01:50:16 Started by upstream project "Trigger" build number 66
01:50:16 originally caused by:
01:50:16 Started by timer
01:50:16 Running as SYSTEM
01:50:16 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
01:50:16 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14519684398844804898.sh
01:50:16 + source /home/settings.env
01:50:16 ++ OMERO_DB_HOST=pg
01:50:16 ++ OMERO_DB_USER=postgres
01:50:16 ++ OMERO_DB_PASS=
01:50:16 ++ OMERO_ROOT_PASS=omero
01:50:16 ++ OMERO_DATA_DIR=/OMERO
01:50:16 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
01:50:16 + OMERO_DB_NAME=OMERO-server
01:50:16 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
01:50:16 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:50:16 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:50:16 + OMERO_DATA_DIR=/home/omero/omero-server-data
01:50:16 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
01:50:16 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
01:50:16 ++ deactivate nondestructive
01:50:16 ++ '[' -n '' ']'
01:50:16 ++ '[' -n '' ']'
01:50:16 ++ hash -r
01:50:16 ++ '[' -n '' ']'
01:50:16 ++ unset VIRTUAL_ENV
01:50:16 ++ unset VIRTUAL_ENV_PROMPT
01:50:16 ++ '[' '!' nondestructive = nondestructive ']'
01:50:16 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
01:50:16 ++ export VIRTUAL_ENV
01:50:16 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:50:16 ++ 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
01:50:16 ++ export PATH
01:50:16 ++ '[' -n '' ']'
01:50:16 ++ '[' -z '' ']'
01:50:16 ++ _OLD_VIRTUAL_PS1=
01:50:16 ++ PS1='(.venv3) '
01:50:16 ++ export PS1
01:50:16 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
01:50:16 ++ export VIRTUAL_ENV_PROMPT
01:50:16 ++ hash -r
01:50:16 + omero admin stop
01:50:29 Waiting on shutdown. Use CTRL-C to exit
01:50:29 .+ sleep 5
01:50:45 + deactivate
01:50:45 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
01:50:45 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:50:45 + export PATH
01:50:45 + unset _OLD_VIRTUAL_PATH
01:50:45 + '[' -n '' ']'
01:50:45 + hash -r
01:50:45 + '[' -n '' ']'
01:50:45 + unset VIRTUAL_ENV
01:50:45 + unset VIRTUAL_ENV_PROMPT
01:50:45 + '[' '!' '' = nondestructive ']'
01:50:45 + unset -f deactivate
01:50:45 + rm -rf /home/omero/workspace/OMERO-server/.venv3
01:53:25 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
01:53:45 + '[' false = true ']'
01:53:45 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
01:53:45 Skipping PURGE_DATA:CleanDbAndRepo
01:53:45 + 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-5.32.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
01:53:51 Copied 1 artifact from "OMERO-build" build number 59
01:53:51 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 49
01:53:52 Copied 2 artifacts from "OMERO-build-build" build number 61
01:53:52 [OMERO-server] $ /bin/bash -xe /tmp/jenkins11869178724645577496.sh
01:53:52 + source /home/settings.env
01:53:52 ++ OMERO_DB_HOST=pg
01:53:52 ++ OMERO_DB_USER=postgres
01:53:52 ++ OMERO_DB_PASS=
01:53:52 ++ OMERO_ROOT_PASS=omero
01:53:52 ++ OMERO_DATA_DIR=/OMERO
01:53:52 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
01:53:52 + OMERO_DB_NAME=OMERO-server
01:53:52 + OMERO_DATA_DIR=/home/omero/omero-server-data
01:53:52 + mkdir -p /home/omero/omero-server-data
01:53:52 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
01:53:52 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:53:52 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:53:52 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
01:53:52 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
01:53:52 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
01:53:52 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
01:53:52 ++ ls OMERO.server-5.6.3-675-522ea259c3-ice36-b59.zip
01:53:52 + ZIP=OMERO.server-5.6.3-675-522ea259c3-ice36-b59.zip
01:53:52 + '[' '!' -z '' ']'
01:53:52 + DIST=OMERO.server-5.6.3-675-522ea259c3-ice36-b59
01:53:52 + unzip OMERO.server-5.6.3-675-522ea259c3-ice36-b59.zip
01:53:52 Archive: OMERO.server-5.6.3-675-522ea259c3-ice36-b59.zip
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/blitz/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/grid/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/profiles/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/error/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/grid/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/luts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/luts/janelia/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/luts/matplotlib/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/luts/ncsa_paledit/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/luts/seaborn/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/luts/wcif/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/analysis_scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/annotation_scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/export_scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/figure_scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/import_scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/scripts/omero/util_scripts/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/server/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/misc/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__1/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__10/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__11/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__2/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__3/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__4/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__5/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__6/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__7/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__8/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__9/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__4/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__5/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__6/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__7/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.1__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.2__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.2__0/t/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.3__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.4__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.0__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.1__1/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.2__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4DEV__1/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4DEV__2/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4DEV__3/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/var/
01:53:52 creating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/var/tmp/
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/LICENSE.txt
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/backup.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/blitz/mail-senders.example
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/blitz/mail-server.example
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/build.properties
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/env.bat
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/env.sh
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/hibernate.properties
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/ice.config
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/logback-cli.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/logback-indexing-cli.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/logback-indexing.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/logback.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/mime.types
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/node1.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/node2.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/omero.properties
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/profiles/psql
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/rollover.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/Windows.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/error/maintainance.html
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/grid/README
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/grid/default.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/grid/templates.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/grid/windefault.xml
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/ice.config
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/internal.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/master.cfg
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/templates/robot.template
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/etc/testdropbox.config
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/history.rst
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/OMEZarrReader.jar
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/accessors-smart.jar
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/activation.jar
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aggdesigner-algorithm.jar
01:53:52 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aircompressor.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/annotations.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/antlr.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aopalliance.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/apache-client.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/apiguardian-api.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/arns.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/asm.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/auth.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/avatica-core.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/avatica-metrics.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aws-core.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aws-java-sdk-core.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aws-java-sdk-kms.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aws-java-sdk-s3.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aws-query-protocol.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/aws-xml-protocol.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/base.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-anim.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-awt-util.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-bridge.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-codec.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-constants.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-css.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-dom.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-ext.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-gvt.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-i18n.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-parser.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-script.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-shared-resources.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-svg-dom.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-svggen.jar
01:53:53 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-transcoder.jar
01:53:54 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-util.jar
01:53:54 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/batik-xml.jar
01:53:54 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/blosc-java.jar
01:53:54 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/client/btm.jar
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01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/server/xmlgraphics-commons.jar
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/server/xmpcore.jar
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/server/xpp3.jar
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/server/zarr-java.jar
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/lib/server/zstd-jni.jar
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/README
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/agpl.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/antlr.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/apache-v1.1.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/apache-v2.0.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/asm.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/bouncy_castle_license.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/bsd.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/cddl-v1.0.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/cpl-v10.html
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/crystalclear.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/django.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/dom4j.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/epl-v1.0.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/fbsd.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/freemarker.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/gpl-v2.0.txt
01:54:09 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/gpl.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/gtest.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/iconsweets_license.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/jamon.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/jmock.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/jquery.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/jtidy.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/lgpl-3.0.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/lgpl-v2.0.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/lgpl-v2.1.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/lgpl-v3.0.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/lgpl.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/matplotlib.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/mit.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/mpl-v1_0.htm
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/npl-1_1.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/path.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/pil.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/postgresql.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/psf-v2.0.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/psf-v2.5.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/scons.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/slf4j.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/tablelayout.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/which.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/zlib-libpng.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/share/licenses/zpl-v2.1.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/README.txt
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/misc/Makefile
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/misc/current.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/misc/enums.py
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__1/OMERO3__7.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__10/OMERO3A__9.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__11/OMERO3A__10.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__11/OMERO3A__5.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__2/OMERO3A__1.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__3/OMERO3A__2.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__3/OMERO3__5.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__4/OMERO3A__3.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__4/OMERO3__5.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__5/OMERO3A__4.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__6/OMERO3A__5.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__7/OMERO3A__6.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__8/OMERO3A__6.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3A__9/OMERO3A__8.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__4/OMERO3__1.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__5/OMERO3__4.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__6/OMERO3__5.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO3__7/OMERO3__6.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.1__0/OMERO4__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO4__0/OMERO3A__11.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
01:54:10 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
01:54:11 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
01:54:11 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
01:54:11 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/psql-footer.sql
01:54:11 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/psql-header.sql
01:54:11 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/schema.sql
01:54:11 inflating: OMERO.server-5.6.3-675-522ea259c3-ice36-b59/sql/psql/OMERO5.4__0/views.sql
01:54:11 + rm -f OMERO.server-5.6.3-675-522ea259c3-ice36-b59.zip
01:54:11 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-675-522ea259c3-ice36-b59 /home/omero/workspace/OMERO-server/OMERO.server
01:54:11 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
01:54:11 ++ deactivate nondestructive
01:54:11 ++ '[' -n '' ']'
01:54:11 ++ '[' -n '' ']'
01:54:11 ++ hash -r
01:54:11 ++ '[' -n '' ']'
01:54:11 ++ unset VIRTUAL_ENV
01:54:11 ++ unset VIRTUAL_ENV_PROMPT
01:54:11 ++ '[' '!' nondestructive = nondestructive ']'
01:54:11 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
01:54:11 ++ export VIRTUAL_ENV
01:54:11 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:54:11 ++ 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
01:54:11 ++ export PATH
01:54:11 ++ '[' -n '' ']'
01:54:11 ++ '[' -z '' ']'
01:54:11 ++ _OLD_VIRTUAL_PS1=
01:54:11 ++ PS1='(.venv3) '
01:54:11 ++ export PS1
01:54:11 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
01:54:11 ++ export VIRTUAL_ENV_PROMPT
01:54:11 ++ hash -r
01:54:11 + pip install -U pip
01:54:12 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
01:54:12 Collecting pip
01:54:12 Using cached pip-26.2.1-py3-none-any.whl (1.8 MB)
01:54:12 Installing collected packages: pip
01:54:12 Attempting uninstall: pip
01:54:12 Found existing installation: pip 22.3.1
01:54:13 Uninstalling pip-22.3.1:
01:54:13 Successfully uninstalled pip-22.3.1
01:54:28 Successfully installed pip-26.2.1
01:54:28 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
01:54:29 Collecting zeroc-ice==3.6.5
01:54:29 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
01:54:32 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 13.0 MB/s 0:00:02
01:54:32 Installing collected packages: zeroc-ice
01:54:36 Successfully installed zeroc-ice-3.6.5
01:54:36 + pip install markdown
01:54:36 Collecting markdown
01:54:37 Using cached markdown-3.10.3-py3-none-any.whl.metadata (5.1 kB)
01:54:37 Using cached markdown-3.10.3-py3-none-any.whl (110 kB)
01:54:37 Installing collected packages: markdown
01:54:38 Successfully installed markdown-3.10.3
01:54:38 + pip install reportlab
01:54:39 Collecting reportlab
01:54:39 Using cached reportlab-5.0.1-py3-none-any.whl.metadata (1.6 kB)
01:54:39 Collecting pillow>=9.0.0 (from reportlab)
01:54:39 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
01:54:39 Collecting charset-normalizer (from reportlab)
01:54:39 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)
01:54:39 Using cached reportlab-5.0.1-py3-none-any.whl (2.0 MB)
01:54:39 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
01:54:39 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)
01:54:39 Installing collected packages: pillow, charset-normalizer, reportlab
01:54:49
01:54:49 Successfully installed charset-normalizer-3.5.1 pillow-12.3.0 reportlab-5.0.1
01:54:49 + pip install omego
01:54:50 Collecting omego
01:54:50 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
01:54:50 Collecting future (from omego)
01:54:50 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
01:54:50 Collecting yaclifw>=0.1.1 (from omego)
01:54:50 Using cached yaclifw-0.2.0-py3-none-any.whl
01:54:50 Collecting six (from yaclifw>=0.1.1->omego)
01:54:50 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
01:54:50 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
01:54:50 Using cached future-1.0.0-py3-none-any.whl (491 kB)
01:54:50 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
01:54:51 Installing collected packages: six, future, yaclifw, omego
01:54:56
01:54:56 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
01:54:56 + pip install tables
01:54:57 Collecting tables
01:54:57 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)
01:54:57 Collecting numpy>=1.20.0 (from tables)
01:54:57 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
01:54:57 Collecting numexpr>=2.6.2 (from tables)
01:54:57 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
01:54:57 Collecting packaging (from tables)
01:54:57 Using cached packaging-26.3-py3-none-any.whl.metadata (3.5 kB)
01:54:58 Collecting py-cpuinfo (from tables)
01:54:58 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
01:54:58 Collecting blosc2>=2.3.0 (from tables)
01:54:58 Using cached blosc2-4.11.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (7.8 kB)
01:54:58 Collecting ndindex (from blosc2>=2.3.0->tables)
01:54:58 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
01:54:58 Collecting msgpack (from blosc2>=2.3.0->tables)
01:54:58 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)
01:54:58 Collecting pydantic (from blosc2>=2.3.0->tables)
01:54:58 Using cached pydantic-2.13.4-py3-none-any.whl.metadata (109 kB)
01:54:59 Collecting httpx[http2] (from blosc2>=2.3.0->tables)
01:54:59 Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB)
01:54:59 Collecting rich (from blosc2>=2.3.0->tables)
01:54:59 Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
01:54:59 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
01:54:59 Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
01:54:59 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables)
01:54:59 Using cached anyio-4.14.2-py3-none-any.whl.metadata (4.6 kB)
01:54:59 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables)
01:54:59 Using cached certifi-2026.7.22-py3-none-any.whl.metadata (2.5 kB)
01:54:59 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables)
01:54:59 Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB)
01:54:59 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables)
01:55:00 Using cached idna-3.19-py3-none-any.whl.metadata (9.2 kB)
01:55:00 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables)
01:55:00 Using cached h2-4.4.1-py3-none-any.whl.metadata (3.8 kB)
01:55:00 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
01:55:00 Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB)
01:55:00 Collecting hpack<5,>=4.2 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
01:55:00 Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB)
01:55:00 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables)
01:55:00 Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
01:55:00 Collecting typing_extensions>=4.5 (from anyio->httpx[http2]->blosc2>=2.3.0->tables)
01:55:00 Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
01:55:00 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
01:55:00 Using cached annotated_types-0.8.0-py3-none-any.whl.metadata (15 kB)
01:55:01 Collecting pydantic-core==2.46.4 (from pydantic->blosc2>=2.3.0->tables)
01:55:01 Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB)
01:55:01 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables)
01:55:01 Using cached typing_inspection-0.4.4-py3-none-any.whl.metadata (2.6 kB)
01:55:01 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
01:55:01 Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
01:55:01 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
01:55:01 Using cached pygments-2.21.0-py3-none-any.whl.metadata (2.5 kB)
01:55:02 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
01:55:02 Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
01:55:02 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)
01:55:02 Using cached blosc2-4.11.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.5 MB)
01:55:02 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB)
01:55:02 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
01:55:02 Using cached httpx-0.28.1-py3-none-any.whl (73 kB)
01:55:02 Using cached h2-4.4.1-py3-none-any.whl (62 kB)
01:55:02 Using cached hpack-4.2.0-py3-none-any.whl (34 kB)
01:55:02 Using cached httpcore-1.0.9-py3-none-any.whl (78 kB)
01:55:02 Using cached hyperframe-6.1.0-py3-none-any.whl (13 kB)
01:55:02 Using cached h11-0.16.0-py3-none-any.whl (37 kB)
01:55:02 Using cached anyio-4.14.2-py3-none-any.whl (125 kB)
01:55:02 Using cached idna-3.19-py3-none-any.whl (68 kB)
01:55:02 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
01:55:02 Using cached certifi-2026.7.22-py3-none-any.whl (136 kB)
01:55:02 Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (423 kB)
01:55:02 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
01:55:02 Using cached packaging-26.3-py3-none-any.whl (129 kB)
01:55:02 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
01:55:02 Using cached pydantic-2.13.4-py3-none-any.whl (472 kB)
01:55:02 Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
01:55:02 Using cached annotated_types-0.8.0-py3-none-any.whl (13 kB)
01:55:02 Using cached typing_inspection-0.4.4-py3-none-any.whl (14 kB)
01:55:02 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
01:55:02 Using cached pygments-2.21.0-py3-none-any.whl (1.3 MB)
01:55:02 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB)
01:55:02 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
01:55:03 Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
01:55:03 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
01:55:59
01:56:00 Successfully installed annotated-types-0.8.0 anyio-4.14.2 blosc2-4.11.0 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-3.19 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-26.3 py-cpuinfo-9.0.0 pydantic-2.13.4 pydantic-core-2.46.4 pygments-2.21.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.6.0 typing-inspection-0.4.4 typing_extensions-4.16.0
01:56:00 + pip install jinja2
01:56:01 Collecting jinja2
01:56:01 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
01:56:01 Collecting MarkupSafe>=2.0 (from jinja2)
01:56:01 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)
01:56:01 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
01:56:01 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
01:56:01 Installing collected packages: MarkupSafe, jinja2
01:56:02
01:56:02 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
01:56:02 + pip install omero-py
01:56:03 Collecting omero-py
01:56:03 Using cached omero_py-5.23.0-py3-none-any.whl.metadata (6.5 kB)
01:56:03 Collecting appdirs (from omero-py)
01:56:03 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
01:56:03 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
01:56:03 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
01:56:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
01:56:03 Collecting PyYAML (from omero-py)
01:56:04 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)
01:56:04 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
01:56:04 Collecting requests (from omero-py)
01:56:04 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
01:56:04 Collecting portalocker (from omero-py)
01:56:04 Downloading portalocker-4.2.0-py3-none-any.whl.metadata (11 kB)
01:56:04 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.5.1)
01:56:04 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.19)
01:56:04 Collecting urllib3<3,>=1.26 (from requests->omero-py)
01:56:04 Using cached urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB)
01:56:04 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.7.22)
01:56:04 Using cached omero_py-5.23.0-py3-none-any.whl (2.8 MB)
01:56:04 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
01:56:04 Downloading portalocker-4.2.0-py3-none-any.whl (128 kB)
01:56:04 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
01:56:04 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
01:56:04 Using cached urllib3-2.7.0-py3-none-any.whl (131 kB)
01:56:05 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
01:56:22
01:56:22 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.23.0 portalocker-4.2.0 requests-2.34.2 urllib3-2.7.0
01:56:22 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
01:56:23 Collecting omero-metadata
01:56:23 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-bxzv9qtl/omero-metadata_68ede4afd54a43dea004309cd67c331e
01:56:23 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-bxzv9qtl/omero-metadata_68ede4afd54a43dea004309cd67c331e
01:56:24 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 3d4426ae66dd7195231fe3d5a286a40d0e3fd95f
01:56:24 Installing build dependencies: started
01:56:26 Installing build dependencies: finished with status 'done'
01:56:26 Getting requirements to build wheel: started
01:56:26 Getting requirements to build wheel: finished with status 'done'
01:56:26 Preparing metadata (pyproject.toml): started
01:56:26 Preparing metadata (pyproject.toml): finished with status 'done'
01:56:26 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.23.0)
01:56:26 Collecting pandas<3,>=2 (from omero-metadata)
01:56:26 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
01:56:26 Requirement already satisfied: numpy>=1.23.2 in ./.venv3/lib64/python3.11/site-packages (from pandas<3,>=2->omero-metadata) (2.4.6)
01:56:27 Collecting python-dateutil>=2.8.2 (from pandas<3,>=2->omero-metadata)
01:56:27 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
01:56:27 Collecting pytz>=2020.1 (from pandas<3,>=2->omero-metadata)
01:56:27 Using cached pytz-2026.3.post1-py2.py3-none-any.whl.metadata (22 kB)
01:56:27 Collecting tzdata>=2022.7 (from pandas<3,>=2->omero-metadata)
01:56:27 Using cached tzdata-2026.3-py2.py3-none-any.whl.metadata (1.4 kB)
01:56:27 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
01:56:27 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
01:56:27 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)
01:56:27 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (6.0.3)
01:56:27 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)
01:56:27 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
01:56:27 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (4.2.0)
01:56:27 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)
01:56:27 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)
01:56:27 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.19)
01:56:27 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)
01:56:27 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)
01:56:27 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
01:56:27 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
01:56:27 Using cached pytz-2026.3.post1-py2.py3-none-any.whl (508 kB)
01:56:27 Using cached tzdata-2026.3-py2.py3-none-any.whl (348 kB)
01:56:27 Building wheels for collected packages: omero-metadata
01:56:27 Building wheel for omero-metadata (pyproject.toml): started
01:56:27 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
01:56:27 Created wheel for omero-metadata: filename=omero_metadata-0.14.1.dev0-py3-none-any.whl size=39360 sha256=58df3b74ae557c52864c66d6b820c78e59ebc090a6007a81fad913f242711031
01:56:27 Stored in directory: /tmp/pip-ephem-wheel-cache-iowxrduo/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
01:56:27 Successfully built omero-metadata
01:56:28 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
01:57:14
01:57:14 Successfully installed omero-metadata-0.14.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2026.3.post1 tzdata-2026.3
01:57:14 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
01:57:15 Collecting omero-cli-render
01:57:15 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-7hduun5w/omero-cli-render_0d0a9060cc2e4e9a8dcffbe3040452e2
01:57:15 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-7hduun5w/omero-cli-render_0d0a9060cc2e4e9a8dcffbe3040452e2
01:57:16 Running command git checkout -b merge_ci --track origin/merge_ci
01:57:17 Switched to a new branch 'merge_ci'
01:57:17 branch 'merge_ci' set up to track 'origin/merge_ci'.
01:57:17 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit eb99034a045e17cfb90ca42744f5f6772a2ec550
01:57:17 Installing build dependencies: started
01:57:18 Installing build dependencies: finished with status 'done'
01:57:18 Getting requirements to build wheel: started
01:57:18 Getting requirements to build wheel: finished with status 'done'
01:57:18 Preparing metadata (pyproject.toml): started
01:57:18 Preparing metadata (pyproject.toml): finished with status 'done'
01:57:18 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
01:57:18 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.23.0)
01:57:18 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
01:57:18 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
01:57:19 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)
01:57:19 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)
01:57:19 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)
01:57:19 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
01:57:19 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (4.2.0)
01:57:19 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)
01:57:19 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.19)
01:57:19 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)
01:57:19 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)
01:57:19 Building wheels for collected packages: omero-cli-render
01:57:19 Building wheel for omero-cli-render (pyproject.toml): started
01:57:19 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
01:57:19 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=dc3b63a961969ad676ed71ed407fa09a4111b14b9e15d1efd909a0e115fbbc5f
01:57:19 Stored in directory: /tmp/pip-ephem-wheel-cache-ly2558gi/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
01:57:19 Successfully built omero-cli-render
01:57:19 Installing collected packages: omero-cli-render
01:57:19 Successfully installed omero-cli-render-0.8.2.dev0
01:57:19 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
01:57:20 Collecting omero-cli-duplicate
01:57:20 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-ihjr0po6/omero-cli-duplicate_3d04f46e2bdc4824b8fee25c77afe39d
01:57:20 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-ihjr0po6/omero-cli-duplicate_3d04f46e2bdc4824b8fee25c77afe39d
01:57:21 Running command git checkout -b merge_ci --track origin/merge_ci
01:57:21 Switched to a new branch 'merge_ci'
01:57:21 branch 'merge_ci' set up to track 'origin/merge_ci'.
01:57:21 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 90ab6d91c59e1d6ba83e0af0c59035acbe4b2caf
01:57:21 Installing build dependencies: started
01:57:22 Installing build dependencies: finished with status 'done'
01:57:22 Getting requirements to build wheel: started
01:57:23 Getting requirements to build wheel: finished with status 'done'
01:57:23 Preparing metadata (pyproject.toml): started
01:57:23 Preparing metadata (pyproject.toml): finished with status 'done'
01:57:23 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.23.0)
01:57:23 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
01:57:23 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
01:57:23 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
01:57:23 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)
01:57:23 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
01:57:23 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)
01:57:23 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
01:57:23 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (4.2.0)
01:57:23 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.5.1)
01:57:23 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.19)
01:57:23 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)
01:57:23 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.7.22)
01:57:23 Building wheels for collected packages: omero-cli-duplicate
01:57:23 Building wheel for omero-cli-duplicate (pyproject.toml): started
01:57:23 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
01:57:23 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=f09ae235eee22d458a6f45680d966329f6a9c052a9ce3d0b3faf84722a9f40ab
01:57:23 Stored in directory: /tmp/pip-ephem-wheel-cache-5t_15fcy/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
01:57:23 Successfully built omero-cli-duplicate
01:57:23 Installing collected packages: omero-cli-duplicate
01:57:24 Successfully installed omero-cli-duplicate-0.4.1.dev0
01:57:24 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
01:57:24 Collecting omero-cli-zarr
01:57:24 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-abibv5rp/omero-cli-zarr_bdc49083ae494b14bebb7f9292fcf9dd
01:57:24 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-abibv5rp/omero-cli-zarr_bdc49083ae494b14bebb7f9292fcf9dd
01:57:25 Running command git checkout -b merge_ci --track origin/merge_ci
01:57:26 Switched to a new branch 'merge_ci'
01:57:26 branch 'merge_ci' set up to track 'origin/merge_ci'.
01:57:26 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 536b9b2194e899734396e1bc2c3b9a870fa9e61e
01:57:26 Installing build dependencies: started
01:57:27 Installing build dependencies: finished with status 'done'
01:57:27 Getting requirements to build wheel: started
01:57:27 Getting requirements to build wheel: finished with status 'done'
01:57:27 Installing backend dependencies: started
01:57:29 Installing backend dependencies: finished with status 'done'
01:57:29 Preparing metadata (pyproject.toml): started
01:57:29 Preparing metadata (pyproject.toml): finished with status 'done'
01:57:29 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.23.0)
01:57:29 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
01:57:29 Using cached ome_zarr-0.18.0-py3-none-any.whl.metadata (2.9 kB)
01:57:29 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6)
01:57:29 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:29 Using cached dask-2026.7.1-py3-none-any.whl.metadata (3.8 kB)
01:57:29 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:29 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
01:57:30 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)
01:57:30 Using cached fsspec-2026.7.0-py3-none-any.whl.metadata (10 kB)
01:57:30 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:30 Using cached aiohttp-3.14.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
01:57:30 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
01:57:30 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:30 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
01:57:30 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
01:57:31 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
01:57:31 Collecting ome-zarr-models>=1.6 (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB)
01:57:31 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
01:57:31 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached click-8.4.2-py3-none-any.whl.metadata (2.6 kB)
01:57:31 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
01:57:31 Requirement already satisfied: packaging>=20.0 in ./.venv3/lib64/python3.11/site-packages (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr) (26.3)
01:57:31 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
01:57:31 Requirement already satisfied: pyyaml>=5.4.1 in ./.venv3/lib64/python3.11/site-packages (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr) (6.0.3)
01:57:31 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)
01:57:31 Using cached importlib_metadata-9.0.0-py3-none-any.whl.metadata (4.5 kB)
01:57:31 Collecting s3fs>=2026.6.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:31 Using cached s3fs-2026.7.0-py3-none-any.whl.metadata (1.2 kB)
01:57:31 Collecting zipp>=3.20 (from importlib_metadata>=4.13.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:32 Using cached zipp-4.1.0-py3-none-any.whl.metadata (3.6 kB)
01:57:32 Collecting pydantic-zarr>=0.8.2 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:32 Using cached pydantic_zarr-0.9.2-py3-none-any.whl.metadata (4.0 kB)
01:57:32 Collecting pydantic<2.13,>=2.11.5 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:32 Using cached pydantic-2.12.5-py3-none-any.whl.metadata (90 kB)
01:57:32 Requirement already satisfied: annotated-types>=0.6.0 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (0.8.0)
01:57:33 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)
01:57:33 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.3 kB)
01:57:33 Requirement already satisfied: typing-extensions>=4.14.1 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (4.16.0)
01:57:33 Requirement already satisfied: typing-inspection>=0.4.2 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (0.4.4)
01:57:33 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
01:57:33 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
01:57:33 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (12.3.0)
01:57:33 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-zarr) (3.6.5)
01:57:33 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (4.2.0)
01:57:33 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)
01:57:33 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
01:57:33 Collecting aiobotocore<4.0.0,>=2.19.0 (from s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:33 Using cached aiobotocore-3.9.0-py3-none-any.whl.metadata (30 kB)
01:57:33 Collecting aioitertools<1.0.0,>=0.5.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:33 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
01:57:33 Collecting botocore<1.43.57,>=1.43.3 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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01:57:33 Collecting jmespath<2.0.0,>=0.7.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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01:57:34 Collecting multidict<7.0.0,>=6.0.0 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:34 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)
01:57:34 Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in ./.venv3/lib64/python3.11/site-packages (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (2.9.0.post0)
01:57:34 Collecting wrapt<3.0.0,>=1.10.10 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:34 Using cached wrapt-2.3.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
01:57:34 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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01:57:34 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:34 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
01:57:34 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:34 Using cached attrs-26.1.0-py3-none-any.whl.metadata (8.8 kB)
01:57:35 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:35 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)
01:57:35 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
01:57:35 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (16 kB)
01:57:35 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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01:57:37 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
01:57:37 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
01:57:37 Using cached pydantic_zarr-0.9.2-py3-none-any.whl (52 kB)
01:57:38 Using cached s3fs-2026.7.0-py3-none-any.whl (32 kB)
01:57:38 Using cached aiobotocore-3.9.0-py3-none-any.whl (100 kB)
01:57:38 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)
01:57:38 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
01:57:38 Using cached botocore-1.43.56-py3-none-any.whl (15.4 MB)
01:57:38 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
01:57:38 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (246 kB)
01:57:38 Using cached wrapt-2.3.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (161 kB)
01:57:38 Using cached yarl-1.24.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (111 kB)
01:57:38 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl (15 kB)
01:57:38 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
01:57:38 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
01:57:38 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
01:57:38 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (58 kB)
01:57:38 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
01:57:38 Using cached imageio-2.37.4-py3-none-any.whl (318 kB)
01:57:38 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB)
01:57:38 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
01:57:38 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
01:57:38 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
01:57:38 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
01:57:38 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
01:57:38 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
01:57:38 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)
01:57:38 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)
01:57:38 Using cached zipp-4.1.0-py3-none-any.whl (10 kB)
01:57:38 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
01:57:38 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
01:57:38 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
01:57:38 Building wheels for collected packages: omero-cli-zarr
01:57:38 Building wheel for omero-cli-zarr (pyproject.toml): started
01:57:39 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
01:57:39 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev180+g536b9b2-py3-none-any.whl size=39467 sha256=a2ffb1963b15aa9d24b82e5358752e8198967f84488a2c4a8fcc0188e80f6911
01:57:39 Stored in directory: /tmp/pip-ephem-wheel-cache-c6ticg7x/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
01:57:39 Successfully built omero-cli-zarr
01:57:39 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
01:58:17 Attempting uninstall: pydantic-core
01:58:17 Found existing installation: pydantic_core 2.46.4
01:58:17 Uninstalling pydantic_core-2.46.4:
01:58:17 Successfully uninstalled pydantic_core-2.46.4
01:58:53 Attempting uninstall: pydantic
01:58:53 Found existing installation: pydantic 2.13.4
01:58:53 Uninstalling pydantic-2.13.4:
01:58:53 Successfully uninstalled pydantic-2.13.4
01:59:36
01:59:36 Successfully installed Deprecated-1.3.1 aiobotocore-3.9.0 aiohappyeyeballs-2.7.1 aiohttp-3.14.3 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.56 click-8.4.2 cloudpickle-3.1.2 dask-2026.7.1 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.7.0 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.dev180+g536b9b2 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-2026.7.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.3.0 yarl-1.24.5 zarr-3.1.6 zipp-4.1.0
01:59:36 + pip install omero-certificates
01:59:37 Collecting omero-certificates
01:59:37 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
01:59:37 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.23.0)
01:59:37 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
01:59:37 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
01:59:37 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
01:59:37 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)
01:59:37 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
01:59:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
01:59:37 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
01:59:37 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (4.2.0)
01:59:37 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)
01:59:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.19)
01:59:37 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)
01:59:37 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)
01:59:38 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
01:59:38 Installing collected packages: omero-certificates
01:59:38 Successfully installed omero-certificates-0.4.0
01:59:38 + for x in *.tar.gz
01:59:38 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
01:59:39 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
01:59:39 Installing build dependencies: started
01:59:40 Installing build dependencies: finished with status 'done'
01:59:40 Getting requirements to build wheel: started
01:59:41 Getting requirements to build wheel: finished with status 'done'
01:59:41 Preparing metadata (pyproject.toml): started
01:59:41 Preparing metadata (pyproject.toml): finished with status 'done'
01:59:41 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.23.0)
01:59:41 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
01:59:41 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
01:59:41 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)
01:59:41 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)
01:59:41 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
01:59:41 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)
01:59:41 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
01:59:41 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (4.2.0)
01:59:41 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)
01:59:41 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.19)
01:59:41 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)
01:59:41 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)
01:59:41 Building wheels for collected packages: omero-dropbox
01:59:41 Building wheel for omero-dropbox (pyproject.toml): started
01:59:41 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
01:59:41 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49155 sha256=05ca87bc01604a273b7d1d149617952cea71cc508721e8fde20cd9a44a031d49
01:59:41 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
01:59:41 Successfully built omero-dropbox
01:59:42 Installing collected packages: omero-dropbox
01:59:42 Successfully installed omero-dropbox-5.7.1.dev0
01:59:42 + for x in *.tar.gz
01:59:42 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
01:59:43 Processing ./omero_marshal-0.9.2.dev0.tar.gz
01:59:43 Installing build dependencies: started
01:59:45 Installing build dependencies: finished with status 'done'
01:59:45 Getting requirements to build wheel: started
01:59:45 Getting requirements to build wheel: finished with status 'done'
01:59:45 Preparing metadata (pyproject.toml): started
01:59:45 Preparing metadata (pyproject.toml): finished with status 'done'
01:59:45 Building wheels for collected packages: omero_marshal
01:59:45 Building wheel for omero_marshal (pyproject.toml): started
01:59:46 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
01:59:46 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88121 sha256=7fb10a1a9cef118fabd9a9bbeb83afc88942d3e99214ce578c96800a80a4e057
01:59:46 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
01:59:46 Successfully built omero_marshal
01:59:46 Installing collected packages: omero_marshal
01:59:48 Successfully installed omero_marshal-0.9.2.dev0
01:59:48 + for x in *.tar.gz
01:59:48 + pip install -U omero_py-5.23.1.dev0.tar.gz
01:59:49 Processing ./omero_py-5.23.1.dev0.tar.gz
01:59:50 Installing build dependencies: started
01:59:51 Installing build dependencies: finished with status 'done'
01:59:51 Getting requirements to build wheel: started
01:59:51 Getting requirements to build wheel: finished with status 'done'
01:59:51 Preparing metadata (pyproject.toml): started
01:59:51 Preparing metadata (pyproject.toml): finished with status 'done'
01:59:51 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.4.4)
01:59:51 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.0.0)
01:59:51 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.4.6)
01:59:51 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (12.3.0)
01:59:51 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (6.0.3)
01:59:51 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)
01:59:51 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.34.2)
01:59:51 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (4.2.0)
01:59:52 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)
01:59:52 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.19)
01:59:52 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2.7.0)
01:59:52 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)
01:59:52 Building wheels for collected packages: omero-py
01:59:52 Building wheel for omero-py (pyproject.toml): started
01:59:53 Building wheel for omero-py (pyproject.toml): finished with status 'done'
01:59:53 Created wheel for omero-py: filename=omero_py-5.23.1.dev0-py3-none-any.whl size=2787095 sha256=480329c8c98bd009c21151c01e5556d51b9bb783cda4a07944276ad1fc55bdf2
01:59:53 Stored in directory: /home/omero/.cache/pip/wheels/99/0a/38/75d301c3c2feff37b61c572a590c9d07ab2e52df205857b74d
01:59:53 Successfully built omero-py
01:59:53 Installing collected packages: omero-py
01:59:53 Attempting uninstall: omero-py
01:59:53 Found existing installation: omero-py 5.23.0
01:59:54 Uninstalling omero-py-5.23.0:
02:00:10 Successfully uninstalled omero-py-5.23.0
02:00:26 Successfully installed omero-py-5.23.1.dev0
02:00:26 + for x in *.tar.gz
02:00:26 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
02:00:27 Processing ./omero_scripts-5.10.1.dev0.tar.gz
02:00:27 Installing build dependencies: started
02:00:29 Installing build dependencies: finished with status 'done'
02:00:29 Getting requirements to build wheel: started
02:00:29 Getting requirements to build wheel: finished with status 'done'
02:00:29 Preparing metadata (pyproject.toml): started
02:00:29 Preparing metadata (pyproject.toml): finished with status 'done'
02:00:29 Building wheels for collected packages: omero-scripts
02:00:29 Building wheel for omero-scripts (pyproject.toml): started
02:00:29 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
02:00:29 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137217 sha256=e2f9b98afd291fb3c9112656bea6770c5d47dfece9cfde1bda1d77b2906168fa
02:00:29 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
02:00:30 Successfully built omero-scripts
02:00:30 Installing collected packages: omero-scripts
02:00:31 Successfully installed omero-scripts-5.10.1.dev0
02:00:31 + for x in *.tar.gz
02:00:31 + pip install -U omero_web-5.32.1.dev0.tar.gz
02:00:32 Processing ./omero_web-5.32.1.dev0.tar.gz
02:00:32 Installing build dependencies: started
02:00:33 Installing build dependencies: finished with status 'done'
02:00:33 Getting requirements to build wheel: started
02:00:34 Getting requirements to build wheel: finished with status 'done'
02:00:34 Preparing metadata (pyproject.toml): started
02:00:34 Preparing metadata (pyproject.toml): finished with status 'done'
02:00:34 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (5.23.1.dev0)
02:00:34 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.32.1.dev0)
02:00:34 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
02:00:34 Collecting Django<5.3,>=5.2.9 (from omero-web==5.32.1.dev0)
02:00:34 Using cached django-5.2.17-py3-none-any.whl.metadata (4.1 kB)
02:00:34 Collecting django-pipeline>=4.1.0 (from omero-web==5.32.1.dev0)
02:00:35 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
02:00:35 Collecting django-cors-headers==3.7.0 (from omero-web==5.32.1.dev0)
02:00:35 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
02:00:35 Collecting whitenoise>=5.3.0 (from omero-web==5.32.1.dev0)
02:00:35 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
02:00:35 Collecting gunicorn>=19.3 (from omero-web==5.32.1.dev0)
02:00:35 Using cached gunicorn-26.1.0-py3-none-any.whl.metadata (5.5 kB)
02:00:35 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)
02:00:35 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (12.3.0)
02:00:35 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (2026.3.post1)
02:00:35 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (4.2.0)
02:00:35 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (26.3)
02:00:35 Collecting importlib-resources (from omero-web==5.32.1.dev0)
02:00:35 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
02:00:35 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
02:00:35 Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
02:00:35 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
02:00:35 Using cached sqlparse-0.6.0-py3-none-any.whl.metadata (6.0 kB)
02:00:35 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)
02:00:35 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0)
02:00:36 Using cached wheel-0.48.0-py3-none-any.whl.metadata (2.3 kB)
02:00:36 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)
02:00:36 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)
02:00:36 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)
02:00:36 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)
02:00:36 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)
02:00:36 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)
02:00:36 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) (3.5.1)
02:00:36 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) (3.19)
02:00:36 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)
02:00:36 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) (2026.7.22)
02:00:36 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
02:00:36 Using cached django-5.2.17-py3-none-any.whl (8.3 MB)
02:00:36 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
02:00:36 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
02:00:36 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
02:00:36 Using cached gunicorn-26.1.0-py3-none-any.whl (216 kB)
02:00:36 Using cached sqlparse-0.6.0-py3-none-any.whl (50 kB)
02:00:36 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
02:00:36 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
02:00:36 Using cached wheel-0.48.0-py3-none-any.whl (33 kB)
02:00:36 Building wheels for collected packages: omero-web
02:00:36 Building wheel for omero-web (pyproject.toml): started
02:00:37 Building wheel for omero-web (pyproject.toml): finished with status 'done'
02:00:37 Created wheel for omero-web: filename=omero_web-5.32.1.dev0-py3-none-any.whl size=2821584 sha256=ffd511db012750811f3caa0166ec62c8def5e4ae809fd628e63de7d2aa2ca4c7
02:00:37 Stored in directory: /home/omero/.cache/pip/wheels/e6/f6/6f/ec36dda9edad720aabd7330edafa8a6a62d6ebfa4c7467248f
02:00:37 Successfully built omero-web
02:00:38 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
02:01:46
02:01:46 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-26.1.0 importlib-resources-7.1.0 omero-web-5.32.1.dev0 sqlparse-0.6.0 wheel-0.48.0 whitenoise-6.12.0
02:01:46 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
02:01:46 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
02:01:46 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
02:01:46 --2026-08-22 02:01:46-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
02:01:46 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.109.133, 185.199.108.133, ...
02:01:46 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
02:01:46 HTTP request sent, awaiting response... 200 OK
02:01:47 Length: 133661 (131K) [text/plain]
02:01:47 Saving to: ‘Figure_To_Pdf.py’
02:01:47
02:01:47 0K .......... .......... .......... .......... .......... 38% 2.88M 0s
02:01:47 50K .......... .......... .......... .......... .......... 76% 10.4M 0s
02:01:47 100K .......... .......... .......... 100% 3.09M=0.03s
02:01:47
02:01:47 2026-08-22 02:01:47 (4.07 MB/s) - ‘Figure_To_Pdf.py’ saved [133661/133661]
02:01:47
02:01:47 + chmod 755 Figure_To_Pdf.py
02:01:47 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
02:01:47 + omero config set omero.db.name OMERO-server
02:01:54 + omero config set omero.db.host pg
02:01:59 + omero config set omero.db.user postgres
02:02:04 + omero config set omero.data.dir /home/omero/omero-server-data
02:02:09 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
02:02:15 + omero config set omero.db.poolsize 25
02:02:20 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
02:02:27 + omero config set omero.security.trustStorePassword changeit
02:02:33 + omero config set omero.mail.config true
02:02:38 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
02:02:44 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
02:02:48 + omero certificates
02:02:53 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
02:02:53 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
02:02:54 + '[' false = true ']'
02:02:54 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
02:02:54 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
02:02:54 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG dbcommand => upgrade
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG dbhost => localhost
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG dbname => OMERO-server
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG dbpass => omero
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG dbuser => omero
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG rootpass => omero
02:02:54 2026-08-22 02:02:54,262 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
02:02:54 2026-08-22 02:02:54,264 [omego.extern] INFO Executing : omero version
02:02:59 OMERO.py version:
02:02:59 OMERO.server version:
02:02:59 5.6.3-675-522ea259c3-ice36-b59
02:02:59 5.23.1.dev0
02:02:59 2026-08-22 02:02:59,921 [omego.extern] INFO Completed [5.657 s]
02:02:59 2026-08-22 02:02:59,922 [omego.extern] DEBUG Using omero CLI from omero
02:02:59 2026-08-22 02:02:59,922 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
02:02:59 2026-08-22 02:02:59,922 [omego.extern] INFO Running [current environment]: omero config get --show-password
02:02:59 2026-08-22 02:02:59,922 [omego.extern] INFO Executing : omero config get --show-password
02:03:05 2026-08-22 02:03:05,368 [omego.extern] INFO Completed [5.446 s]
02:03:05 2026-08-22 02:03:05,368 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
02:03:05 2026-08-22 02:03:05,368 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
02:03:05 2026-08-22 02:03:05,375 [omego.extern] INFO Completed [0.007 s]
02:03:05 2026-08-22 02:03:05,375 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.15\n'
02:03:05 2026-08-22 02:03:05,375 [ omego.db] INFO psql version: psql (PostgreSQL) 16.15
02:03:05
02:03:05 2026-08-22 02:03:05,375 [omego.extern] INFO Running [current environment]: omero config get --show-password
02:03:05 2026-08-22 02:03:05,375 [omego.extern] INFO Executing : omero config get --show-password
02:03:11 2026-08-22 02:03:11,458 [omego.extern] INFO Completed [6.083 s]
02:03:11 2026-08-22 02:03:11,458 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
02:03:11 2026-08-22 02:03:11,459 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
02:03:11 2026-08-22 02:03:11,478 [omego.extern] INFO Completed [0.019 s]
02:03:11 2026-08-22 02:03:11,478 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.2") at port "5432".\n'
02:03:11 2026-08-22 02:03:11,478 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
02:03:11 2026-08-22 02:03:11,478 [omego.extern] INFO Running [current environment]: omero config get --show-password
02:03:11 2026-08-22 02:03:11,478 [omego.extern] INFO Executing : omero config get --show-password
02:03:16 2026-08-22 02:03:16,408 [omego.extern] INFO Completed [4.929 s]
02:03:16 2026-08-22 02:03:16,408 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
02:03:16 2026-08-22 02:03:16,408 [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
02:03:16 2026-08-22 02:03:16,435 [omego.extern] INFO Completed [0.027 s]
02:03:16 2026-08-22 02:03:16,435 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
02:03:16 2026-08-22 02:03:16,435 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
02:03:16 2026-08-22 02:03:16,512 [ omego.db] INFO Database is already at OMERO5.4__0
02:03:16 + export LANG=en_US.UTF-8
02:03:16 + LANG=en_US.UTF-8
02:03:16 + export LANGUAGE=en_US:en
02:03:16 + LANGUAGE=en_US:en
02:03:16 + export LC_ALL=en_US.UTF-8
02:03:16 + LC_ALL=en_US.UTF-8
02:03:16 + BUILD_ID=DONT_KILL_ME
02:03:16 + omero admin start
02:03:29 No descriptor given. Using etc/grid/default.xml
02:03:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
02:03:39 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
02:03:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
02:03:39 Waiting on startup. Use CTRL-C to exit
02:03:40 + omero admin waitup
02:03:45 Waiting on startup. Use CTRL-C to exit
02:03:46 + omero admin diagnostics
02:03:51
02:03:51 ================================================================================
02:03:51 OMERO Diagnostics (admin)
02:03:51 ================================================================================
02:03:51
02:03:51 Commands: java -version 21.0.12 (/usr/bin/java)
02:03:51 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
02:03:51 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
02:03:51 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
02:03:51 Commands: psql --version 16.15 (/usr/bin/psql)
02:03:51 Commands: openssl version 3.5.527 (/usr/bin/openssl)
02:03:51
02:03:51 Component: OMERO.py 5.23.1.dev0
02:03:51 Component: OMERO.server 5.6.3-675-522ea259c3-ice36-b59
02:03:51
02:03:51 Server: icegridnode running
02:03:51 Server: Blitz-0 active (pid = 23104, enabled)
02:03:51 Server: Indexer-0 active (pid = 23126, enabled)
02:03:51 Server: OMERO.Glacier2 active (pid = 23131, enabled)
02:03:51 Server: OMERO.IceStorm active (pid = 23157, enabled)
02:03:51 Server: Processor-0 active (pid = 23160, enabled)
02:03:51 Server: Tables-0 active (pid = 23147, enabled)
02:03:51
02:03:51 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
02:03:51 Log files: Blitz-0.log 32.7 KB errors=0 warnings=1
02:03:51 Log files: DropBox.log n/a
02:03:51 Log files: FileServer.log n/a
02:03:51 Log files: Indexer-0.log 2.6 KB
02:03:51 Log files: MonitorServer.log n/a
02:03:51 Log files: Processor-0.log 735 B
02:03:51 Log files: Tables-0.log 961 B
02:03:51 Log files: TestDropBox.log n/a
02:03:51 Log files: master.err empty
02:03:51 Log files: master.out 30.5 KB
02:03:51 Log files: Total size 0.07 MB
02:03:51
02:03:51
02:03:51 Environment:OMERO_HOME=(unset)
02:03:51 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
02:03:51 Environment:OMERO_NODE=(unset)
02:03:51 Environment:OMERO_MASTER=(unset)
02:03:51 Environment:OMERO_USERDIR=(unset)
02:03:51 Environment:OMERO_TMPDIR=(unset)
02:03:51 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
02:03:51 Environment:PYTHONPATH=(unset)
02:03:51 Environment:ICE_HOME=/opt/ice-3.6.5
02:03:51 Environment:LD_LIBRARY_PATH=(unset)
02:03:51 Environment:DYLD_LIBRARY_PATH=(unset)
02:03:51
02:03:51 OMERO SSL port:4064
02:03:51 OMERO TCP port:4063
02:03:51 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
02:03:51 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
02:03:51
02:03:51 JVM settings: Blitz-${index} -Xmx7200m
02:03:51 JVM settings: Indexer-${index} -Xmx4800m
02:03:51 JVM settings: PixelData-${index} -Xmx7200m
02:03:51 JVM settings: Repository-${index} -Xmx4800m
02:03:51
02:03:51 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
02:03:51 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
02:03:51 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
02:03:51 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3 26 February 2026 70fd9b72a9834f1af4852c1e5b5676c57a2c360e
02:03:51 Jar: lib/server/ome-common.jar OME Common Java 6.2.1 27 February 2026 a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
02:03:51 Jar: lib/server/ome-jai.jar OME JAI 0.1.5 30 June 2025 257a1c1410c0103485248d05752a5174262a38b6
02:03:51 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4 25 June 2025 57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
02:03:51 Jar: lib/server/ome-poi.jar OME POI 5.3.11 11 November 2025 a2f3944ac71db9e7e51a6f64ec46beeb60613afb
02:03:51 Jar: lib/server/ome-xml.jar OME XML library 6.5.3 22 January 2026 21d1362abd9ce26e13888d2b2d028753d21ac96e
02:03:51 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT
02:03:51 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
02:03:51 Jar: lib/server/omero-gateway.jar jar 5.11.1-SNAPSHOT
02:03:51 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
02:03:51 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
02:03:51 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
02:03:51 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT
02:03:51 Jar: lib/server/omero-zarr-pixel-buffer.jar OMERO Zarr Pixel Buffer 0.7.0-rc3 4c6a6c7d8fb12449c8080808fd12bf95e996e398
02:03:52 + deactivate
02:03:52 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
02:03:52 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
02:03:52 + export PATH
02:03:52 + unset _OLD_VIRTUAL_PATH
02:03:52 + '[' -n '' ']'
02:03:52 + hash -r
02:03:52 + '[' -n '' ']'
02:03:52 + unset VIRTUAL_ENV
02:03:52 + unset VIRTUAL_ENV_PROMPT
02:03:52 + '[' '!' '' = nondestructive ']'
02:03:52 + unset -f deactivate
02:03:52 Finished: SUCCESS
