Console

10:09:39 Started by upstream project "Trigger" build number 23
10:09:39 originally caused by:
10:09:39  Started by user devspace
10:09:39 Running as SYSTEM
10:09:39 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
10:09:39 [OMERO-server] $ /bin/bash -xe /tmp/jenkins15932133039335046743.sh
10:09:39 + source /home/settings.env
10:09:39 ++ OMERO_DB_HOST=pg
10:09:39 ++ OMERO_DB_USER=postgres
10:09:39 ++ OMERO_DB_PASS=
10:09:39 ++ OMERO_ROOT_PASS=omero
10:09:39 ++ OMERO_DATA_DIR=/OMERO
10:09:39 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
10:09:39 + OMERO_DB_NAME=OMERO-server
10:09:39 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
10:09:39 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:09:39 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:09:39 + OMERO_DATA_DIR=/home/omero/omero-server-data
10:09:39 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
10:09:39 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
10:09:39 ++ deactivate nondestructive
10:09:39 ++ '[' -n '' ']'
10:09:39 ++ '[' -n '' ']'
10:09:39 ++ hash -r
10:09:39 ++ '[' -n '' ']'
10:09:39 ++ unset VIRTUAL_ENV
10:09:39 ++ unset VIRTUAL_ENV_PROMPT
10:09:39 ++ '[' '!' nondestructive = nondestructive ']'
10:09:39 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
10:09:39 ++ export VIRTUAL_ENV
10:09:39 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:09:39 ++ 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
10:09:39 ++ export PATH
10:09:39 ++ '[' -n '' ']'
10:09:39 ++ '[' -z '' ']'
10:09:39 ++ _OLD_VIRTUAL_PS1=
10:09:39 ++ PS1='(.venv3) '
10:09:39 ++ export PS1
10:09:39 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
10:09:39 ++ export VIRTUAL_ENV_PROMPT
10:09:39 ++ hash -r
10:09:39 + omero admin stop
10:09:56 Waiting on shutdown. Use CTRL-C to exit
10:09:56 .+ sleep 5
10:10:12 + deactivate
10:10:12 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
10:10:12 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:10:12 + export PATH
10:10:12 + unset _OLD_VIRTUAL_PATH
10:10:12 + '[' -n '' ']'
10:10:12 + hash -r
10:10:12 + '[' -n '' ']'
10:10:12 + unset VIRTUAL_ENV
10:10:12 + unset VIRTUAL_ENV_PROMPT
10:10:12 + '[' '!' '' = nondestructive ']'
10:10:12 + unset -f deactivate
10:10:12 + rm -rf /home/omero/workspace/OMERO-server/.venv3
10:13:10 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
10:13:30 + '[' false = true ']'
10:13:30 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
10:13:30 Skipping PURGE_DATA:CleanDbAndRepo
10:13:30 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.6-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.22.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.10.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.32.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
10:13:35 Copied 1 artifact from "OMERO-build" build number 14
10:13:35 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 13
10:13:36 Copied 2 artifacts from "OMERO-build-build" build number 24
10:13:36 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12734594738813898674.sh
10:13:36 + source /home/settings.env
10:13:36 ++ OMERO_DB_HOST=pg
10:13:36 ++ OMERO_DB_USER=postgres
10:13:36 ++ OMERO_DB_PASS=
10:13:36 ++ OMERO_ROOT_PASS=omero
10:13:36 ++ OMERO_DATA_DIR=/OMERO
10:13:36 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
10:13:36 + OMERO_DB_NAME=OMERO-server
10:13:36 + OMERO_DATA_DIR=/home/omero/omero-server-data
10:13:36 + mkdir -p /home/omero/omero-server-data
10:13:36 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
10:13:36 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:13:36 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:13:36 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
10:13:36 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
10:13:36 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
10:13:36 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
10:13:36 ++ ls OMERO.server-5.6.3-622-916b82979f-ice36-b14.zip
10:13:36 + ZIP=OMERO.server-5.6.3-622-916b82979f-ice36-b14.zip
10:13:36 + '[' '!' -z '' ']'
10:13:36 + DIST=OMERO.server-5.6.3-622-916b82979f-ice36-b14
10:13:36 + unzip OMERO.server-5.6.3-622-916b82979f-ice36-b14.zip
10:13:36 Archive:  OMERO.server-5.6.3-622-916b82979f-ice36-b14.zip
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/blitz/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/grid/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/profiles/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/error/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/grid/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/luts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/luts/janelia/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/luts/matplotlib/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/luts/ncsa_paledit/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/luts/seaborn/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/luts/wcif/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/analysis_scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/annotation_scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/export_scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/figure_scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/import_scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/scripts/omero/util_scripts/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/server/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/share/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/share/licenses/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/misc/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__1/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__10/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__11/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__2/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__3/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__4/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__5/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__6/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__7/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__8/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__9/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__4/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__5/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__6/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__7/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.1__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.2__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.2__0/t/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.3__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.4__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.0__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.1__1/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.2__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4DEV__1/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4DEV__2/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4DEV__3/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/var/
10:13:36    creating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/var/tmp/
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/LICENSE.txt  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/backup.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/blitz/mail-senders.example  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/blitz/mail-server.example  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/build.properties  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/env.bat  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/env.sh  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/hibernate.properties  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/ice.config  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/logback-cli.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/logback-indexing-cli.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/logback-indexing.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/logback.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/mime.types  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/node1.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/node2.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/omero.properties  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/profiles/psql  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/rollover.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/Windows.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/error/maintainance.html  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/grid/README  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/grid/default.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/grid/templates.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/grid/windefault.xml  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/ice.config  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/internal.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/master.cfg  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/templates/robot.template  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/etc/testdropbox.config  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/history.rst  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/OMEZarrReader.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/accessors-smart.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/activation.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/aggdesigner-algorithm.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/aircompressor.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/antlr.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/aopalliance.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/apiguardian-api.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/asm.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/avatica-core.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/avatica-metrics.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/aws-java-sdk-core.jar  
10:13:36   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/aws-java-sdk-kms.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/aws-java-sdk-s3.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/base.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-anim.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-awt-util.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-bridge.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-codec.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-constants.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-css.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-dom.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-ext.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-gvt.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-i18n.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-parser.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-script.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-shared-resources.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-svg-dom.jar  
10:13:37   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/lib/client/batik-svggen.jar  
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10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__6/OMERO3A__5.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__7/OMERO3A__6.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__8/OMERO3A__6.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3A__9/OMERO3A__8.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__4/OMERO3__1.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__5/OMERO3__4.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__6/OMERO3__5.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO3__7/OMERO3__6.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.1__0/OMERO4__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.2__0/OMERO4.1__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.3__0/OMERO4.2__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.4__0/OMERO4.1__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4.4__0/OMERO4.3__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO4__0/OMERO3A__11.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.0__0/OMERO4.4__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.1__1/OMERO5.0__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.1__1/OMERO5.1__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.2__0/OMERO5.1__1.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/OMERO5.2__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/delete-ns-orphans.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/OMERO5.3__0.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/OMERO5.3__1.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/psql-footer.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/psql-header.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/schema.sql  
10:13:49   inflating: OMERO.server-5.6.3-622-916b82979f-ice36-b14/sql/psql/OMERO5.4__0/views.sql  
10:13:50 + rm -f OMERO.server-5.6.3-622-916b82979f-ice36-b14.zip
10:13:50 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-622-916b82979f-ice36-b14 /home/omero/workspace/OMERO-server/OMERO.server
10:13:50 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
10:13:50 ++ deactivate nondestructive
10:13:50 ++ '[' -n '' ']'
10:13:50 ++ '[' -n '' ']'
10:13:50 ++ hash -r
10:13:50 ++ '[' -n '' ']'
10:13:50 ++ unset VIRTUAL_ENV
10:13:50 ++ unset VIRTUAL_ENV_PROMPT
10:13:50 ++ '[' '!' nondestructive = nondestructive ']'
10:13:50 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
10:13:50 ++ export VIRTUAL_ENV
10:13:50 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:13:50 ++ 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
10:13:50 ++ export PATH
10:13:50 ++ '[' -n '' ']'
10:13:50 ++ '[' -z '' ']'
10:13:50 ++ _OLD_VIRTUAL_PS1=
10:13:50 ++ PS1='(.venv3) '
10:13:50 ++ export PS1
10:13:50 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
10:13:50 ++ export VIRTUAL_ENV_PROMPT
10:13:50 ++ hash -r
10:13:50 + pip install -U pip
10:13:51 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
10:13:51 Collecting pip
10:13:51   Using cached pip-26.1.2-py3-none-any.whl (1.8 MB)
10:13:51 Installing collected packages: pip
10:13:51   Attempting uninstall: pip
10:13:51     Found existing installation: pip 22.3.1
10:13:52     Uninstalling pip-22.3.1:
10:13:52       Successfully uninstalled pip-22.3.1
10:14:05 Successfully installed pip-26.1.2
10:14:05 + 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
10:14:06 Collecting zeroc-ice==3.6.5
10:14:06   Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
10:14:09      ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 13.5 MB/s  0:00:02
10:14:09 Installing collected packages: zeroc-ice
10:14:12 Successfully installed zeroc-ice-3.6.5
10:14:12 + pip install markdown
10:14:13 Collecting markdown
10:14:13   Using cached markdown-3.10.2-py3-none-any.whl.metadata (5.1 kB)
10:14:14 Using cached markdown-3.10.2-py3-none-any.whl (108 kB)
10:14:14 Installing collected packages: markdown
10:14:14 Successfully installed markdown-3.10.2
10:14:14 + pip install reportlab
10:14:15 Collecting reportlab
10:14:15   Using cached reportlab-5.0.0-py3-none-any.whl.metadata (1.6 kB)
10:14:16 Collecting pillow>=9.0.0 (from reportlab)
10:14:16   Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
10:14:16 Collecting charset-normalizer (from reportlab)
10:14:16   Using cached charset_normalizer-3.4.9-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (41 kB)
10:14:16 Using cached reportlab-5.0.0-py3-none-any.whl (2.0 MB)
10:14:16 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
10:14:16 Using cached charset_normalizer-3.4.9-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (221 kB)
10:14:16 Installing collected packages: pillow, charset-normalizer, reportlab
10:14:24 
10:14:24 Successfully installed charset-normalizer-3.4.9 pillow-12.3.0 reportlab-5.0.0
10:14:24 + pip install omego
10:14:25 Collecting omego
10:14:25   Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
10:14:25 Collecting future (from omego)
10:14:25   Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
10:14:26 Collecting yaclifw>=0.1.1 (from omego)
10:14:26   Using cached yaclifw-0.2.0-py3-none-any.whl
10:14:26 Collecting six (from yaclifw>=0.1.1->omego)
10:14:26   Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
10:14:26 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
10:14:26 Using cached future-1.0.0-py3-none-any.whl (491 kB)
10:14:26 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
10:14:26 Installing collected packages: six, future, yaclifw, omego
10:14:31 
10:14:31 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
10:14:31 + pip install tables
10:14:32 Collecting tables
10:14:32   Using cached tables-3.11.1-cp311-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.1 kB)
10:14:32 Collecting numpy>=1.20.0 (from tables)
10:14:32   Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
10:14:32 Collecting numexpr>=2.6.2 (from tables)
10:14:33   Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
10:14:33 Collecting packaging (from tables)
10:14:33   Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
10:14:33 Collecting py-cpuinfo (from tables)
10:14:33   Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
10:14:33 Collecting blosc2>=2.3.0 (from tables)
10:14:33   Using cached blosc2-4.9.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (7.8 kB)
10:14:33 Collecting ndindex (from blosc2>=2.3.0->tables)
10:14:33   Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
10:14:33 Collecting msgpack (from blosc2>=2.3.0->tables)
10:14:33   Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
10:14:34 Collecting pydantic (from blosc2>=2.3.0->tables)
10:14:34   Using cached pydantic-2.13.4-py3-none-any.whl.metadata (109 kB)
10:14:34 Collecting httpx[http2] (from blosc2>=2.3.0->tables)
10:14:34   Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB)
10:14:34 Collecting rich (from blosc2>=2.3.0->tables)
10:14:34   Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
10:14:34 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
10:14:34   Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
10:14:34 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables)
10:14:34   Using cached anyio-4.14.2-py3-none-any.whl.metadata (4.6 kB)
10:14:35 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables)
10:14:35   Using cached certifi-2026.6.17-py3-none-any.whl.metadata (2.5 kB)
10:14:35 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables)
10:14:35   Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB)
10:14:35 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables)
10:14:35   Using cached idna-3.18-py3-none-any.whl.metadata (6.1 kB)
10:14:35 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables)
10:14:35   Using cached h2-4.3.0-py3-none-any.whl.metadata (5.1 kB)
10:14:35 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
10:14:35   Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB)
10:14:35 Collecting hpack<5,>=4.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
10:14:35   Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB)
10:14:35 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables)
10:14:36   Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
10:14:36 Collecting typing_extensions>=4.5 (from anyio->httpx[http2]->blosc2>=2.3.0->tables)
10:14:36   Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
10:14:36 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
10:14:36   Using cached annotated_types-0.7.0-py3-none-any.whl.metadata (15 kB)
10:14:37 Collecting pydantic-core==2.46.4 (from pydantic->blosc2>=2.3.0->tables)
10:14:37   Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB)
10:14:37 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables)
10:14:37   Using cached typing_inspection-0.4.2-py3-none-any.whl.metadata (2.6 kB)
10:14:37 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
10:14:37   Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
10:14:37 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
10:14:37   Using cached pygments-2.20.0-py3-none-any.whl.metadata (2.5 kB)
10:14:37 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
10:14:37   Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
10:14:37 Using cached tables-3.11.1-cp311-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (7.2 MB)
10:14:37 Using cached blosc2-4.9.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.3 MB)
10:14:37 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB)
10:14:37 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
10:14:37 Using cached httpx-0.28.1-py3-none-any.whl (73 kB)
10:14:37 Using cached h2-4.3.0-py3-none-any.whl (61 kB)
10:14:37 Using cached hpack-4.2.0-py3-none-any.whl (34 kB)
10:14:37 Using cached httpcore-1.0.9-py3-none-any.whl (78 kB)
10:14:38 Using cached hyperframe-6.1.0-py3-none-any.whl (13 kB)
10:14:38 Using cached h11-0.16.0-py3-none-any.whl (37 kB)
10:14:38 Using cached anyio-4.14.2-py3-none-any.whl (125 kB)
10:14:38 Using cached idna-3.18-py3-none-any.whl (65 kB)
10:14:38 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
10:14:38 Using cached certifi-2026.6.17-py3-none-any.whl (133 kB)
10:14:38 Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (423 kB)
10:14:38 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
10:14:38 Using cached packaging-26.2-py3-none-any.whl (100 kB)
10:14:38 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
10:14:38 Using cached pydantic-2.13.4-py3-none-any.whl (472 kB)
10:14:38 Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
10:14:38 Using cached annotated_types-0.7.0-py3-none-any.whl (13 kB)
10:14:38 Using cached typing_inspection-0.4.2-py3-none-any.whl (14 kB)
10:14:38 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
10:14:38 Using cached pygments-2.20.0-py3-none-any.whl (1.2 MB)
10:14:38 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB)
10:14:38 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
10:14:38 Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
10:14:38 Installing collected packages: py-cpuinfo, typing_extensions, threadpoolctl, pygments, packaging, numpy, ndindex, msgpack, mdurl, idna, hyperframe, hpack, h11, certifi, annotated-types, typing-inspection, pydantic-core, numexpr, markdown-it-py, httpcore, h2, anyio, rich, pydantic, httpx, blosc2, tables
10:15:28 
10:15:28 Successfully installed annotated-types-0.7.0 anyio-4.14.2 blosc2-4.9.1 certifi-2026.6.17 h11-0.16.0 h2-4.3.0 hpack-4.2.0 httpcore-1.0.9 httpx-0.28.1 hyperframe-6.1.0 idna-3.18 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.1 ndindex-1.10.1 numexpr-2.14.2 numpy-2.4.6 packaging-26.2 py-cpuinfo-9.0.0 pydantic-2.13.4 pydantic-core-2.46.4 pygments-2.20.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.6.0 typing-inspection-0.4.2 typing_extensions-4.16.0
10:15:28 + pip install jinja2
10:15:29 Collecting jinja2
10:15:29   Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
10:15:29 Collecting MarkupSafe>=2.0 (from jinja2)
10:15:29   Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.7 kB)
10:15:29 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
10:15:29 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
10:15:29 Installing collected packages: MarkupSafe, jinja2
10:15:30 
10:15:30 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
10:15:30 + pip install omero-py
10:15:31 Collecting omero-py
10:15:31   Using cached omero_py-5.22.1-py3-none-any.whl.metadata (6.5 kB)
10:15:31 Collecting appdirs (from omero-py)
10:15:31   Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
10:15:31 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
10:15:31 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
10:15:31 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
10:15:32 Collecting PyYAML (from omero-py)
10:15:32   Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.4 kB)
10:15:32 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
10:15:32 Collecting requests (from omero-py)
10:15:32   Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
10:15:32 Collecting portalocker (from omero-py)
10:15:32   Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
10:15:32 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.9)
10:15:32 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.18)
10:15:32 Collecting urllib3<3,>=1.26 (from requests->omero-py)
10:15:32   Using cached urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB)
10:15:32 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.6.17)
10:15:32 Using cached omero_py-5.22.1-py3-none-any.whl (2.8 MB)
10:15:32 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
10:15:32 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
10:15:32 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
10:15:32 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
10:15:32 Using cached urllib3-2.7.0-py3-none-any.whl (131 kB)
10:15:32 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
10:15:50 
10:15:50 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.22.1 portalocker-3.2.0 requests-2.34.2 urllib3-2.7.0
10:15:50 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
10:15:51 Collecting omero-metadata
10:15:51   Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-7g8x5_0y/omero-metadata_d368793796c64b138bbf7767df42546b
10:15:51   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-7g8x5_0y/omero-metadata_d368793796c64b138bbf7767df42546b
10:15:52   Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 54c6e058a7647350bda4cd9c86fd62716a63b02f
10:15:52   Installing build dependencies: started
10:15:54   Installing build dependencies: finished with status 'done'
10:15:54   Getting requirements to build wheel: started
10:15:54   Getting requirements to build wheel: finished with status 'done'
10:15:54   Preparing metadata (pyproject.toml): started
10:15:54   Preparing metadata (pyproject.toml): finished with status 'done'
10:15:54 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.22.1)
10:15:54 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
10:15:54 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
10:15:54 Collecting pandas (from omero-metadata)
10:15:54   Using cached pandas-3.0.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
10:15:54 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
10:15:54 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
10:15:54 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.6)
10:15:54 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (12.3.0)
10:15:54 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)
10:15:54 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
10:15:54 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
10:15:54 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
10:15:55 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
10:15:55   Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
10:15:55 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)
10:15:55 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.9)
10:15:55 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.18)
10:15:55 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.7.0)
10:15:55 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.6.17)
10:15:55 Using cached pandas-3.0.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (11.3 MB)
10:15:55 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
10:15:55 Building wheels for collected packages: omero-metadata
10:15:55   Building wheel for omero-metadata (pyproject.toml): started
10:15:55   Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
10:15:55   Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=68f70105144985c715e02c84c3724d6ad2409155f3276d3d7dead3e1e32f9073
10:15:55   Stored in directory: /tmp/pip-ephem-wheel-cache-u87mfits/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
10:15:55 Successfully built omero-metadata
10:15:55 Installing collected packages: python-dateutil, pandas, omero-metadata
10:16:33 
10:16:33 Successfully installed omero-metadata-0.13.1.dev0 pandas-3.0.3 python-dateutil-2.9.0.post0
10:16:33 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
10:16:34 Collecting omero-cli-render
10:16:34   Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-f4qogll4/omero-cli-render_756b9c7ed38e4d239ccac94e1eb8ddbe
10:16:34   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-f4qogll4/omero-cli-render_756b9c7ed38e4d239ccac94e1eb8ddbe
10:16:35   Running command git checkout -b merge_ci --track origin/merge_ci
10:16:35   Switched to a new branch 'merge_ci'
10:16:35   branch 'merge_ci' set up to track 'origin/merge_ci'.
10:16:35   Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 48a556d69df8c4f5c57158b78f4495c26be3d06f
10:16:35   Installing build dependencies: started
10:16:36   Installing build dependencies: finished with status 'done'
10:16:36   Getting requirements to build wheel: started
10:16:37   Getting requirements to build wheel: finished with status 'done'
10:16:37   Preparing metadata (pyproject.toml): started
10:16:37   Preparing metadata (pyproject.toml): finished with status 'done'
10:16:37 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
10:16:37 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.22.1)
10:16:37 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
10:16:37 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
10:16:37 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.6)
10:16:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (12.3.0)
10:16:37 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)
10:16:37 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
10:16:37 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
10:16:37 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.9)
10:16:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.18)
10:16:37 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.7.0)
10:16:37 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.6.17)
10:16:37 Building wheels for collected packages: omero-cli-render
10:16:37   Building wheel for omero-cli-render (pyproject.toml): started
10:16:37   Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
10:16:37   Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19838 sha256=10fc02bddc1553a192462a0b81636844a3e1c1a398c00df4e7862b35b152aafe
10:16:37   Stored in directory: /tmp/pip-ephem-wheel-cache-chc30e5s/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
10:16:37 Successfully built omero-cli-render
10:16:37 Installing collected packages: omero-cli-render
10:16:38 Successfully installed omero-cli-render-0.8.2.dev0
10:16:38 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
10:16:38 Collecting omero-cli-duplicate
10:16:38   Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-0_fk2uz4/omero-cli-duplicate_c9a8b997eaca458f95954ffc4a50d282
10:16:38   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-0_fk2uz4/omero-cli-duplicate_c9a8b997eaca458f95954ffc4a50d282
10:16:39   Running command git checkout -b merge_ci --track origin/merge_ci
10:16:40   Switched to a new branch 'merge_ci'
10:16:40   branch 'merge_ci' set up to track 'origin/merge_ci'.
10:16:40   Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit a91c56209a0843bf624613c407fd16e1101baf94
10:16:40   Installing build dependencies: started
10:16:41   Installing build dependencies: finished with status 'done'
10:16:41   Getting requirements to build wheel: started
10:16:41   Getting requirements to build wheel: finished with status 'done'
10:16:41   Preparing metadata (pyproject.toml): started
10:16:42   Preparing metadata (pyproject.toml): finished with status 'done'
10:16:42 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.22.1)
10:16:42 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
10:16:42 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
10:16:42 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
10:16:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (12.3.0)
10:16:42 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
10:16:42 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)
10:16:42 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
10:16:42 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
10:16:42 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.9)
10:16:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.18)
10:16:42 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.7.0)
10:16:42 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.6.17)
10:16:42 Building wheels for collected packages: omero-cli-duplicate
10:16:42   Building wheel for omero-cli-duplicate (pyproject.toml): started
10:16:42   Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
10:16:42   Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11538 sha256=27fa6d97610b7693c048be7d7514e2db82472da54556504209b19041435d0125
10:16:42   Stored in directory: /tmp/pip-ephem-wheel-cache-hz6gd6o9/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
10:16:42 Successfully built omero-cli-duplicate
10:16:42 Installing collected packages: omero-cli-duplicate
10:16:42 Successfully installed omero-cli-duplicate-0.4.1.dev0
10:16:42 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
10:16:43 Collecting omero-cli-zarr
10:16:43   Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-xmcx0b87/omero-cli-zarr_b5f516b1508440ae8c976f0649c117f7
10:16:43   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-xmcx0b87/omero-cli-zarr_b5f516b1508440ae8c976f0649c117f7
10:16:44   Running command git checkout -b merge_ci --track origin/merge_ci
10:16:44   Switched to a new branch 'merge_ci'
10:16:44   branch 'merge_ci' set up to track 'origin/merge_ci'.
10:16:44   Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit f8b93a40484aec10f822be1b4d93e75a2c5ff984
10:16:44   Installing build dependencies: started
10:16:46   Installing build dependencies: finished with status 'done'
10:16:46   Getting requirements to build wheel: started
10:16:46   Getting requirements to build wheel: finished with status 'done'
10:16:46   Installing backend dependencies: started
10:16:48   Installing backend dependencies: finished with status 'done'
10:16:48   Preparing metadata (pyproject.toml): started
10:16:48   Preparing metadata (pyproject.toml): finished with status 'done'
10:16:48 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.22.1)
10:16:48 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
10:16:48   Using cached ome_zarr-0.18.0-py3-none-any.whl.metadata (2.9 kB)
10:16:48 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6)
10:16:48 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
10:16:48   Using cached dask-2026.7.1-py3-none-any.whl.metadata (3.8 kB)
10:16:48 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
10:16:48   Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
10:16:49 Collecting fsspec!=2021.07.0,!=2023.9.0,>=0.8 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
10:16:49   Using cached fsspec-2026.6.0-py3-none-any.whl.metadata (10 kB)
10:16:49 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
10:16:49   Using cached aiohttp-3.14.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
10:16:49 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
10:16:50 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
10:16:50   Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
10:16:50 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
10:16:50   Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
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10:16:50 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:50 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:50 Collecting importlib_metadata>=4.13.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:52 Collecting locket (from partd>=1.4.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:52 Collecting aiobotocore<4.0.0,>=2.19.0 (from s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:52 Collecting botocore<1.43.47,>=1.43.3 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:53 Collecting jmespath<2.0.0,>=0.7.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:53 Collecting multidict<7.0.0,>=6.0.0 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
10:16:53   Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (5.3 kB)
10:16:53 Collecting wrapt<3.0.0,>=1.10.10 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
10:16:53   Using cached wrapt-2.2.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
10:16:53 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:54 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
10:16:54   Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
10:16:54 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:54 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
10:16:54   Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (20 kB)
10:16:54 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:54 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:55 Collecting scipy>=1.11.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:55 Collecting networkx>=3.0 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:55 Collecting imageio!=2.35.0,>=2.33 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
10:16:55   Downloading imageio-2.37.4-py3-none-any.whl.metadata (9.6 kB)
10:16:55 Collecting tifffile>=2022.8.12 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:56 Collecting lazy-loader>=0.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:56 Collecting numcodecs>=0.14 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
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10:16:56 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
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10:16:56 Using cached s3fs-2026.6.0-py3-none-any.whl (32 kB)
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10:16:56 Using cached aiohttp-3.14.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB)
10:16:56 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
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10:16:56 Using cached wrapt-2.2.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (159 kB)
10:16:56 Downloading yarl-1.24.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (111 kB)
10:16:56 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl (15 kB)
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10:16:57 Using cached google_crc32c-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_5_x86_64.whl (33 kB)
10:16:57 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (9.1 MB)
10:16:57 Using cached zipp-4.1.0-py3-none-any.whl (10 kB)
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10:16:57 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
10:16:57 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
10:16:57 Building wheels for collected packages: omero-cli-zarr
10:16:57   Building wheel for omero-cli-zarr (pyproject.toml): started
10:16:58   Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
10:16:58   Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev162+gf8b93a4-py3-none-any.whl size=38291 sha256=6e6350810313dfbec562d29d59c1a15d25ca6652acbe8b7afd45a8331e5ba2ed
10:16:58   Stored in directory: /tmp/pip-ephem-wheel-cache-p20cwluo/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
10:16:58 Successfully built omero-cli-zarr
10:16:58 Installing collected packages: rangehttpserver, zipp, wrapt, toolz, tifffile, scipy, pydantic-core, propcache, numcodecs, networkx, multidict, locket, lazy-loader, jmespath, imageio, google-crc32c, fsspec, frozenlist, donfig, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, zarr, yarl, scikit-image, pydantic, partd, importlib_metadata, Deprecated, botocore, aiosignal, pydantic-zarr, dask, aiohttp, ome-zarr-models, aiobotocore, s3fs, ome-zarr, omero-cli-zarr
10:17:31   Attempting uninstall: pydantic-core
10:17:31     Found existing installation: pydantic_core 2.46.4
10:17:31     Uninstalling pydantic_core-2.46.4:
10:17:31       Successfully uninstalled pydantic_core-2.46.4
10:18:05   Attempting uninstall: pydantic
10:18:05     Found existing installation: pydantic 2.13.4
10:18:05     Uninstalling pydantic-2.13.4:
10:18:06       Successfully uninstalled pydantic-2.13.4
10:18:43 
10:18:43 Successfully installed Deprecated-1.3.1 aiobotocore-3.8.0 aiohappyeyeballs-2.7.1 aiohttp-3.14.1 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.46 click-8.4.2 cloudpickle-3.1.2 dask-2026.7.1 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.6.0 google-crc32c-1.8.0 imageio-2.37.4 importlib_metadata-9.0.0 jmespath-1.1.0 lazy-loader-0.5 locket-1.0.0 multidict-6.7.1 networkx-3.6.1 numcodecs-0.16.5 ome-zarr-0.18.0 ome-zarr-models-1.7 omero-cli-zarr-0.5.5.dev162+gf8b93a4 partd-1.4.2 propcache-0.5.2 pydantic-2.12.5 pydantic-core-2.41.5 pydantic-zarr-0.9.2 rangehttpserver-1.4.0 s3fs-2026.6.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.2.2 yarl-1.24.5 zarr-3.1.6 zipp-4.1.0
10:18:43 + pip install omero-certificates
10:18:45 Collecting omero-certificates
10:18:45   Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
10:18:45 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.22.1)
10:18:45 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
10:18:45 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
10:18:45 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
10:18:45 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (12.3.0)
10:18:45 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
10:18:45 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)
10:18:45 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
10:18:45 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
10:18:45 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.9)
10:18:45 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.18)
10:18:45 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.7.0)
10:18:45 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.6.17)
10:18:45 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
10:18:45 Installing collected packages: omero-certificates
10:18:45 Successfully installed omero-certificates-0.4.0
10:18:45 + for x in *.tar.gz
10:18:45 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
10:18:46 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
10:18:46   Installing build dependencies: started
10:18:47   Installing build dependencies: finished with status 'done'
10:18:47   Getting requirements to build wheel: started
10:18:48   Getting requirements to build wheel: finished with status 'done'
10:18:48   Preparing metadata (pyproject.toml): started
10:18:48   Preparing metadata (pyproject.toml): finished with status 'done'
10:18:48 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.22.1)
10:18:48 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
10:18:48 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
10:18:48 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.6)
10:18:48 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (12.3.0)
10:18:48 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
10:18:48 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)
10:18:48 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
10:18:48 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
10:18:48 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.9)
10:18:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.18)
10:18:48 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.7.0)
10:18:48 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.6.17)
10:18:48 Building wheels for collected packages: omero-dropbox
10:18:48   Building wheel for omero-dropbox (pyproject.toml): started
10:18:48   Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
10:18:48   Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49153 sha256=4adbcd92ece6350cb9c90ec89f3b06b6e4023fda827c24406efe020209b47a3e
10:18:48   Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
10:18:48 Successfully built omero-dropbox
10:18:49 Installing collected packages: omero-dropbox
10:18:49 Successfully installed omero-dropbox-5.7.1.dev0
10:18:49 + for x in *.tar.gz
10:18:49 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
10:18:50 Processing ./omero_marshal-0.9.2.dev0.tar.gz
10:18:50   Installing build dependencies: started
10:18:51   Installing build dependencies: finished with status 'done'
10:18:51   Getting requirements to build wheel: started
10:18:52   Getting requirements to build wheel: finished with status 'done'
10:18:52   Preparing metadata (pyproject.toml): started
10:18:52   Preparing metadata (pyproject.toml): finished with status 'done'
10:18:52 Building wheels for collected packages: omero_marshal
10:18:52   Building wheel for omero_marshal (pyproject.toml): started
10:18:52   Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
10:18:52   Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88129 sha256=b27ad7a2be5f59c297dfed589d455530eff23a160cf6e04f80c64959fac77ff0
10:18:52   Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
10:18:52 Successfully built omero_marshal
10:18:53 Installing collected packages: omero_marshal
10:18:55 Successfully installed omero_marshal-0.9.2.dev0
10:18:55 + for x in *.tar.gz
10:18:55 + pip install -U omero_py-5.22.2.dev0.tar.gz
10:18:56 Processing ./omero_py-5.22.2.dev0.tar.gz
10:18:56   Installing build dependencies: started
10:18:57   Installing build dependencies: finished with status 'done'
10:18:57   Getting requirements to build wheel: started
10:18:58   Getting requirements to build wheel: finished with status 'done'
10:18:58   Preparing metadata (pyproject.toml): started
10:18:58   Preparing metadata (pyproject.toml): finished with status 'done'
10:18:58 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.4.4)
10:18:58 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.0.0)
10:18:58 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.4.6)
10:18:58 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (12.3.0)
10:18:58 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (6.0.3)
10:18:58 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.6.5)
10:18:58 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.34.2)
10:18:58 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.2.0)
10:18:58 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.4.9)
10:18:58 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.18)
10:18:58 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2.7.0)
10:18:58 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2026.6.17)
10:18:58 Building wheels for collected packages: omero-py
10:18:58   Building wheel for omero-py (pyproject.toml): started
10:18:59   Building wheel for omero-py (pyproject.toml): finished with status 'done'
10:18:59   Created wheel for omero-py: filename=omero_py-5.22.2.dev0-py3-none-any.whl size=2787060 sha256=5ef23d9d84f16e891b61d0285a384836fd55b6440bef98efc11f2ab142f0e472
10:18:59   Stored in directory: /home/omero/.cache/pip/wheels/ec/3f/72/4027ca0a7faf1f66d4577cc07619b0497ac8e99396d43dd8fa
10:18:59 Successfully built omero-py
10:18:59 Installing collected packages: omero-py
10:18:59   Attempting uninstall: omero-py
10:18:59     Found existing installation: omero-py 5.22.1
10:19:00     Uninstalling omero-py-5.22.1:
10:19:10       Successfully uninstalled omero-py-5.22.1
10:19:26 Successfully installed omero-py-5.22.2.dev0
10:19:26 + for x in *.tar.gz
10:19:26 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
10:19:26 Processing ./omero_scripts-5.10.1.dev0.tar.gz
10:19:26   Installing build dependencies: started
10:19:28   Installing build dependencies: finished with status 'done'
10:19:28   Getting requirements to build wheel: started
10:19:28   Getting requirements to build wheel: finished with status 'done'
10:19:28   Preparing metadata (pyproject.toml): started
10:19:28   Preparing metadata (pyproject.toml): finished with status 'done'
10:19:28 Building wheels for collected packages: omero-scripts
10:19:28   Building wheel for omero-scripts (pyproject.toml): started
10:19:29   Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
10:19:29   Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137216 sha256=a907a6ec8de7df1f2cb92f1300c0b464ab3790945c014e5cdefd909b1e7245c6
10:19:29   Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
10:19:29 Successfully built omero-scripts
10:19:29 Installing collected packages: omero-scripts
10:19:30 Successfully installed omero-scripts-5.10.1.dev0
10:19:30 + for x in *.tar.gz
10:19:30 + pip install -U omero_web-5.32.1.dev0.tar.gz
10:19:31 Processing ./omero_web-5.32.1.dev0.tar.gz
10:19:31   Installing build dependencies: started
10:19:33   Installing build dependencies: finished with status 'done'
10:19:33   Getting requirements to build wheel: started
10:19:33   Getting requirements to build wheel: finished with status 'done'
10:19:33   Preparing metadata (pyproject.toml): started
10:19:33   Preparing metadata (pyproject.toml): finished with status 'done'
10:19:33 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (5.22.2.dev0)
10:19:33 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.32.1.dev0)
10:19:33   Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
10:19:34 Collecting Django<5.3,>=5.2.9 (from omero-web==5.32.1.dev0)
10:19:34   Using cached django-5.2.16-py3-none-any.whl.metadata (4.1 kB)
10:19:34 Collecting django-pipeline>=4.1.0 (from omero-web==5.32.1.dev0)
10:19:34   Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
10:19:34 Collecting django-cors-headers==3.7.0 (from omero-web==5.32.1.dev0)
10:19:34   Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
10:19:34 Collecting whitenoise>=5.3.0 (from omero-web==5.32.1.dev0)
10:19:34   Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
10:19:34 Collecting gunicorn>=19.3 (from omero-web==5.32.1.dev0)
10:19:34   Using cached gunicorn-26.0.0-py3-none-any.whl.metadata (5.4 kB)
10:19:34 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (0.9.2.dev0)
10:19:34 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (12.3.0)
10:19:34 Collecting pytz (from omero-web==5.32.1.dev0)
10:19:34   Using cached pytz-2026.2-py2.py3-none-any.whl.metadata (22 kB)
10:19:34 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (3.2.0)
10:19:34 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (26.2)
10:19:34 Collecting importlib-resources (from omero-web==5.32.1.dev0)
10:19:34   Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
10:19:35 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
10:19:35   Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
10:19:35 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
10:19:35   Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
10:19:35 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0) (65.5.1)
10:19:35 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0)
10:19:35   Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
10:19:35 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (1.4.4)
10:19:35 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (1.0.0)
10:19:35 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.4.6)
10:19:35 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (6.0.3)
10:19:35 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==5.32.1.dev0) (3.6.5)
10:19:35 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.34.2)
10:19:35 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (3.4.9)
10:19:35 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (3.18)
10:19:35 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.7.0)
10:19:35 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (2026.6.17)
10:19:35 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
10:19:35 Using cached django-5.2.16-py3-none-any.whl (8.3 MB)
10:19:35 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
10:19:35 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
10:19:35 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
10:19:35 Using cached gunicorn-26.0.0-py3-none-any.whl (212 kB)
10:19:35 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
10:19:35 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
10:19:35 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
10:19:35 Using cached pytz-2026.2-py2.py3-none-any.whl (510 kB)
10:19:35 Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
10:19:35 Building wheels for collected packages: omero-web
10:19:35   Building wheel for omero-web (pyproject.toml): started
10:19:37   Building wheel for omero-web (pyproject.toml): finished with status 'done'
10:19:37   Created wheel for omero-web: filename=omero_web-5.32.1.dev0-py3-none-any.whl size=2820645 sha256=ca308dd3021a2cb11e5b73a2115b989c1f6e2edb25b53054dd6b32dc8e1a687d
10:19:37   Stored in directory: /home/omero/.cache/pip/wheels/e6/f6/6f/ec36dda9edad720aabd7330edafa8a6a62d6ebfa4c7467248f
10:19:37 Successfully built omero-web
10:19:37 Installing collected packages: pytz, whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
10:20:42 
10:20:42 Successfully installed Django-5.2.16 asgiref-3.12.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.0.0 importlib-resources-7.1.0 omero-web-5.32.1.dev0 pytz-2026.2 sqlparse-0.5.5 wheel-0.47.0 whitenoise-6.12.0
10:20:42 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
10:20:42 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
10:20:42 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
10:20:42 --2026-07-20 10:20:42--  https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
10:20:42 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.111.133, 185.199.109.133, ...
10:20:42 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
10:20:42 HTTP request sent, awaiting response... 200 OK
10:20:43 Length: 139337 (136K) [text/plain]
10:20:43 Saving to: ‘Figure_To_Pdf.py’
10:20:43 
10:20:43      0K .......... .......... .......... .......... .......... 36% 2.78M 0s
10:20:43     50K .......... .......... .......... .......... .......... 73% 4.94M 0s
10:20:43    100K .......... .......... .......... ......               100% 7.13M=0.03s
10:20:43 
10:20:43 2026-07-20 10:20:43 (4.11 MB/s) - ‘Figure_To_Pdf.py’ saved [139337/139337]
10:20:43 
10:20:43 + chmod 755 Figure_To_Pdf.py
10:20:43 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
10:20:43 + omero config set omero.db.name OMERO-server
10:20:49 + omero config set omero.db.host pg
10:20:53 + omero config set omero.db.user postgres
10:20:58 + omero config set omero.data.dir /home/omero/omero-server-data
10:21:02 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
10:21:07 + omero config set omero.db.poolsize 25
10:21:11 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
10:21:16 + omero config set omero.security.trustStorePassword changeit
10:21:21 + omero config set omero.mail.config true
10:21:25 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
10:21:30 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
10:21:35 + omero certificates
10:21:39 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
10:21:39 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
10:21:39 + '[' false = true ']'
10:21:39 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
10:21:39 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
10:21:39 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG            dbcommand => upgrade
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG               dbhost => localhost
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG               dbname => OMERO-server
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG               dbpass => omero
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG               dbuser => omero
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG             rootpass => omero
10:21:39 2026-07-20 10:21:39,723 [    omego.db] DEBUG            serverdir => /home/omero/workspace/OMERO-server/OMERO.server
10:21:39 2026-07-20 10:21:39,724 [omego.extern] INFO  Executing : omero version
10:21:43 OMERO.py version:
10:21:43 OMERO.server version:
10:21:43 5.6.3-622-916b82979f-ice36-b14
10:21:43 5.22.2.dev0
10:21:44 2026-07-20 10:21:44,341 [omego.extern] INFO  Completed [4.617 s]
10:21:44 2026-07-20 10:21:44,341 [omego.extern] DEBUG Using omero CLI from omero
10:21:44 2026-07-20 10:21:44,341 [    omego.db] INFO  DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
10:21:44 2026-07-20 10:21:44,341 [omego.extern] INFO  Running [current environment]: omero config get --show-password
10:21:44 2026-07-20 10:21:44,341 [omego.extern] INFO  Executing : omero config get --show-password
10:21:48 2026-07-20 10:21:48,916 [omego.extern] INFO  Completed [4.575 s]
10:21:48 2026-07-20 10:21:48,916 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
10:21:48 2026-07-20 10:21:48,916 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
10:21:48 2026-07-20 10:21:48,922 [omego.extern] INFO  Completed [0.006 s]
10:21:48 2026-07-20 10:21:48,922 [    omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
10:21:48 2026-07-20 10:21:48,922 [    omego.db] INFO  psql version: psql (PostgreSQL) 16.14
10:21:48 
10:21:48 2026-07-20 10:21:48,922 [omego.extern] INFO  Running [current environment]: omero config get --show-password
10:21:48 2026-07-20 10:21:48,922 [omego.extern] INFO  Executing : omero config get --show-password
10:21:53 2026-07-20 10:21:53,399 [omego.extern] INFO  Completed [4.478 s]
10:21:53 2026-07-20 10:21:53,400 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
10:21:53 2026-07-20 10:21:53,400 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
10:21:53 2026-07-20 10:21:53,416 [omego.extern] INFO  Completed [0.016 s]
10:21:53 2026-07-20 10:21:53,416 [    omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.5") at port "5432".\n'
10:21:53 2026-07-20 10:21:53,416 [    omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
10:21:53 2026-07-20 10:21:53,416 [omego.extern] INFO  Running [current environment]: omero config get --show-password
10:21:53 2026-07-20 10:21:53,416 [omego.extern] INFO  Executing : omero config get --show-password
10:21:58 2026-07-20 10:21:58,120 [omego.extern] INFO  Completed [4.704 s]
10:21:58 2026-07-20 10:21:58,121 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
10:21:58 2026-07-20 10:21:58,121 [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
10:21:58 2026-07-20 10:21:58,146 [omego.extern] INFO  Completed [0.025 s]
10:21:58 2026-07-20 10:21:58,146 [    omego.db] DEBUG stdout: b'OMERO5.4|0\n'
10:21:58 2026-07-20 10:21:58,146 [    omego.db] INFO  Current omero db version: ('OMERO5.4', '0')
10:21:58 2026-07-20 10:21:58,188 [    omego.db] INFO  Database is already at OMERO5.4__0
10:21:58 + export LANG=en_US.UTF-8
10:21:58 + LANG=en_US.UTF-8
10:21:58 + export LANGUAGE=en_US:en
10:21:58 + LANGUAGE=en_US:en
10:21:58 + export LC_ALL=en_US.UTF-8
10:21:58 + LC_ALL=en_US.UTF-8
10:21:58 + BUILD_ID=DONT_KILL_ME
10:21:58 + omero admin start
10:22:08 No descriptor given. Using etc/grid/default.xml
10:22:18 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
10:22:18 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
10:22:18 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
10:22:18 Waiting on startup. Use CTRL-C to exit
10:22:18 + omero admin waitup
10:22:23 Waiting on startup. Use CTRL-C to exit
10:22:23 + omero admin diagnostics
10:22:28 
10:22:28 ================================================================================
10:22:28 OMERO Diagnostics (admin)
10:22:28 ================================================================================
10:22:28         
10:22:28 Commands:   java -version                  21.0.11   (/usr/bin/java)
10:22:28 Commands:   python -V                      3.11.13   (/home/omero/workspace/OMERO-server/.venv3/bin/python)
10:22:28 Commands:   icegridnode --version          3.6.5     (/opt/ice-3.6.5/bin/icegridnode)
10:22:28 Commands:   icegridadmin --version         3.6.5     (/opt/ice-3.6.5/bin/icegridadmin)
10:22:28 Commands:   psql --version                 16.14     (/usr/bin/psql)
10:22:28 Commands:   openssl version                3.5.527   (/usr/bin/openssl)
10:22:28 
10:22:28 Component:  OMERO.py                       5.22.2.dev0
10:22:28 Component:  OMERO.server                   5.6.3-622-916b82979f-ice36-b14
10:22:28 
10:22:28 Server:     icegridnode                    running
10:22:28 Server:     Blitz-0                        active (pid = 49413, enabled)
10:22:28 Server:     Indexer-0                      active (pid = 49436, enabled)
10:22:28 Server:     OMERO.Glacier2                 active (pid = 49457, enabled)
10:22:28 Server:     OMERO.IceStorm                 active (pid = 49441, enabled)
10:22:28 Server:     Processor-0                    active (pid = 49471, enabled)
10:22:28 Server:     Tables-0                       active (pid = 49479, enabled)
10:22:28 
10:22:28 Log dir:    /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
10:22:28 Log files:  Blitz-0.log                    32.1 KB       errors=0    warnings=1   
10:22:28 Log files:  DropBox.log                    n/a
10:22:28 Log files:  FileServer.log                 n/a
10:22:28 Log files:  Indexer-0.log                  2.6 KB       
10:22:28 Log files:  MonitorServer.log              n/a
10:22:28 Log files:  Processor-0.log                735 B        
10:22:28 Log files:  Tables-0.log                   961 B        
10:22:28 Log files:  TestDropBox.log                n/a
10:22:28 Log files:  master.err                     empty
10:22:28 Log files:  master.out                     30.5 KB      
10:22:28 Log files:  Total size                     0.07 MB
10:22:28 
10:22:28 
10:22:28 Environment:OMERO_HOME=(unset)             
10:22:28 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 
10:22:28 Environment:OMERO_NODE=(unset)             
10:22:28 Environment:OMERO_MASTER=(unset)           
10:22:28 Environment:OMERO_USERDIR=(unset)          
10:22:28 Environment:OMERO_TMPDIR=(unset)           
10:22:28 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 
10:22:28 Environment:PYTHONPATH=(unset)             
10:22:28 Environment:ICE_HOME=/opt/ice-3.6.5        
10:22:28 Environment:LD_LIBRARY_PATH=(unset)        
10:22:28 Environment:DYLD_LIBRARY_PATH=(unset)      
10:22:28 
10:22:28 OMERO SSL port:4064                           
10:22:28 OMERO TCP port:4063                           
10:22:28 OMERO data dir:'/home/omero/omero-server-data' Exists? True	Is writable? True
10:22:28 OMERO temp dir:'/home/omero/omero/tmp'        Exists? True	Is writable? True   (Size: 0)
10:22:28 
10:22:28 JVM settings: Blitz-${index}                -Xmx7200m
10:22:28 JVM settings: Indexer-${index}              -Xmx4800m
10:22:28 JVM settings: PixelData-${index}            -Xmx7200m
10:22:28 JVM settings: Repository-${index}           -Xmx4800m
10:22:28 
10:22:28 Jar:        lib/server/formats-api.jar     Bio-Formats API	8.5.0	18 March 2026	877c317e4e396381dc76e56c1539b24947f71dce
10:22:28 Jar:        lib/server/formats-bsd.jar     BSD Bio-Formats readers and writers	8.5.0	18 March 2026	877c317e4e396381dc76e56c1539b24947f71dce
10:22:28 Jar:        lib/server/formats-gpl.jar     Bio-Formats library	8.5.0	18 March 2026	877c317e4e396381dc76e56c1539b24947f71dce
10:22:28 Jar:        lib/server/ome-codecs.jar      OME Codecs	1.1.3	26 February 2026	70fd9b72a9834f1af4852c1e5b5676c57a2c360e
10:22:28 Jar:        lib/server/ome-common.jar      OME Common Java	6.2.1	27 February 2026	a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
10:22:28 Jar:        lib/server/ome-jai.jar         OME JAI	0.1.5	30 June 2025	257a1c1410c0103485248d05752a5174262a38b6
10:22:28 Jar:        lib/server/ome-mdbtools.jar    MDB Tools (Java port)	5.3.4	25 June 2025	57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
10:22:28 Jar:        lib/server/ome-poi.jar         OME POI	5.3.11	11 November 2025	a2f3944ac71db9e7e51a6f64ec46beeb60613afb
10:22:28 Jar:        lib/server/ome-xml.jar         OME XML library	6.5.3	22 January 2026	21d1362abd9ce26e13888d2b2d028753d21ac96e
10:22:28 Jar:        lib/server/omero-blitz.jar     jar	5.8.6-SNAPSHOT		
10:22:28 Jar:        lib/server/omero-common.jar    jar	5.7.6-SNAPSHOT		
10:22:28 Jar:        lib/server/omero-gateway.jar   jar	5.11.1-SNAPSHOT		
10:22:28 Jar:        lib/server/omero-model.jar     jar	5.7.6-SNAPSHOT		
10:22:28 Jar:        lib/server/omero-renderer.jar  jar	5.6.6-SNAPSHOT		
10:22:28 Jar:        lib/server/omero-romio.jar     jar	5.8.6-SNAPSHOT		
10:22:28 Jar:        lib/server/omero-server.jar    jar	5.7.6-SNAPSHOT		
10:22:29 + deactivate
10:22:29 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
10:22:29 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:22:29 + export PATH
10:22:29 + unset _OLD_VIRTUAL_PATH
10:22:29 + '[' -n '' ']'
10:22:29 + hash -r
10:22:29 + '[' -n '' ']'
10:22:29 + unset VIRTUAL_ENV
10:22:29 + unset VIRTUAL_ENV_PROMPT
10:22:29 + '[' '!' '' = nondestructive ']'
10:22:29 + unset -f deactivate
10:22:29 Finished: SUCCESS