23:53:31 Started by upstream project "Trigger" build number 113
23:53:31 originally caused by:
23:53:31 Started by timer
23:53:31 Running as SYSTEM
23:53:31 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
23:53:31 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12910474101728193176.sh
23:53:31 + source /home/settings.env
23:53:31 ++ OMERO_DB_HOST=pg
23:53:31 ++ OMERO_DB_USER=postgres
23:53:31 ++ OMERO_DB_PASS=
23:53:31 ++ OMERO_ROOT_PASS=omero
23:53:31 ++ OMERO_DATA_DIR=/OMERO
23:53:31 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
23:53:31 + OMERO_DB_NAME=OMERO-server
23:53:31 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
23:53:31 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
23:53:31 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
23:53:31 + OMERO_DATA_DIR=/home/omero/omero-server-data
23:53:31 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
23:53:31 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
23:53:31 ++ deactivate nondestructive
23:53:31 ++ '[' -n '' ']'
23:53:31 ++ '[' -n '' ']'
23:53:31 ++ hash -r
23:53:31 ++ '[' -n '' ']'
23:53:31 ++ unset VIRTUAL_ENV
23:53:31 ++ unset VIRTUAL_ENV_PROMPT
23:53:31 ++ '[' '!' nondestructive = nondestructive ']'
23:53:31 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
23:53:31 ++ export VIRTUAL_ENV
23:53:31 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
23:53:31 ++ 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
23:53:31 ++ export PATH
23:53:31 ++ '[' -n '' ']'
23:53:31 ++ '[' -z '' ']'
23:53:31 ++ _OLD_VIRTUAL_PS1=
23:53:31 ++ PS1='(.venv3) '
23:53:31 ++ export PS1
23:53:31 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
23:53:31 ++ export VIRTUAL_ENV_PROMPT
23:53:31 ++ hash -r
23:53:31 + omero admin stop
23:54:04 Waiting on shutdown. Use CTRL-C to exit
23:54:04 .+ sleep 5
23:54:20 + deactivate
23:54:20 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
23:54:20 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
23:54:20 + export PATH
23:54:20 + unset _OLD_VIRTUAL_PATH
23:54:20 + '[' -n '' ']'
23:54:20 + hash -r
23:54:20 + '[' -n '' ']'
23:54:20 + unset VIRTUAL_ENV
23:54:20 + unset VIRTUAL_ENV_PROMPT
23:54:20 + '[' '!' '' = nondestructive ']'
23:54:20 + unset -f deactivate
23:54:20 + rm -rf /home/omero/workspace/OMERO-server/.venv3
23:57:06 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
23:57:27 + '[' false = true ']'
23:57:27 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
23:57:27 Skipping PURGE_DATA:CleanDbAndRepo
23:57:27 + 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-5.23.1.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-5.33.3.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
23:57:37 Copied 1 artifact from "OMERO-build" build number 92
23:57:37 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 83
23:57:38 Copied 2 artifacts from "OMERO-build-build" build number 94
23:57:38 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5663144785127188924.sh
23:57:38 + source /home/settings.env
23:57:38 ++ OMERO_DB_HOST=pg
23:57:38 ++ OMERO_DB_USER=postgres
23:57:38 ++ OMERO_DB_PASS=
23:57:38 ++ OMERO_ROOT_PASS=omero
23:57:38 ++ OMERO_DATA_DIR=/OMERO
23:57:38 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
23:57:38 + OMERO_DB_NAME=OMERO-server
23:57:38 + OMERO_DATA_DIR=/home/omero/omero-server-data
23:57:38 + mkdir -p /home/omero/omero-server-data
23:57:38 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
23:57:38 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
23:57:38 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
23:57:38 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
23:57:38 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
23:57:38 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
23:57:38 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
23:57:38 ++ ls OMERO.server-5.6.3-687-a5751f6843-ice36-b92.zip
23:57:38 + ZIP=OMERO.server-5.6.3-687-a5751f6843-ice36-b92.zip
23:57:38 + '[' '!' -z '' ']'
23:57:38 + DIST=OMERO.server-5.6.3-687-a5751f6843-ice36-b92
23:57:38 + unzip OMERO.server-5.6.3-687-a5751f6843-ice36-b92.zip
23:57:38 Archive: OMERO.server-5.6.3-687-a5751f6843-ice36-b92.zip
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/blitz/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/grid/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/profiles/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/error/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/grid/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/luts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/luts/janelia/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/luts/matplotlib/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/luts/ncsa_paledit/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/luts/seaborn/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/luts/wcif/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/analysis_scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/annotation_scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/export_scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/figure_scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/import_scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/scripts/omero/util_scripts/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/server/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/misc/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__1/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__10/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__11/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__2/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__3/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__4/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__5/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__6/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__7/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__8/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__9/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__4/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__5/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__6/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__7/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.1__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.2__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.2__0/t/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.3__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.4__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.0__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.1__1/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.2__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4DEV__1/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4DEV__2/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4DEV__3/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/var/
23:57:38 creating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/var/tmp/
23:57:38 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/LICENSE.txt
23:57:38 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/backup.cfg
23:57:38 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/blitz/mail-senders.example
23:57:38 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/blitz/mail-server.example
23:57:38 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/build.properties
23:57:38 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/env.bat
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/env.sh
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/hibernate.properties
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/ice.config
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/logback-cli.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/logback-indexing-cli.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/logback-indexing.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/logback.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/mime.types
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/node1.cfg
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/node2.cfg
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/omero.properties
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/profiles/psql
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/rollover.cfg
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/Windows.cfg
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/error/maintainance.html
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/grid/README
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/grid/default.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/grid/templates.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/grid/windefault.xml
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/ice.config
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/internal.cfg
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/master.cfg
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/templates/robot.template
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/etc/testdropbox.config
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/history.rst
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/accessors-smart.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/activation.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/aggdesigner-algorithm.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/aircompressor.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/annotations.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/antlr.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/aopalliance.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/apache-client.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/apiguardian-api.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/arns.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/asm.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/auth.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/avatica-core.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/avatica-metrics.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/aws-core.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/aws-query-protocol.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/aws-xml-protocol.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/base.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-anim.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-awt-util.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-bridge.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-codec.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-constants.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-css.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-dom.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-ext.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-gvt.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-i18n.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-parser.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-script.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-shared-resources.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-svg-dom.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-svggen.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-transcoder.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-util.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/batik-xml.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/blosc-java.jar
23:57:39 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/btm.jar
23:57:40 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/lib/client/caffeine.jar
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23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/apache-v1.1.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/apache-v2.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/asm.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/bouncy_castle_license.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/bsd.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/cddl-v1.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/cpl-v10.html
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/crystalclear.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/django.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/dom4j.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/epl-v1.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/fbsd.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/freemarker.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/gpl-v2.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/gpl.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/gtest.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/iconsweets_license.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/jamon.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/jmock.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/jquery.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/jtidy.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/lgpl-3.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/lgpl-v2.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/lgpl-v2.1.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/lgpl-v3.0.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/lgpl.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/matplotlib.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/mit.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/mpl-v1_0.htm
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/npl-1_1.txt
23:57:57 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/path.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/pil.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/postgresql.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/psf-v2.0.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/psf-v2.5.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/scons.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/slf4j.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/tablelayout.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/which.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/zlib-libpng.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/share/licenses/zpl-v2.1.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/README.txt
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/misc/Makefile
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/misc/current.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/misc/enums.py
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__1/OMERO3__7.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__10/OMERO3A__9.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__11/OMERO3A__10.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__11/OMERO3A__5.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__2/OMERO3A__1.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__3/OMERO3A__2.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__3/OMERO3__5.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__4/OMERO3A__3.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__4/OMERO3__5.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__5/OMERO3A__4.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__6/OMERO3A__5.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__7/OMERO3A__6.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__8/OMERO3A__6.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3A__9/OMERO3A__8.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__4/OMERO3__1.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__5/OMERO3__4.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__6/OMERO3__5.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO3__7/OMERO3__6.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.1__0/OMERO4__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO4__0/OMERO3A__11.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/psql-footer.sql
23:57:58 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/psql-header.sql
23:57:59 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/schema.sql
23:57:59 inflating: OMERO.server-5.6.3-687-a5751f6843-ice36-b92/sql/psql/OMERO5.4__0/views.sql
23:57:59 + rm -f OMERO.server-5.6.3-687-a5751f6843-ice36-b92.zip
23:57:59 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-687-a5751f6843-ice36-b92 /home/omero/workspace/OMERO-server/OMERO.server
23:57:59 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
23:57:59 ++ deactivate nondestructive
23:57:59 ++ '[' -n '' ']'
23:57:59 ++ '[' -n '' ']'
23:57:59 ++ hash -r
23:57:59 ++ '[' -n '' ']'
23:57:59 ++ unset VIRTUAL_ENV
23:57:59 ++ unset VIRTUAL_ENV_PROMPT
23:57:59 ++ '[' '!' nondestructive = nondestructive ']'
23:57:59 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
23:57:59 ++ export VIRTUAL_ENV
23:57:59 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
23:57:59 ++ 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
23:57:59 ++ export PATH
23:57:59 ++ '[' -n '' ']'
23:57:59 ++ '[' -z '' ']'
23:57:59 ++ _OLD_VIRTUAL_PS1=
23:57:59 ++ PS1='(.venv3) '
23:57:59 ++ export PS1
23:57:59 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
23:57:59 ++ export VIRTUAL_ENV_PROMPT
23:57:59 ++ hash -r
23:57:59 + pip install -U pip
23:58:00 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
23:58:00 Collecting pip
23:58:01 Using cached pip-26.2.1-py3-none-any.whl (1.8 MB)
23:58:01 Installing collected packages: pip
23:58:01 Attempting uninstall: pip
23:58:01 Found existing installation: pip 22.3.1
23:58:02 Uninstalling pip-22.3.1:
23:58:02 Successfully uninstalled pip-22.3.1
23:58:16 Successfully installed pip-26.2.1
23:58:16 + 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
23:58:17 Collecting zeroc-ice==3.6.5
23:58:17 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
23:58:20 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 13.5 MB/s 0:00:02
23:58:20 Installing collected packages: zeroc-ice
23:58:24 Successfully installed zeroc-ice-3.6.5
23:58:24 + pip install markdown
23:58:25 Collecting markdown
23:58:25 Using cached markdown-3.11-py3-none-any.whl.metadata (5.1 kB)
23:58:25 Using cached markdown-3.11-py3-none-any.whl (111 kB)
23:58:25 Installing collected packages: markdown
23:58:26 Successfully installed markdown-3.11
23:58:26 + pip install reportlab
23:58:27 Collecting reportlab
23:58:27 Using cached reportlab-5.0.1-py3-none-any.whl.metadata (1.6 kB)
23:58:28 Collecting pillow>=9.0.0 (from reportlab)
23:58:28 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
23:58:28 Collecting charset-normalizer (from reportlab)
23:58:28 Using cached charset_normalizer-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (45 kB)
23:58:28 Using cached reportlab-5.0.1-py3-none-any.whl (2.0 MB)
23:58:28 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
23:58:28 Using cached charset_normalizer-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (262 kB)
23:58:29 Installing collected packages: pillow, charset-normalizer, reportlab
23:58:37
23:58:37 Successfully installed charset-normalizer-3.5.1 pillow-12.3.0 reportlab-5.0.1
23:58:37 + pip install pyarrow
23:58:38 Collecting pyarrow
23:58:38 Using cached pyarrow-25.0.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB)
23:58:39 Using cached pyarrow-25.0.1-cp311-cp311-manylinux_2_28_x86_64.whl (50.1 MB)
23:58:39 Installing collected packages: pyarrow
23:58:50 Successfully installed pyarrow-25.0.1
23:58:50 + pip install omego
23:58:51 Collecting omego
23:58:51 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
23:58:51 Collecting future (from omego)
23:58:51 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
23:58:51 Collecting yaclifw>=0.1.1 (from omego)
23:58:51 Using cached yaclifw-0.2.0-py3-none-any.whl
23:58:52 Collecting six (from yaclifw>=0.1.1->omego)
23:58:52 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
23:58:52 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
23:58:52 Using cached future-1.0.0-py3-none-any.whl (491 kB)
23:58:52 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
23:58:52 Installing collected packages: six, future, yaclifw, omego
23:58:57
23:58:57 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
23:58:57 + pip install tables
23:58:58 Collecting tables
23:58:58 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)
23:58:59 Collecting numpy>=1.20.0 (from tables)
23:58:59 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
23:58:59 Collecting numexpr>=2.6.2 (from tables)
23:58:59 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
23:58:59 Collecting packaging (from tables)
23:58:59 Using cached packaging-26.3-py3-none-any.whl.metadata (3.5 kB)
23:58:59 Collecting py-cpuinfo (from tables)
23:59:00 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
23:59:00 Collecting blosc2>=2.3.0 (from tables)
23:59:00 Downloading blosc2-4.14.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.0 kB)
23:59:00 Collecting ndindex (from blosc2>=2.3.0->tables)
23:59:00 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
23:59:00 Collecting msgpack (from blosc2>=2.3.0->tables)
23:59:00 Using cached msgpack-1.2.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
23:59:01 Collecting pydantic (from blosc2>=2.3.0->tables)
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23:59:04 Downloading blosc2-4.14.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.7 MB)
23:59:05 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 6.7/6.7 MB 13.0 MB/s 0:00:00
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23:59:06 Using cached threadpoolctl-3.7.0-py3-none-any.whl (26 kB)
23:59:07 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
23:59:58
23:59:58 Successfully installed annotated-types-0.8.0 anyio-4.15.1 blosc2-4.14.0 certifi-2026.7.22 h11-0.16.0 h2-4.4.1 hpack-4.2.0 httpcore-1.0.9 httpx-0.28.1 hyperframe-6.1.0 idna-3.20 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.2 ndindex-1.10.1 numexpr-2.14.2 numpy-2.4.6 packaging-26.3 py-cpuinfo-9.0.0 pydantic-2.13.5 pydantic-core-2.46.5 pygments-2.21.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.7.0 typing-inspection-0.4.4 typing_extensions-4.16.0
23:59:58 + pip install jinja2
23:59:59 Collecting jinja2
23:59:59 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
23:59:59 Collecting MarkupSafe>=2.0 (from jinja2)
23:59:59 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)
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00:00:00 Installing collected packages: MarkupSafe, jinja2
00:00:01
00:00:01 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
00:00:01 + pip install omero-py
00:00:02 Collecting omero-py
00:00:02 Using cached omero_py-5.23.0-py3-none-any.whl.metadata (6.5 kB)
00:00:02 Collecting appdirs (from omero-py)
00:00:03 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:00:03 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
00:00:03 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
00:00:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
00:00:03 Collecting PyYAML (from omero-py)
00:00:03 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)
00:00:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
00:00:03 Collecting requests (from omero-py)
00:00:03 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
00:00:03 Collecting portalocker (from omero-py)
00:00:03 Using cached portalocker-4.4.0-py3-none-any.whl.metadata (10 kB)
00:00:03 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.5.1)
00:00:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.20)
00:00:03 Collecting urllib3<3,>=1.26 (from requests->omero-py)
00:00:03 Using cached urllib3-2.8.0-py3-none-any.whl.metadata (7.4 kB)
00:00:03 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.7.22)
00:00:03 Using cached omero_py-5.23.0-py3-none-any.whl (2.8 MB)
00:00:04 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:00:04 Using cached portalocker-4.4.0-py3-none-any.whl (129 kB)
00:00:04 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
00:00:04 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
00:00:04 Using cached urllib3-2.8.0-py3-none-any.whl (135 kB)
00:00:04 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
00:00:25
00:00:25 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.23.0 portalocker-4.4.0 requests-2.34.2 urllib3-2.8.0
00:00:25 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:00:27 Collecting omero-metadata
00:00:27 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-xfyhjbxk/omero-metadata_3211a12f8aa34fe4b5ce38a745af8386
00:00:27 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-xfyhjbxk/omero-metadata_3211a12f8aa34fe4b5ce38a745af8386
00:00:28 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit ddcf6c568b6929ce2d3ab7c97e50592a1bfbfdaf
00:00:28 Installing build dependencies: started
00:00:30 Installing build dependencies: finished with status 'done'
00:00:30 Getting requirements to build wheel: started
00:00:31 Getting requirements to build wheel: finished with status 'done'
00:00:31 Preparing metadata (pyproject.toml): started
00:00:31 Preparing metadata (pyproject.toml): finished with status 'done'
00:00:31 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.23.0)
00:00:31 Collecting pandas<3,>=2 (from omero-metadata)
00:00:31 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
00:00:31 Requirement already satisfied: numpy>=1.23.2 in ./.venv3/lib64/python3.11/site-packages (from pandas<3,>=2->omero-metadata) (2.4.6)
00:00:31 Collecting python-dateutil>=2.8.2 (from pandas<3,>=2->omero-metadata)
00:00:31 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:00:32 Collecting pytz>=2020.1 (from pandas<3,>=2->omero-metadata)
00:00:32 Using cached pytz-2026.4-py2.py3-none-any.whl.metadata (22 kB)
00:00:32 Collecting tzdata>=2022.7 (from pandas<3,>=2->omero-metadata)
00:00:32 Using cached tzdata-2026.4-py2.py3-none-any.whl.metadata (1.4 kB)
00:00:32 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:00:32 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:00:32 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)
00:00:32 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (6.0.3)
00:00:32 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)
00:00:32 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
00:00:32 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (4.4.0)
00:00:32 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas<3,>=2->omero-metadata) (1.17.0)
00:00:32 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.5.1)
00:00:32 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.20)
00:00:32 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.8.0)
00:00:32 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.7.22)
00:00:32 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
00:00:32 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:00:32 Using cached pytz-2026.4-py2.py3-none-any.whl (506 kB)
00:00:32 Using cached tzdata-2026.4-py2.py3-none-any.whl (347 kB)
00:00:32 Building wheels for collected packages: omero-metadata
00:00:32 Building wheel for omero-metadata (pyproject.toml): started
00:00:33 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:00:33 Created wheel for omero-metadata: filename=omero_metadata-0.14.1.dev0-py3-none-any.whl size=39360 sha256=44c28de6a10c481fe6568e764d7957b38adc567ee12f1753dd5d2b51a6f523bb
00:00:33 Stored in directory: /tmp/pip-ephem-wheel-cache-q01kc221/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
00:00:33 Successfully built omero-metadata
00:00:33 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:01:32
00:01:32 Successfully installed omero-metadata-0.14.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2026.4 tzdata-2026.4
00:01:32 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:01:33 Collecting omero-cli-render
00:01:33 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-s8f3pgt7/omero-cli-render_6131fae2eb6c423daa9994bbd6e0e2b8
00:01:33 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-s8f3pgt7/omero-cli-render_6131fae2eb6c423daa9994bbd6e0e2b8
00:01:34 Running command git checkout -b merge_ci --track origin/merge_ci
00:01:35 Switched to a new branch 'merge_ci'
00:01:35 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:01:35 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 1a8d02455ab9b00078d7c8208cdac02cf23fc0b5
00:01:35 Installing build dependencies: started
00:01:37 Installing build dependencies: finished with status 'done'
00:01:37 Getting requirements to build wheel: started
00:01:37 Getting requirements to build wheel: finished with status 'done'
00:01:37 Preparing metadata (pyproject.toml): started
00:01:38 Preparing metadata (pyproject.toml): finished with status 'done'
00:01:38 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
00:01:38 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.23.0)
00:01:38 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:01:38 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:01:38 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)
00:01:38 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)
00:01:38 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)
00:01:38 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
00:01:38 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (4.4.0)
00:01:38 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.5.1)
00:01:38 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.20)
00:01:38 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.8.0)
00:01:38 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.7.22)
00:01:38 Building wheels for collected packages: omero-cli-render
00:01:38 Building wheel for omero-cli-render (pyproject.toml): started
00:01:38 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:01:38 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=8c95c28c0df0b6ddc1af7b92679be581577a157a046cc05211c5f771478012cd
00:01:38 Stored in directory: /tmp/pip-ephem-wheel-cache-dk4utrpr/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
00:01:38 Successfully built omero-cli-render
00:01:38 Installing collected packages: omero-cli-render
00:01:38 Successfully installed omero-cli-render-0.8.2.dev0
00:01:39 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:01:40 Collecting omero-cli-duplicate
00:01:40 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-d0ellszq/omero-cli-duplicate_2787a6be259647438de6badd4cbdd070
00:01:40 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-d0ellszq/omero-cli-duplicate_2787a6be259647438de6badd4cbdd070
00:01:41 Running command git checkout -b merge_ci --track origin/merge_ci
00:01:41 Switched to a new branch 'merge_ci'
00:01:41 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:01:41 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit bd5d55f2b56d060934a6ef85d62ad03ef36bec18
00:01:41 Installing build dependencies: started
00:01:43 Installing build dependencies: finished with status 'done'
00:01:43 Getting requirements to build wheel: started
00:01:43 Getting requirements to build wheel: finished with status 'done'
00:01:43 Preparing metadata (pyproject.toml): started
00:01:43 Preparing metadata (pyproject.toml): finished with status 'done'
00:01:43 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.23.0)
00:01:43 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:01:43 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
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00:01:43 Building wheels for collected packages: omero-cli-duplicate
00:01:43 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:01:44 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:01:44 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=777a00256a9f4b825b9a94f36504d389da04d3d5029824e44ca18dc6330382c0
00:01:44 Stored in directory: /tmp/pip-ephem-wheel-cache-yi3i7_4f/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
00:01:44 Successfully built omero-cli-duplicate
00:01:44 Installing collected packages: omero-cli-duplicate
00:01:44 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:01:44 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
00:01:45 Collecting omero-cli-zarr
00:01:45 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-bgiub8xp/omero-cli-zarr_20410808281c41329eaabbf35f4a0f68
00:01:45 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-bgiub8xp/omero-cli-zarr_20410808281c41329eaabbf35f4a0f68
00:01:46 Running command git checkout -b merge_ci --track origin/merge_ci
00:01:47 Switched to a new branch 'merge_ci'
00:01:47 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:01:47 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit fa418b9c8e08ee15b0be641dac97b928d03d6c51
00:01:47 Installing build dependencies: started
00:01:48 Installing build dependencies: finished with status 'done'
00:01:48 Getting requirements to build wheel: started
00:01:49 Getting requirements to build wheel: finished with status 'done'
00:01:49 Installing backend dependencies: started
00:01:51 Installing backend dependencies: finished with status 'done'
00:01:51 Preparing metadata (pyproject.toml): started
00:01:51 Preparing metadata (pyproject.toml): finished with status 'done'
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00:01:54 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
00:01:54 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
00:01:54 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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00:01:56 Collecting pydantic-core==2.41.5 (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
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00:02:01 Using cached s3fs-2026.9.0-py3-none-any.whl (33 kB)
00:02:01 Using cached aiobotocore-3.9.1-py3-none-any.whl (102 kB)
00:02:02 Using cached aiohttp-3.14.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB)
00:02:02 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
00:02:02 Using cached botocore-1.43.75-py3-none-any.whl (15.7 MB)
00:02:02 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
00:02:02 Using cached multidict-6.9.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (320 kB)
00:02:02 Using cached wrapt-2.5.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (239 kB)
00:02:02 Using cached yarl-1.25.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (117 kB)
00:02:02 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl (15 kB)
00:02:02 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
00:02:02 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
00:02:02 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
00:02:02 Using cached propcache-0.5.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (235 kB)
00:02:02 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
00:02:02 Downloading imageio-2.38.0-py3-none-any.whl (328 kB)
00:02:02 Using cached lazy_loader-0.6-py3-none-any.whl (8.8 kB)
00:02:02 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
00:02:03 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
00:02:03 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
00:02:03 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
00:02:03 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
00:02:03 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
00:02:03 Using cached google_crc32c-1.9.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (36 kB)
00:02:03 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)
00:02:03 Using cached zipp-4.1.0-py3-none-any.whl (10 kB)
00:02:03 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
00:02:03 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
00:02:03 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
00:02:04 Building wheels for collected packages: omero-cli-zarr
00:02:04 Building wheel for omero-cli-zarr (pyproject.toml): started
00:02:04 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
00:02:04 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev186+gfa418b9-py3-none-any.whl size=39541 sha256=076c2062f7456601fea9b9df2b2fe2ec3eee49022944e641124fe7de0f10ffd5
00:02:04 Stored in directory: /tmp/pip-ephem-wheel-cache-vtunzugp/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
00:02:04 Successfully built omero-cli-zarr
00:02:05 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
00:02:46 Attempting uninstall: pydantic-core
00:02:46 Found existing installation: pydantic_core 2.46.5
00:02:46 Uninstalling pydantic_core-2.46.5:
00:02:46 Successfully uninstalled pydantic_core-2.46.5
00:03:26 Attempting uninstall: pydantic
00:03:26 Found existing installation: pydantic 2.13.5
00:03:26 Uninstalling pydantic-2.13.5:
00:03:26 Successfully uninstalled pydantic-2.13.5
00:04:10
00:04:10 Successfully installed Deprecated-1.3.1 aiobotocore-3.9.1 aiohappyeyeballs-2.7.1 aiohttp-3.14.3 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.75 click-8.5.0 cloudpickle-3.1.2 dask-2026.8.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.9.0 google-crc32c-1.9.0 imageio-2.38.0 importlib_metadata-9.0.1 jmespath-1.1.0 lazy-loader-0.6 locket-1.0.0 multidict-6.9.1 networkx-3.6.1 numcodecs-0.16.5 ome-zarr-0.18.0 ome-zarr-models-1.7 omero-cli-zarr-0.5.5.dev186+gfa418b9 partd-1.4.2 propcache-0.5.4 pydantic-2.12.5 pydantic-core-2.41.5 pydantic-zarr-0.9.2 rangehttpserver-1.4.0 s3fs-2026.9.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.5.0 yarl-1.25.1 zarr-3.1.6 zipp-4.1.0
00:04:10 + pip install omero-certificates
00:04:12 Collecting omero-certificates
00:04:12 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
00:04:12 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.23.0)
00:04:12 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:04:12 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:04:12 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
00:04:12 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)
00:04:12 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
00:04:12 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)
00:04:12 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
00:04:12 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (4.4.0)
00:04:12 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.5.1)
00:04:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.20)
00:04:12 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.8.0)
00:04:12 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.7.22)
00:04:12 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
00:04:12 Installing collected packages: omero-certificates
00:04:12 Successfully installed omero-certificates-0.4.0
00:04:12 + for x in *.tar.gz
00:04:12 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:04:13 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:04:13 Installing build dependencies: started
00:04:15 Installing build dependencies: finished with status 'done'
00:04:15 Getting requirements to build wheel: started
00:04:15 Getting requirements to build wheel: finished with status 'done'
00:04:15 Preparing metadata (pyproject.toml): started
00:04:15 Preparing metadata (pyproject.toml): finished with status 'done'
00:04:15 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.23.0)
00:04:15 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:04:15 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:04:15 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)
00:04:15 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)
00:04:15 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
00:04:15 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)
00:04:15 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
00:04:15 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (4.4.0)
00:04:15 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.5.1)
00:04:15 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.20)
00:04:15 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.8.0)
00:04:15 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.7.22)
00:04:15 Building wheels for collected packages: omero-dropbox
00:04:15 Building wheel for omero-dropbox (pyproject.toml): started
00:04:16 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:04:16 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49155 sha256=4f008c1f24769e6f4f436ead1462a15d71883e6d0b2e818c39f6da3b7a10289a
00:04:16 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
00:04:16 Successfully built omero-dropbox
00:04:16 Installing collected packages: omero-dropbox
00:04:17 Successfully installed omero-dropbox-5.7.1.dev0
00:04:17 + for x in *.tar.gz
00:04:17 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
00:04:17 Processing ./omero_marshal-0.9.2.dev0.tar.gz
00:04:17 Installing build dependencies: started
00:04:19 Installing build dependencies: finished with status 'done'
00:04:19 Getting requirements to build wheel: started
00:04:19 Getting requirements to build wheel: finished with status 'done'
00:04:19 Preparing metadata (pyproject.toml): started
00:04:20 Preparing metadata (pyproject.toml): finished with status 'done'
00:04:20 Building wheels for collected packages: omero_marshal
00:04:20 Building wheel for omero_marshal (pyproject.toml): started
00:04:20 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:04:20 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88121 sha256=d430aed6a893ff9d514d9ac17253c4b6b7f365d4a91f8b8e2f71a060827d4622
00:04:20 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
00:04:20 Successfully built omero_marshal
00:04:20 Installing collected packages: omero_marshal
00:04:23 Successfully installed omero_marshal-0.9.2.dev0
00:04:23 + for x in *.tar.gz
00:04:23 + pip install -U omero_py-5.23.1.dev0.tar.gz
00:04:24 Processing ./omero_py-5.23.1.dev0.tar.gz
00:04:24 Installing build dependencies: started
00:04:25 Installing build dependencies: finished with status 'done'
00:04:25 Getting requirements to build wheel: started
00:04:26 Getting requirements to build wheel: finished with status 'done'
00:04:26 Preparing metadata (pyproject.toml): started
00:04:26 Preparing metadata (pyproject.toml): finished with status 'done'
00:04:26 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.4.4)
00:04:26 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.0.0)
00:04:26 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.4.6)
00:04:26 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (12.3.0)
00:04:26 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (6.0.3)
00:04:26 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (3.6.5)
00:04:26 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.34.2)
00:04:26 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (4.4.0)
00:04:26 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.5.1)
00:04:26 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.20)
00:04:26 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2.8.0)
00:04:26 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2026.7.22)
00:04:26 Building wheels for collected packages: omero-py
00:04:26 Building wheel for omero-py (pyproject.toml): started
00:04:27 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:04:27 Created wheel for omero-py: filename=omero_py-5.23.1.dev0-py3-none-any.whl size=2787194 sha256=65a0259f15db6f3260346722b2433f3d11b4d4da57b429e0d9c4999f0624fd51
00:04:27 Stored in directory: /home/omero/.cache/pip/wheels/99/0a/38/75d301c3c2feff37b61c572a590c9d07ab2e52df205857b74d
00:04:27 Successfully built omero-py
00:04:28 Installing collected packages: omero-py
00:04:28 Attempting uninstall: omero-py
00:04:28 Found existing installation: omero-py 5.23.0
00:04:29 Uninstalling omero-py-5.23.0:
00:04:40 Successfully uninstalled omero-py-5.23.0
00:04:58 Successfully installed omero-py-5.23.1.dev0
00:04:58 + for x in *.tar.gz
00:04:58 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
00:04:59 Processing ./omero_scripts-5.10.1.dev0.tar.gz
00:04:59 Installing build dependencies: started
00:05:00 Installing build dependencies: finished with status 'done'
00:05:00 Getting requirements to build wheel: started
00:05:00 Getting requirements to build wheel: finished with status 'done'
00:05:00 Preparing metadata (pyproject.toml): started
00:05:01 Preparing metadata (pyproject.toml): finished with status 'done'
00:05:01 Building wheels for collected packages: omero-scripts
00:05:01 Building wheel for omero-scripts (pyproject.toml): started
00:05:01 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:05:01 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137217 sha256=b51ee4975bc974ca60b7598bed3e146cf4d0589d67439bbd000a1e368ac342ae
00:05:01 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
00:05:01 Successfully built omero-scripts
00:05:01 Installing collected packages: omero-scripts
00:05:03 Successfully installed omero-scripts-5.10.1.dev0
00:05:03 + for x in *.tar.gz
00:05:03 + pip install -U omero_web-5.33.3.dev0.tar.gz
00:05:04 Processing ./omero_web-5.33.3.dev0.tar.gz
00:05:04 Installing build dependencies: started
00:05:05 Installing build dependencies: finished with status 'done'
00:05:05 Getting requirements to build wheel: started
00:05:06 Getting requirements to build wheel: finished with status 'done'
00:05:06 Preparing metadata (pyproject.toml): started
00:05:06 Preparing metadata (pyproject.toml): finished with status 'done'
00:05:06 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (5.23.1.dev0)
00:05:06 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.33.3.dev0)
00:05:06 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
00:05:06 Collecting Django<5.3,>=5.2.9 (from omero-web==5.33.3.dev0)
00:05:06 Using cached django-5.2.17-py3-none-any.whl.metadata (4.1 kB)
00:05:07 Collecting django-pipeline>=4.1.0 (from omero-web==5.33.3.dev0)
00:05:07 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
00:05:07 Collecting django-cors-headers==3.7.0 (from omero-web==5.33.3.dev0)
00:05:07 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:05:07 Collecting whitenoise>=5.3.0 (from omero-web==5.33.3.dev0)
00:05:07 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
00:05:07 Collecting gunicorn>=19.3 (from omero-web==5.33.3.dev0)
00:05:07 Using cached gunicorn-26.2.0-py3-none-any.whl.metadata (5.5 kB)
00:05:07 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (0.9.2.dev0)
00:05:07 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (12.3.0)
00:05:07 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (2026.4)
00:05:07 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (4.4.0)
00:05:07 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (26.3)
00:05:07 Collecting importlib-resources (from omero-web==5.33.3.dev0)
00:05:07 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
00:05:08 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.33.3.dev0)
00:05:08 Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
00:05:08 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.33.3.dev0)
00:05:08 Using cached sqlparse-0.6.0-py3-none-any.whl.metadata (6.0 kB)
00:05:08 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.33.3.dev0) (65.5.1)
00:05:08 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.33.3.dev0)
00:05:08 Using cached wheel-0.48.0-py3-none-any.whl.metadata (2.3 kB)
00:05:08 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (1.4.4)
00:05:08 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (1.0.0)
00:05:08 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (2.4.6)
00:05:08 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (6.0.3)
00:05:08 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==5.33.3.dev0) (3.6.5)
00:05:08 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (2.34.2)
00:05:08 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.5.1)
00:05:08 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.20)
00:05:08 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (2.8.0)
00:05:08 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (2026.7.22)
00:05:08 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:05:08 Using cached django-5.2.17-py3-none-any.whl (8.3 MB)
00:05:08 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
00:05:08 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
00:05:08 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
00:05:08 Using cached gunicorn-26.2.0-py3-none-any.whl (228 kB)
00:05:08 Using cached sqlparse-0.6.0-py3-none-any.whl (50 kB)
00:05:08 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
00:05:09 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
00:05:09 Using cached wheel-0.48.0-py3-none-any.whl (33 kB)
00:05:09 Building wheels for collected packages: omero-web
00:05:09 Building wheel for omero-web (pyproject.toml): started
00:05:10 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:05:10 Created wheel for omero-web: filename=omero_web-5.33.3.dev0-py3-none-any.whl size=2821707 sha256=a45c602f6298ffd27e3a6d193d46c24f667f456da0a3f33f888d4d4b3948578e
00:05:10 Stored in directory: /home/omero/.cache/pip/wheels/f9/cc/88/86aa2065a36d21a568dcadc16454372077670d9ca1a7b14a82
00:05:10 Successfully built omero-web
00:05:10 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
00:06:17
00:06:18 Successfully installed Django-5.2.17 asgiref-3.12.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.2.0 importlib-resources-7.1.0 omero-web-5.33.3.dev0 sqlparse-0.6.0 wheel-0.48.0 whitenoise-6.12.0
00:06:18 + omero config set omero.db.name OMERO-server
00:06:26 + omero config set omero.db.host pg
00:06:32 + omero config set omero.db.user postgres
00:06:38 + omero config set omero.data.dir /home/omero/omero-server-data
00:06:43 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:06:50 + omero config set omero.db.poolsize 25
00:06:56 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:07:01 + omero config set omero.security.trustStorePassword changeit
00:07:07 + omero config set omero.mail.config true
00:07:13 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:07:18 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
00:07:24 + omero certificates
00:07:29 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
00:07:29 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:07:29 + '[' false = true ']'
00:07:29 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:07:29 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:07:29 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:07:30 2026-09-29 00:07:30,184 [ omego.db] DEBUG dbcommand => upgrade
00:07:30 2026-09-29 00:07:30,184 [ omego.db] DEBUG dbhost => localhost
00:07:30 2026-09-29 00:07:30,185 [ omego.db] DEBUG dbname => OMERO-server
00:07:30 2026-09-29 00:07:30,185 [ omego.db] DEBUG dbpass => omero
00:07:30 2026-09-29 00:07:30,185 [ omego.db] DEBUG dbuser => omero
00:07:30 2026-09-29 00:07:30,185 [ omego.db] DEBUG rootpass => omero
00:07:30 2026-09-29 00:07:30,185 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:07:30 2026-09-29 00:07:30,186 [omego.extern] INFO Executing : omero version
00:07:35 OMERO.py version:
00:07:35 OMERO.server version:
00:07:35 5.6.3-687-a5751f6843-ice36-b92
00:07:35 5.23.1.dev0
00:07:36 2026-09-29 00:07:36,043 [omego.extern] INFO Completed [5.857 s]
00:07:36 2026-09-29 00:07:36,044 [omego.extern] DEBUG Using omero CLI from omero
00:07:36 2026-09-29 00:07:36,044 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:07:36 2026-09-29 00:07:36,044 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:07:36 2026-09-29 00:07:36,044 [omego.extern] INFO Executing : omero config get --show-password
00:07:41 2026-09-29 00:07:41,944 [omego.extern] INFO Completed [5.900 s]
00:07:41 2026-09-29 00:07:41,944 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:07:41 2026-09-29 00:07:41,944 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:07:42 2026-09-29 00:07:42,154 [omego.extern] INFO Completed [0.210 s]
00:07:42 2026-09-29 00:07:42,154 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
00:07:42 2026-09-29 00:07:42,154 [ omego.db] INFO psql version: psql (PostgreSQL) 16.14
00:07:42
00:07:42 2026-09-29 00:07:42,154 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:07:42 2026-09-29 00:07:42,154 [omego.extern] INFO Executing : omero config get --show-password
00:07:48 2026-09-29 00:07:48,150 [omego.extern] INFO Completed [5.996 s]
00:07:48 2026-09-29 00:07:48,151 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:07:48 2026-09-29 00:07:48,151 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:07:48 2026-09-29 00:07:48,182 [omego.extern] INFO Completed [0.032 s]
00:07:48 2026-09-29 00:07:48,182 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.12") at port "5432".\n'
00:07:48 2026-09-29 00:07:48,182 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:07:48 2026-09-29 00:07:48,182 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:07:48 2026-09-29 00:07:48,182 [omego.extern] INFO Executing : omero config get --show-password
00:07:53 2026-09-29 00:07:53,940 [omego.extern] INFO Completed [5.758 s]
00:07:53 2026-09-29 00:07:53,941 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:07:53 2026-09-29 00:07:53,941 [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
00:07:54 2026-09-29 00:07:54,026 [omego.extern] INFO Completed [0.086 s]
00:07:54 2026-09-29 00:07:54,027 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:07:54 2026-09-29 00:07:54,027 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:07:54 2026-09-29 00:07:54,077 [ omego.db] INFO Database is already at OMERO5.4__0
00:07:54 + export LANG=en_US.UTF-8
00:07:54 + LANG=en_US.UTF-8
00:07:54 + export LANGUAGE=en_US:en
00:07:54 + LANGUAGE=en_US:en
00:07:54 + export LC_ALL=en_US.UTF-8
00:07:54 + LC_ALL=en_US.UTF-8
00:07:54 + BUILD_ID=DONT_KILL_ME
00:07:54 + omero admin start
00:08:08 No descriptor given. Using etc/grid/default.xml
00:08:21 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:08:21 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:08:21 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:08:21 Waiting on startup. Use CTRL-C to exit
00:08:22 + omero admin waitup
00:08:28 Waiting on startup. Use CTRL-C to exit
00:08:29 + omero admin diagnostics
00:08:36
00:08:36 ================================================================================
00:08:36 OMERO Diagnostics (admin)
00:08:36 ================================================================================
00:08:36
00:08:36 Commands: java -version 21.0.12 (/usr/bin/java)
00:08:36 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:08:36 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:08:36 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:08:36 Commands: psql --version 16.14 (/usr/bin/psql)
00:08:36 Commands: openssl version 3.5.527 (/usr/bin/openssl)
00:08:36
00:08:36 Component: OMERO.py 5.23.1.dev0
00:08:36 Component: OMERO.server 5.6.3-687-a5751f6843-ice36-b92
00:08:36
00:08:36 Server: icegridnode running
00:08:36 Server: Blitz-0 active (pid = 33969, enabled)
00:08:36 Server: Indexer-0 active (pid = 33993, enabled)
00:08:36 Server: OMERO.Glacier2 active (pid = 33988, enabled)
00:08:36 Server: OMERO.IceStorm active (pid = 34019, enabled)
00:08:36 Server: Processor-0 active (pid = 33999, enabled)
00:08:36 Server: Tables-0 active (pid = 34016, enabled)
00:08:36
00:08:36 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:08:36 Log files: Blitz-0.log 32.3 KB errors=0 warnings=1
00:08:36 Log files: DropBox.log n/a
00:08:36 Log files: FileServer.log n/a
00:08:36 Log files: Indexer-0.log 2.6 KB
00:08:36 Log files: MonitorServer.log n/a
00:08:36 Log files: Processor-0.log 856 B
00:08:36 Log files: Tables-0.log 1.1 KB
00:08:36 Log files: TestDropBox.log n/a
00:08:36 Log files: master.err empty
00:08:36 Log files: master.out 30.7 KB
00:08:36 Log files: Total size 0.07 MB
00:08:36
00:08:36
00:08:36 Environment:OMERO_HOME=(unset)
00:08:36 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:08:36 Environment:OMERO_NODE=(unset)
00:08:36 Environment:OMERO_MASTER=(unset)
00:08:36 Environment:OMERO_USERDIR=(unset)
00:08:36 Environment:OMERO_TMPDIR=(unset)
00:08:36 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
00:08:36 Environment:PYTHONPATH=(unset)
00:08:36 Environment:ICE_HOME=/opt/ice-3.6.5
00:08:36 Environment:LD_LIBRARY_PATH=(unset)
00:08:36 Environment:DYLD_LIBRARY_PATH=(unset)
00:08:36
00:08:36 OMERO SSL port:4064
00:08:36 OMERO TCP port:4063
00:08:36 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:08:36 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:08:36
00:08:36 JVM settings: Blitz-${index} -Xmx5007m
00:08:36 JVM settings: Indexer-${index} -Xmx3338m
00:08:36 JVM settings: PixelData-${index} -Xmx5007m
00:08:36 JVM settings: Repository-${index} -Xmx3338m
00:08:36
00:08:36 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
00:08:36 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
00:08:36 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
00:08:36 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3 26 February 2026 70fd9b72a9834f1af4852c1e5b5676c57a2c360e
00:08:36 Jar: lib/server/ome-common.jar OME Common Java 6.2.1 27 February 2026 a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
00:08:36 Jar: lib/server/ome-jai.jar OME JAI 0.1.5 30 June 2025 257a1c1410c0103485248d05752a5174262a38b6
00:08:36 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4 25 June 2025 57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
00:08:36 Jar: lib/server/ome-poi.jar OME POI 5.3.11 11 November 2025 a2f3944ac71db9e7e51a6f64ec46beeb60613afb
00:08:36 Jar: lib/server/ome-xml.jar OME XML library 6.5.3 22 January 2026 21d1362abd9ce26e13888d2b2d028753d21ac96e
00:08:36 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT
00:08:36 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
00:08:36 Jar: lib/server/omero-gateway.jar jar 5.11.1-SNAPSHOT
00:08:36 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
00:08:36 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
00:08:36 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
00:08:36 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT
00:08:36 Jar: lib/server/omero-zarr-pixel-buffer.jar OMERO Zarr Pixel Buffer 0.7.1 4b6dbee3741150881c01c9929abd8d1961bd9dc8
00:08:37 + deactivate
00:08:37 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:08:37 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:08:37 + export PATH
00:08:37 + unset _OLD_VIRTUAL_PATH
00:08:37 + '[' -n '' ']'
00:08:37 + hash -r
00:08:37 + '[' -n '' ']'
00:08:37 + unset VIRTUAL_ENV
00:08:37 + unset VIRTUAL_ENV_PROMPT
00:08:37 + '[' '!' '' = nondestructive ']'
00:08:37 + unset -f deactivate
00:08:37 Finished: SUCCESS
