (2.32.3)
00:45:12 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (3.1.1)
00:45:12 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (3.4.1)
00:45:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (3.10)
00:45:12 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (2025.1.31)
00:45:12 Building wheels for collected packages: omero-py
00:45:12 Building wheel for omero-py (pyproject.toml): started
00:45:13 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:45:13 Created wheel for omero-py: filename=omero_py-5.20.1.dev0-py3-none-any.whl size=2783233 sha256=4d76b6d45986bb0a8ccce57b422fb90627ea280a8bb4aa87ee78ae4cb95289dc
00:45:13 Stored in directory: /home/omero/.cache/pip/wheels/32/f0/8b/0c9b8cf4f8a22d20fdbdb6d870eee959c7bb16ef86f85fd19c
00:45:13 Successfully built omero-py
00:45:13 Installing collected packages: omero-py
00:45:13 Attempting uninstall: omero-py
00:45:13 Found existing installation: omero-py 5.20.0
00:45:13 Uninstalling omero-py-5.20.0:
00:45:14 Successfully uninstalled omero-py-5.20.0
00:45:16 Successfully installed omero-py-5.20.1.dev0
00:45:16 + for x in *.tar.gz
00:45:16 + pip install -U omero_scripts-5.9.1.dev0.tar.gz
00:45:16 Processing ./omero_scripts-5.9.1.dev0.tar.gz
00:45:16 Installing build dependencies: started
00:45:18 Installing build dependencies: finished with status 'done'
00:45:18 Getting requirements to build wheel: started
00:45:18 Getting requirements to build wheel: finished with status 'done'
00:45:18 Preparing metadata (pyproject.toml): started
00:45:18 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:18 Building wheels for collected packages: omero-scripts
00:45:18 Building wheel for omero-scripts (pyproject.toml): started
00:45:18 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:45:18 Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136848 sha256=5dbc75eb4aed69da6db2d0b68108aeeb5a799ee1bb370533df5a728c413d34a2
00:45:18 Stored in directory: /home/omero/.cache/pip/wheels/5d/64/64/66c19773daf66dee2b16f9ebd49fde08680f277d4fff67beed
00:45:18 Successfully built omero-scripts
00:45:18 Installing collected packages: omero-scripts
00:45:18 Successfully installed omero-scripts-5.9.1.dev0
00:45:18 + for x in *.tar.gz
00:45:18 + pip install -U omero_web-5.29.1.dev0.tar.gz
00:45:19 Processing ./omero_web-5.29.1.dev0.tar.gz
00:45:19 Installing build dependencies: started
00:45:21 Installing build dependencies: finished with status 'done'
00:45:21 Getting requirements to build wheel: started
00:45:21 Getting requirements to build wheel: finished with status 'done'
00:45:21 Preparing metadata (pyproject.toml): started
00:45:21 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:21 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (5.20.1.dev0)
00:45:21 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.29.1.dev0)
00:45:21 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:45:21 Collecting Django<4.3,>=4.2.3 (from omero-web==5.29.1.dev0)
00:45:21 Using cached Django-4.2.20-py3-none-any.whl.metadata (4.1 kB)
00:45:22 Collecting django-pipeline (from omero-web==5.29.1.dev0)
00:45:22 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
00:45:22 Collecting django-cors-headers==3.7.0 (from omero-web==5.29.1.dev0)
00:45:22 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:45:22 Collecting django-csp (from omero-web==5.29.1.dev0)
00:45:22 Using cached django_csp-4.0-py3-none-any.whl.metadata (3.6 kB)
00:45:22 Collecting whitenoise>=5.3.0 (from omero-web==5.29.1.dev0)
00:45:22 Using cached whitenoise-6.9.0-py3-none-any.whl.metadata (3.6 kB)
00:45:22 Collecting gunicorn>=19.3 (from omero-web==5.29.1.dev0)
00:45:22 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:45:22 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (0.9.1.dev0)
00:45:22 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (11.2.1)
00:45:22 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (2025.2)
00:45:22 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (3.1.1)
00:45:22 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (24.2)
00:45:22 Collecting importlib-resources (from omero-web==5.29.1.dev0)
00:45:22 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
00:45:22 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
00:45:22 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:45:22 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
00:45:22 Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
00:45:22 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.20)
00:45:22 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.4.4)
00:45:22 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.0.0)
00:45:22 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.2.4)
00:45:22 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (6.0.2)
00:45:22 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.6.5)
00:45:22 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.32.3)
00:45:22 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.29.1.dev0) (65.5.1)
00:45:22 Collecting wheel (from django-pipeline->omero-web==5.29.1.dev0)
00:45:22 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
00:45:22 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.4.1)
00:45:22 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.10)
00:45:22 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (2025.1.31)
00:45:22 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:45:22 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:45:22 Using cached Django-4.2.20-py3-none-any.whl (8.0 MB)
00:45:22 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:45:22 Using cached whitenoise-6.9.0-py3-none-any.whl (20 kB)
00:45:22 Using cached django_csp-4.0-py3-none-any.whl (25 kB)
00:45:22 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
00:45:22 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
00:45:22 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:45:22 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
00:45:22 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
00:45:22 Building wheels for collected packages: omero-web
00:45:22 Building wheel for omero-web (pyproject.toml): started
00:45:23 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:45:23 Created wheel for omero-web: filename=omero_web-5.29.1.dev0-py3-none-any.whl size=2817949 sha256=97c507b5787e308b0d6b033808f7386d3040a4ac8821287d3ffc9ef1dcb819d8
00:45:23 Stored in directory: /home/omero/.cache/pip/wheels/b6/72/73/a29488e9ae7a2242fcfdc532a2c6f9884a34cc378eb261962a
00:45:23 Successfully built omero-web
00:45:23 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-csp, django-cors-headers, omero-web
00:45:26 Successfully installed Django-4.2.20 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-4.0 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.29.1.dev0 sqlparse-0.5.3 wheel-0.45.1 whitenoise-6.9.0
00:45:26 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:45:26 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:45:26 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:45:26 --2025-04-14 00:45:26-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:45:27 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.111.133, ...
00:45:27 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
00:45:27 HTTP request sent, awaiting response... 200 OK
00:45:27 Length: 121749 (119K) [text/plain]
00:45:27 Saving to: ‘Figure_To_Pdf.py’
00:45:27
00:45:27 0K .......... .......... .......... .......... .......... 42% 3.47M 0s
00:45:27 50K .......... .......... .......... .......... .......... 84% 5.08M 0s
00:45:27 100K .......... ........ 100% 41.7M=0.02s
00:45:27
00:45:27 2025-04-14 00:45:27 (4.82 MB/s) - ‘Figure_To_Pdf.py’ saved [121749/121749]
00:45:27
00:45:27 + chmod 755 Figure_To_Pdf.py
00:45:27 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:45:27 + omero config set omero.db.name OMERO-server
00:45:28 + omero config set omero.db.host pg
00:45:29 + omero config set omero.db.user postgres
00:45:30 + omero config set omero.data.dir /home/omero/omero-server-data
00:45:32 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:45:33 + omero config set omero.db.poolsize 25
00:45:34 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:45:35 + omero config set omero.security.trustStorePassword changeit
00:45:36 + omero config set omero.mail.config true
00:45:38 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:45:39 + omero config set omero.mail.host smtp.dundee.ac.uk
00:45:40 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:45:41 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:45:42 + omero certificates
00:45:43 OpenSSL 3.2.2 4 Jun 2024 (Library: OpenSSL 3.2.2 4 Jun 2024)
00:45:43 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:45:44 + '[' false = true ']'
00:45:44 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:45:44 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:45:44 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG dbcommand => upgrade
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG dbhost => localhost
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG dbname => OMERO-server
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG dbpass => omero
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG dbuser => omero
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG rootpass => omero
00:45:44 2025-04-14 00:45:44,212 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:45:44 2025-04-14 00:45:44,212 [omego.extern] INFO Executing : omero version
00:45:45 OMERO.py version:
00:45:45 OMERO.server version:
00:45:45 5.6.3-552-efb0b4a240-ice36-b382
00:45:45 5.20.1.dev0
00:45:45 2025-04-14 00:45:45,468 [omego.extern] INFO Completed [1.255 s]
00:45:45 2025-04-14 00:45:45,468 [omego.extern] DEBUG Using omero CLI from omero
00:45:45 2025-04-14 00:45:45,468 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:45:45 2025-04-14 00:45:45,468 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:45:45 2025-04-14 00:45:45,468 [omego.extern] INFO Executing : omero config get --show-password
00:45:46 2025-04-14 00:45:46,639 [omego.extern] INFO Completed [1.170 s]
00:45:46 2025-04-14 00:45:46,639 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:45:46 2025-04-14 00:45:46,639 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:45:46 2025-04-14 00:45:46,645 [omego.extern] INFO Completed [0.006 s]
00:45:46 2025-04-14 00:45:46,645 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.8\n'
00:45:46 2025-04-14 00:45:46,645 [ omego.db] INFO psql version: psql (PostgreSQL) 16.8
00:45:46
00:45:46 2025-04-14 00:45:46,645 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:45:46 2025-04-14 00:45:46,645 [omego.extern] INFO Executing : omero config get --show-password
00:45:47 2025-04-14 00:45:47,820 [omego.extern] INFO Completed [1.175 s]
00:45:47 2025-04-14 00:45:47,820 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:45:47 2025-04-14 00:45:47,820 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:45:47 2025-04-14 00:45:47,830 [omego.extern] INFO Completed [0.010 s]
00:45:47 2025-04-14 00:45:47,830 [ 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'
00:45:47 2025-04-14 00:45:47,830 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:45:47 2025-04-14 00:45:47,830 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:45:47 2025-04-14 00:45:47,830 [omego.extern] INFO Executing : omero config get --show-password
00:45:49 2025-04-14 00:45:49,007 [omego.extern] INFO Completed [1.177 s]
00:45:49 2025-04-14 00:45:49,007 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:45:49 2025-04-14 00:45:49,007 [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
00:45:49 2025-04-14 00:45:49,017 [omego.extern] INFO Completed [0.010 s]
00:45:49 2025-04-14 00:45:49,017 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:45:49 2025-04-14 00:45:49,017 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:45:49 2025-04-14 00:45:49,019 [ omego.db] INFO Database is already at OMERO5.4__0
00:45:49 + export LANG=en_US.UTF-8
00:45:49 + LANG=en_US.UTF-8
00:45:49 + export LANGUAGE=en_US:en
00:45:49 + LANGUAGE=en_US:en
00:45:49 + export LC_ALL=en_US.UTF-8
00:45:49 + LC_ALL=en_US.UTF-8
00:45:49 + BUILD_ID=DONT_KILL_ME
00:45:49 + omero admin start
00:45:53 No descriptor given. Using etc/grid/default.xml
00:46:01 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:46:01 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:46:01 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:46:01 Waiting on startup. Use CTRL-C to exit
00:46:02 + omero admin waitup
00:46:03 Waiting on startup. Use CTRL-C to exit
00:46:03 + omero admin diagnostics
00:46:04
00:46:04 ================================================================================
00:46:04 OMERO Diagnostics (admin)
00:46:04 ================================================================================
00:46:04
00:46:04 Commands: java -version 11.0.25 (/usr/bin/java)
00:46:04 Commands: python -V 3.11.9 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:46:04 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:46:04 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:46:04 Commands: psql --version 16.8 (/usr/bin/psql)
00:46:04 Commands: openssl version 3.2.24 (/usr/bin/openssl)
00:46:04
00:46:04 Component: OMERO.py 5.20.1.dev0
00:46:04 Component: OMERO.server 5.6.3-552-efb0b4a240-ice36-b382
00:46:04
00:46:04 Server: icegridnode running
00:46:04 Server: Blitz-0 active (pid = 66893, enabled)
00:46:04 Server: Indexer-0 activating (enabled)
00:46:04 Server: OMERO.Glacier2 active (pid = 66924, enabled)
00:46:04 Server: OMERO.IceStorm active (pid = 66951, enabled)
00:46:04 Server: Processor-0 activating (enabled)
00:46:04 Server: Tables-0 activating (enabled)
00:46:04
00:46:04 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:46:04 Log files: Blitz-0.log 23.4 KB errors=0 warnings=1
00:46:04 Log files: DropBox.log n/a
00:46:04 Log files: FileServer.log n/a
00:46:04 Log files: Indexer-0.log 114 B
00:46:04 Log files: MonitorServer.log n/a
00:46:04 Log files: Processor-0.log 281 B
00:46:04 Log files: Tables-0.log 281 B
00:46:04 Log files: TestDropBox.log n/a
00:46:04 Log files: master.err 17.5 KB
00:46:04 Log files: master.out 30.5 KB
00:46:04 Log files: Total size 0.07 MB
00:46:04
00:46:04
00:46:04 Environment:OMERO_HOME=(unset)
00:46:04 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:04 Environment:OMERO_NODE=(unset)
00:46:04 Environment:OMERO_MASTER=(unset)
00:46:04 Environment:OMERO_USERDIR=(unset)
00:46:04 Environment:OMERO_TMPDIR=(unset)
00:46:04 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
00:46:04 Environment:PYTHONPATH=(unset)
00:46:04 Environment:ICE_HOME=/opt/ice-3.6.5
00:46:04 Environment:LD_LIBRARY_PATH=(unset)
00:46:04 Environment:DYLD_LIBRARY_PATH=(unset)
00:46:04
00:46:04 OMERO SSL port:4064
00:46:04 OMERO TCP port:4063
00:46:04 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:46:04 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:46:04
00:46:04 JVM settings: Blitz-${index} -Xmx7200m
00:46:04 JVM settings: Indexer-${index} -Xmx4800m
00:46:04 JVM settings: PixelData-${index} -Xmx7200m
00:46:04 JVM settings: Repository-${index} -Xmx4800m
00:46:04
00:46:04 Jar: lib/server/formats-api.jar Bio-Formats API 8.2.0-SNAPSHOT 14 April 2025 cec0a3476d540c475842f60e8aeeb47cd001000b
00:46:04 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.2.0-SNAPSHOT 14 April 2025 cec0a3476d540c475842f60e8aeeb47cd001000b
00:46:04 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.2.0-SNAPSHOT 14 April 2025 cec0a3476d540c475842f60e8aeeb47cd001000b
00:46:04 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 14 April 2025 d122c1c4f1ae708906485ddc4b706ea963d8e6e9
00:46:04 Jar: lib/server/ome-common.jar OME Common Java 6.0.26-SNAPSHOT 14 April 2025 d122c1c4f1ae708906485ddc4b706ea963d8e6e9
00:46:04 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 14 April 2025 d122c1c4f1ae708906485ddc4b706ea963d8e6e9
00:46:04 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 14 April 2025 d122c1c4f1ae708906485ddc4b706ea963d8e6e9
00:46:04 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 14 April 2025 d122c1c4f1ae708906485ddc4b706ea963d8e6e9
00:46:04 Jar: lib/server/ome-xml.jar OME XML library 6.5.0-SNAPSHOT 14 April 2025 d122c1c4f1ae708906485ddc4b706ea963d8e6e9
00:46:04 Jar: lib/server/omero-blitz.jar jar 5.8.3-SNAPSHOT
00:46:04 Jar: lib/server/omero-common.jar jar 5.7.3-SNAPSHOT
00:46:04 Jar: lib/server/omero-gateway.jar jar 5.10.3-SNAPSHOT
00:46:04 Jar: lib/server/omero-model.jar jar 5.7.3-SNAPSHOT
00:46:04 Jar: lib/server/omero-renderer.jar jar 5.6.3-SNAPSHOT
00:46:04 Jar: lib/server/omero-romio.jar jar 5.8.3-SNAPSHOT
00:46:04 Jar: lib/server/omero-server.jar jar 5.7.3-SNAPSHOT
00:46:04 + deactivate
00:46:04 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:46:04 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:04 + export PATH
00:46:04 + unset _OLD_VIRTUAL_PATH
00:46:04 + '[' -n '' ']'
00:46:04 + hash -r
00:46:04 + '[' -n '' ']'
00:46:04 + unset VIRTUAL_ENV
00:46:04 + unset VIRTUAL_ENV_PROMPT
00:46:04 + '[' '!' '' = nondestructive ']'
00:46:04 + unset -f deactivate
00:46:04 Finished: SUCCESS
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