00:46:14 Started by upstream project "Trigger" build number 193
00:46:14 originally caused by:
00:46:14 Started by timer
00:46:14 Running as SYSTEM
00:46:14 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:46:14 [OMERO-server] $ /bin/bash -xe /tmp/jenkins15995905056909578911.sh
00:46:14 + source /home/settings.env
00:46:14 ++ OMERO_DB_HOST=pg
00:46:14 ++ OMERO_DB_USER=postgres
00:46:14 ++ OMERO_DB_PASS=
00:46:14 ++ OMERO_ROOT_PASS=omero
00:46:14 ++ OMERO_DATA_DIR=/OMERO
00:46:14 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:46:14 + OMERO_DB_NAME=OMERO-server
00:46:14 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:46:14 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:14 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:14 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:46:14 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:46:14 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:46:14 ++ deactivate nondestructive
00:46:14 ++ '[' -n '' ']'
00:46:14 ++ '[' -n '' ']'
00:46:14 ++ hash -r
00:46:14 ++ '[' -n '' ']'
00:46:14 ++ unset VIRTUAL_ENV
00:46:14 ++ unset VIRTUAL_ENV_PROMPT
00:46:14 ++ '[' '!' nondestructive = nondestructive ']'
00:46:14 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:46:14 ++ export VIRTUAL_ENV
00:46:14 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:14 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:14 ++ export PATH
00:46:14 ++ '[' -n '' ']'
00:46:14 ++ '[' -z '' ']'
00:46:14 ++ _OLD_VIRTUAL_PS1=
00:46:14 ++ PS1='(.venv3) '
00:46:14 ++ export PS1
00:46:14 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:46:14 ++ export VIRTUAL_ENV_PROMPT
00:46:14 ++ hash -r
00:46:14 + omero admin stop
00:46:15 Waiting on shutdown. Use CTRL-C to exit
00:46:15 .+ sleep 5
00:46:31 + deactivate
00:46:31 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:46:31 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:31 + export PATH
00:46:31 + unset _OLD_VIRTUAL_PATH
00:46:31 + '[' -n '' ']'
00:46:31 + hash -r
00:46:31 + '[' -n '' ']'
00:46:31 + unset VIRTUAL_ENV
00:46:31 + unset VIRTUAL_ENV_PROMPT
00:46:31 + '[' '!' '' = nondestructive ']'
00:46:31 + unset -f deactivate
00:46:31 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:46:32 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
00:46:35 + '[' false = true ']'
00:46:35 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:46:35 Skipping PURGE_DATA:CleanDbAndRepo
00:46:35 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.5-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.22.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.10.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.31.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:46:37 Copied 1 artifact from "OMERO-build" build number 146
00:46:37 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 137
00:46:37 Copied 2 artifacts from "OMERO-build-build" build number 155
00:46:37 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12210319525853206390.sh
00:46:37 + source /home/settings.env
00:46:37 ++ OMERO_DB_HOST=pg
00:46:37 ++ OMERO_DB_USER=postgres
00:46:37 ++ OMERO_DB_PASS=
00:46:37 ++ OMERO_ROOT_PASS=omero
00:46:37 ++ OMERO_DATA_DIR=/OMERO
00:46:37 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:46:37 + OMERO_DB_NAME=OMERO-server
00:46:37 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:46:37 + mkdir -p /home/omero/omero-server-data
00:46:37 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:46:37 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:37 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:37 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:46:37 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:46:37 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:46:37 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:46:37 ++ ls OMERO.server-5.6.3-594-f673a13f5c-ice36-b146.zip
00:46:37 + ZIP=OMERO.server-5.6.3-594-f673a13f5c-ice36-b146.zip
00:46:37 + '[' '!' -z '' ']'
00:46:37 + DIST=OMERO.server-5.6.3-594-f673a13f5c-ice36-b146
00:46:37 + unzip OMERO.server-5.6.3-594-f673a13f5c-ice36-b146.zip
00:46:37 Archive: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146.zip
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/blitz/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/grid/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/profiles/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/error/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/grid/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/luts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/luts/janelia/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/luts/matplotlib/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/luts/ncsa_paledit/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/luts/seaborn/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/luts/wcif/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/analysis_scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/annotation_scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/export_scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/figure_scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/import_scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/scripts/omero/util_scripts/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/server/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/share/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/share/licenses/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/misc/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__1/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__10/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__11/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__2/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__3/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__4/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__5/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__6/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__7/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__8/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3A__9/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3__4/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3__5/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3__6/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO3__7/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO4.1__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO4.2__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO4.2__0/t/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO4.3__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO4.4__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO4__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.0__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.1__1/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.2__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4DEV__1/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4DEV__2/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4DEV__3/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/var/
00:46:37 creating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/var/tmp/
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/LICENSE.txt
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/backup.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/blitz/mail-senders.example
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/blitz/mail-server.example
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/build.properties
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/env.bat
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/env.sh
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/hibernate.properties
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/ice.config
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/logback-cli.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/logback-indexing-cli.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/logback-indexing.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/logback.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/mime.types
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/node1.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/node2.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/omero.properties
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/profiles/psql
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/rollover.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/Windows.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/error/maintainance.html
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/grid/README
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/grid/default.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/grid/templates.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/grid/windefault.xml
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/ice.config
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/internal.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/master.cfg
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/templates/robot.template
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/etc/testdropbox.config
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/history.rst
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/OMEZarrReader.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/accessors-smart.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/activation.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/aggdesigner-algorithm.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/aircompressor.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/antlr.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/aopalliance.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/apiguardian-api.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/asm.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/avatica-core.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/avatica-metrics.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/aws-java-sdk-core.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/aws-java-sdk-kms.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/aws-java-sdk-s3.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/base.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-anim.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-awt-util.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-bridge.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-codec.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-constants.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-css.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-dom.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-ext.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-gvt.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-i18n.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-parser.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-script.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-shared-resources.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-svg-dom.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-svggen.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-transcoder.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-util.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/batik-xml.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/btm.jar
00:46:37 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/lib/client/calcite-core.jar
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00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/psql-footer.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/psql-header.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/schema.sql
00:46:39 inflating: OMERO.server-5.6.3-594-f673a13f5c-ice36-b146/sql/psql/OMERO5.4__0/views.sql
00:46:39 + rm -f OMERO.server-5.6.3-594-f673a13f5c-ice36-b146.zip
00:46:39 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-594-f673a13f5c-ice36-b146 /home/omero/workspace/OMERO-server/OMERO.server
00:46:39 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:46:39 ++ deactivate nondestructive
00:46:39 ++ '[' -n '' ']'
00:46:39 ++ '[' -n '' ']'
00:46:39 ++ hash -r
00:46:39 ++ '[' -n '' ']'
00:46:39 ++ unset VIRTUAL_ENV
00:46:39 ++ unset VIRTUAL_ENV_PROMPT
00:46:39 ++ '[' '!' nondestructive = nondestructive ']'
00:46:39 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:46:39 ++ export VIRTUAL_ENV
00:46:39 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:39 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:39 ++ export PATH
00:46:39 ++ '[' -n '' ']'
00:46:39 ++ '[' -z '' ']'
00:46:39 ++ _OLD_VIRTUAL_PS1=
00:46:39 ++ PS1='(.venv3) '
00:46:39 ++ export PS1
00:46:39 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:46:39 ++ export VIRTUAL_ENV_PROMPT
00:46:39 ++ hash -r
00:46:39 + pip install -U pip
00:46:40 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
00:46:40 Collecting pip
00:46:40 Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
00:46:40 Installing collected packages: pip
00:46:40 Attempting uninstall: pip
00:46:40 Found existing installation: pip 22.3.1
00:46:40 Uninstalling pip-22.3.1:
00:46:40 Successfully uninstalled pip-22.3.1
00:46:41 Successfully installed pip-26.1.1
00:46:41 WARNING: There was an error checking the latest version of pip.
00:46:41 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
00:46:41 Collecting zeroc-ice==3.6.5
00:46:41 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
00:46:46 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 8.5 MB/s 0:00:04
00:46:46 Installing collected packages: zeroc-ice
00:46:47 Successfully installed zeroc-ice-3.6.5
00:46:47 + pip install markdown
00:46:47 Collecting markdown
00:46:47 Using cached markdown-3.10.2-py3-none-any.whl.metadata (5.1 kB)
00:46:47 Using cached markdown-3.10.2-py3-none-any.whl (108 kB)
00:46:47 Installing collected packages: markdown
00:46:47 Successfully installed markdown-3.10.2
00:46:47 + pip install reportlab
00:46:48 Collecting reportlab
00:46:48 Using cached reportlab-4.5.0-py3-none-any.whl.metadata (1.7 kB)
00:46:48 Collecting pillow>=9.0.0 (from reportlab)
00:46:48 Using cached pillow-12.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.8 kB)
00:46:48 Collecting charset-normalizer (from reportlab)
00:46:48 Using cached charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (40 kB)
00:46:48 Using cached reportlab-4.5.0-py3-none-any.whl (2.0 MB)
00:46:48 Using cached pillow-12.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.1 MB)
00:46:48 Using cached charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (214 kB)
00:46:48 Installing collected packages: pillow, charset-normalizer, reportlab
00:46:49
00:46:49 Successfully installed charset-normalizer-3.4.7 pillow-12.2.0 reportlab-4.5.0
00:46:49 + pip install omego
00:46:50 Collecting omego
00:46:50 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
00:46:50 Collecting future (from omego)
00:46:50 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
00:46:50 Collecting yaclifw>=0.1.1 (from omego)
00:46:50 Using cached yaclifw-0.2.0-py3-none-any.whl
00:46:50 Collecting six (from yaclifw>=0.1.1->omego)
00:46:50 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:46:50 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
00:46:50 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:46:50 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:46:50 Installing collected packages: six, future, yaclifw, omego
00:46:52
00:46:52 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
00:46:52 + pip install tables
00:46:53 Collecting tables
00:46:53 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)
00:46:53 Collecting numpy>=1.20.0 (from tables)
00:46:53 Using cached numpy-2.4.4-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
00:46:53 Collecting numexpr>=2.6.2 (from tables)
00:46:53 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
00:46:53 Collecting packaging (from tables)
00:46:53 Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
00:46:53 Collecting py-cpuinfo (from tables)
00:46:53 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:46:53 Collecting blosc2>=2.3.0 (from tables)
00:46:53 Downloading blosc2-4.2.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (6.4 kB)
00:46:53 Collecting ndindex (from blosc2>=2.3.0->tables)
00:46:53 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
00:46:53 Collecting msgpack (from blosc2>=2.3.0->tables)
00:46:53 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:46:54 Collecting pydantic (from blosc2>=2.3.0->tables)
00:46:54 Downloading pydantic-2.13.4-py3-none-any.whl.metadata (109 kB)
00:46:54 Collecting requests (from blosc2>=2.3.0->tables)
00:46:54 Using cached requests-2.33.1-py3-none-any.whl.metadata (4.8 kB)
00:46:54 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
00:46:54 Downloading threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
00:46:54 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
00:46:54 Downloading annotated_types-0.7.0-py3-none-any.whl.metadata (15 kB)
00:46:55 Collecting pydantic-core==2.46.4 (from pydantic->blosc2>=2.3.0->tables)
00:46:55 Downloading pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB)
00:46:55 Collecting typing-extensions>=4.14.1 (from pydantic->blosc2>=2.3.0->tables)
00:46:55 Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
00:46:55 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables)
00:46:55 Downloading typing_inspection-0.4.2-py3-none-any.whl.metadata (2.6 kB)
00:46:55 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.7)
00:46:55 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
00:46:55 Using cached idna-3.13-py3-none-any.whl.metadata (8.0 kB)
00:46:55 Collecting urllib3<3,>=1.26 (from requests->blosc2>=2.3.0->tables)
00:46:55 Downloading urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB)
00:46:55 Collecting certifi>=2023.5.7 (from requests->blosc2>=2.3.0->tables)
00:46:55 Using cached certifi-2026.4.22-py3-none-any.whl.metadata (2.5 kB)
00:46:55 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)
00:46:55 Downloading blosc2-4.2.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (6.4 MB)
00:46:55 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 6.4/6.4 MB 14.3 MB/s 0:00:00
00:46:55 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
00:46:55 Using cached numpy-2.4.4-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
00:46:55 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (426 kB)
00:46:55 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
00:46:55 Using cached packaging-26.2-py3-none-any.whl (100 kB)
00:46:55 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:46:55 Downloading pydantic-2.13.4-py3-none-any.whl (472 kB)
00:46:55 Downloading pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
00:46:55 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.1/2.1 MB 17.1 MB/s 0:00:00
00:46:55 Downloading annotated_types-0.7.0-py3-none-any.whl (13 kB)
00:46:55 Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
00:46:55 Downloading typing_inspection-0.4.2-py3-none-any.whl (14 kB)
00:46:55 Using cached requests-2.33.1-py3-none-any.whl (64 kB)
00:46:55 Using cached idna-3.13-py3-none-any.whl (68 kB)
00:46:55 Downloading urllib3-2.7.0-py3-none-any.whl (131 kB)
00:46:55 Using cached certifi-2026.4.22-py3-none-any.whl (135 kB)
00:46:55 Downloading threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
00:46:56 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, threadpoolctl, packaging, numpy, ndindex, msgpack, idna, certifi, annotated-types, typing-inspection, requests, pydantic-core, numexpr, pydantic, blosc2, tables
00:47:00
00:47:00 Successfully installed annotated-types-0.7.0 blosc2-4.2.0 certifi-2026.4.22 idna-3.13 msgpack-1.1.2 ndindex-1.10.1 numexpr-2.14.1 numpy-2.4.4 packaging-26.2 py-cpuinfo-9.0.0 pydantic-2.13.4 pydantic-core-2.46.4 requests-2.33.1 tables-3.11.1 threadpoolctl-3.6.0 typing-extensions-4.15.0 typing-inspection-0.4.2 urllib3-2.7.0
00:47:00 + pip install jinja2
00:47:00 Collecting jinja2
00:47:00 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
00:47:00 Collecting MarkupSafe>=2.0 (from jinja2)
00:47:00 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)
00:47:00 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
00:47:00 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
00:47:00 Installing collected packages: MarkupSafe, jinja2
00:47:00
00:47:00 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
00:47:00 + pip install omero-py
00:47:01 Collecting omero-py
00:47:01 Using cached omero_py-5.22.1-py3-none-any.whl.metadata (6.5 kB)
00:47:01 Collecting appdirs (from omero-py)
00:47:01 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:47:01 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
00:47:01 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.4)
00:47:01 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.2.0)
00:47:01 Collecting PyYAML (from omero-py)
00:47:01 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.4 kB)
00:47:01 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
00:47:01 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.33.1)
00:47:01 Collecting portalocker (from omero-py)
00:47:01 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
00:47:01 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.7)
00:47:01 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.13)
00:47:01 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.7.0)
00:47:01 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.4.22)
00:47:01 Using cached omero_py-5.22.1-py3-none-any.whl (2.8 MB)
00:47:01 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:47:01 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
00:47:01 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
00:47:01 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
00:47:03
00:47:03 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.22.1 portalocker-3.2.0
00:47:03 + pip install pyarrow
00:47:03 Collecting pyarrow
00:47:03 Using cached pyarrow-24.0.0-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB)
00:47:03 Using cached pyarrow-24.0.0-cp311-cp311-manylinux_2_28_x86_64.whl (48.8 MB)
00:47:04 Installing collected packages: pyarrow
00:47:05 Successfully installed pyarrow-24.0.0
00:47:05 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:47:05 Collecting omero-metadata
00:47:05 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-_p_h4929/omero-metadata_790e6bad7cb74fd6981bc8daae26b2bc
00:47:05 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-_p_h4929/omero-metadata_790e6bad7cb74fd6981bc8daae26b2bc
00:47:06 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 1af2719598c23099c9c24379948c6e0f1bc3841f
00:47:06 Installing build dependencies: started
00:47:07 Installing build dependencies: finished with status 'done'
00:47:07 Getting requirements to build wheel: started
00:47:08 Getting requirements to build wheel: finished with status 'done'
00:47:08 Preparing metadata (pyproject.toml): started
00:47:08 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:08 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.22.1)
00:47:08 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
00:47:08 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
00:47:08 Collecting pandas (from omero-metadata)
00:47:08 Using cached pandas-3.0.2-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
00:47:08 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:47:08 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:47:08 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.4)
00:47:08 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (12.2.0)
00:47:08 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:47:08 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.33.1)
00:47:08 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
00:47:08 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
00:47:08 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:47:08 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:47:08 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:47:08 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.7)
00:47:08 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.13)
00:47:08 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)
00:47:08 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.4.22)
00:47:08 Using cached pandas-3.0.2-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (11.3 MB)
00:47:08 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:47:08 Building wheels for collected packages: omero-metadata
00:47:08 Building wheel for omero-metadata (pyproject.toml): started
00:47:08 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:47:08 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=9aa830dbb08d7e6fd6e1176982e0192c028591a82f79cc04dafe0ceb76c903c4
00:47:08 Stored in directory: /tmp/pip-ephem-wheel-cache-nycmxkvx/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
00:47:08 Successfully built omero-metadata
00:47:08 Installing collected packages: python-dateutil, pandas, omero-metadata
00:47:14
00:47:14 Successfully installed omero-metadata-0.13.1.dev0 pandas-3.0.2 python-dateutil-2.9.0.post0
00:47:14 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:47:14 Collecting omero-cli-render
00:47:14 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-gqk1djq_/omero-cli-render_0b902c8bbdf6443b9682c4caeee9898f
00:47:14 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-gqk1djq_/omero-cli-render_0b902c8bbdf6443b9682c4caeee9898f
00:47:15 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:16 Switched to a new branch 'merge_ci'
00:47:16 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:16 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 46601486ba37b496a276ed75ddc4dcce0b2d62ac
00:47:16 Installing build dependencies: started
00:47:16 Installing build dependencies: finished with status 'done'
00:47:16 Getting requirements to build wheel: started
00:47:17 Getting requirements to build wheel: finished with status 'done'
00:47:17 Preparing metadata (pyproject.toml): started
00:47:17 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:17 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
00:47:17 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.22.1)
00:47:17 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:47:17 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:47:17 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.4)
00:47:17 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (12.2.0)
00:47:17 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:47:17 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.33.1)
00:47:17 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
00:47:17 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.7)
00:47:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.13)
00:47:17 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)
00:47:17 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.4.22)
00:47:17 Building wheels for collected packages: omero-cli-render
00:47:17 Building wheel for omero-cli-render (pyproject.toml): started
00:47:17 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:47:17 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19839 sha256=0ded5e2cbd898c85ede5d6c3db4a94105abd7f5fafff719a9c21c787a51e857e
00:47:17 Stored in directory: /tmp/pip-ephem-wheel-cache-ttmvyopb/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
00:47:17 Successfully built omero-cli-render
00:47:17 Installing collected packages: omero-cli-render
00:47:17 Successfully installed omero-cli-render-0.8.2.dev0
00:47:17 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:47:18 Collecting omero-cli-duplicate
00:47:18 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-x5qdifhc/omero-cli-duplicate_05a1acc2364748ea8c40c9e0853f7840
00:47:18 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-x5qdifhc/omero-cli-duplicate_05a1acc2364748ea8c40c9e0853f7840
00:47:19 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:19 Switched to a new branch 'merge_ci'
00:47:19 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:19 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 04b248a29c4eda23e88fd90205b74d3c1b4b110a
00:47:19 Installing build dependencies: started
00:47:21 Installing build dependencies: finished with status 'done'
00:47:21 Getting requirements to build wheel: started
00:47:21 Getting requirements to build wheel: finished with status 'done'
00:47:21 Preparing metadata (pyproject.toml): started
00:47:21 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:21 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.22.1)
00:47:21 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:47:21 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:47:21 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.4)
00:47:21 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (12.2.0)
00:47:21 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
00:47:21 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:47:21 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.33.1)
00:47:21 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
00:47:21 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.7)
00:47:21 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.13)
00:47:21 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)
00:47:21 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.4.22)
00:47:21 Building wheels for collected packages: omero-cli-duplicate
00:47:21 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:47:22 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:47:22 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11539 sha256=01ff53ee4674b466e0e020bfd03cc419b67891894277b2383031e07c1c73e677
00:47:22 Stored in directory: /tmp/pip-ephem-wheel-cache-ggsypyo5/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
00:47:22 Successfully built omero-cli-duplicate
00:47:22 Installing collected packages: omero-cli-duplicate
00:47:22 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:47:22 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
00:47:22 Collecting omero-cli-zarr
00:47:22 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-t88mj3sw/omero-cli-zarr_7d34b3e5d4ef4f92824bdc6569967efa
00:47:22 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-t88mj3sw/omero-cli-zarr_7d34b3e5d4ef4f92824bdc6569967efa
00:47:23 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:23 Switched to a new branch 'merge_ci'
00:47:23 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:23 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 63437a6e0e07132c1d1fdf02e6eaae95a14d2f0e
00:47:23 Installing build dependencies: started
00:47:24 Installing build dependencies: finished with status 'done'
00:47:24 Getting requirements to build wheel: started
00:47:24 Getting requirements to build wheel: finished with status 'done'
00:47:24 Installing backend dependencies: started
00:47:25 Installing backend dependencies: finished with status 'done'
00:47:25 Preparing metadata (pyproject.toml): started
00:47:25 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:25 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.22.1)
00:47:26 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
00:47:26 Using cached ome_zarr-0.16.0-py3-none-any.whl.metadata (2.9 kB)
00:47:26 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.4)
00:47:26 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:26 Using cached dask-2026.3.0-py3-none-any.whl.metadata (3.9 kB)
00:47:26 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:26 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
00:47:26 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)
00:47:26 Using cached fsspec-2026.4.0-py3-none-any.whl.metadata (10 kB)
00:47:26 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:26 Using cached aiohttp-3.13.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:47:26 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.33.1)
00:47:26 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:26 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
00:47:26 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:26 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
00:47:26 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:26 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
00:47:27 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
00:47:27 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached click-8.3.3-py3-none-any.whl.metadata (2.6 kB)
00:47:27 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
00:47:27 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) (26.2)
00:47:27 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
00:47:27 Requirement already satisfied: pyyaml>=5.3.1 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)
00:47:27 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)
00:47:27 Using cached importlib_metadata-9.0.0-py3-none-any.whl.metadata (4.5 kB)
00:47:27 Collecting s3fs>2024.2.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached s3fs-2026.4.0-py3-none-any.whl.metadata (1.2 kB)
00:47:27 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)
00:47:27 Using cached zipp-3.23.1-py3-none-any.whl.metadata (3.6 kB)
00:47:27 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
00:47:27 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
00:47:27 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (12.2.0)
00:47:27 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.6.5)
00:47:27 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.2.0)
00:47:27 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)
00:47:27 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
00:47:27 Collecting aiobotocore<4.0.0,>=2.19.0 (from s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached aiobotocore-3.6.0-py3-none-any.whl.metadata (27 kB)
00:47:27 Collecting aioitertools<1.0.0,>=0.5.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
00:47:27 Collecting botocore<1.43.1,>=1.42.90 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached botocore-1.43.0-py3-none-any.whl.metadata (5.5 kB)
00:47:27 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>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (2.9.0.post0)
00:47:27 Collecting jmespath<2.0.0,>=0.7.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 Using cached jmespath-1.1.0-py3-none-any.whl.metadata (7.6 kB)
00:47:27 Collecting multidict<7.0.0,>=6.0.0 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:27 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)
00:47:28 Collecting wrapt<3.0.0,>=1.10.10 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached wrapt-2.1.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
00:47:28 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl.metadata (5.9 kB)
00:47:28 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
00:47:28 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached attrs-26.1.0-py3-none-any.whl.metadata (8.8 kB)
00:47:28 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 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)
00:47:28 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached propcache-0.4.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (13 kB)
00:47:28 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached yarl-1.23.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
00:47:28 Requirement already satisfied: urllib3!=2.2.0,<3,>=1.25.4 in ./.venv3/lib64/python3.11/site-packages (from botocore<1.43.1,>=1.42.90->aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (2.7.0)
00:47:28 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil<3.0.0,>=2.1->aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (1.17.0)
00:47:28 Requirement already satisfied: idna>=2.0 in ./.venv3/lib64/python3.11/site-packages (from yarl<2.0,>=1.17.0->aiohttp->ome-zarr>=0.13.0->omero-cli-zarr) (3.13)
00:47:28 Requirement already satisfied: typing-extensions>=4.2 in ./.venv3/lib64/python3.11/site-packages (from aiosignal>=1.4.0->aiohttp->ome-zarr>=0.13.0->omero-cli-zarr) (4.15.0)
00:47:28 Collecting scipy>=1.11.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (62 kB)
00:47:28 Collecting networkx>=3.0 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached networkx-3.6.1-py3-none-any.whl.metadata (6.8 kB)
00:47:28 Collecting imageio!=2.35.0,>=2.33 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached imageio-2.37.3-py3-none-any.whl.metadata (9.7 kB)
00:47:28 Collecting tifffile>=2022.8.12 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:28 Using cached tifffile-2026.3.3-py3-none-any.whl.metadata (31 kB)
00:47:29 Collecting lazy-loader>=0.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:29 Using cached lazy_loader-0.5-py3-none-any.whl.metadata (5.9 kB)
00:47:29 Collecting donfig>=0.8 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:29 Using cached donfig-0.8.1.post1-py3-none-any.whl.metadata (5.0 kB)
00:47:29 Collecting google-crc32c>=1.5 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:29 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.metadata (1.7 kB)
00:47:29 Collecting numcodecs>=0.14 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
00:47:29 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (3.4 kB)
00:47:29 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (3.4.7)
00:47:29 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (2026.4.22)
00:47:29 Using cached ome_zarr-0.16.0-py3-none-any.whl (46 kB)
00:47:29 Using cached dask-2026.3.0-py3-none-any.whl (1.5 MB)
00:47:29 Using cached click-8.3.3-py3-none-any.whl (110 kB)
00:47:29 Using cached cloudpickle-3.1.2-py3-none-any.whl (22 kB)
00:47:29 Using cached fsspec-2026.4.0-py3-none-any.whl (203 kB)
00:47:29 Using cached importlib_metadata-9.0.0-py3-none-any.whl (27 kB)
00:47:29 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
00:47:29 Using cached s3fs-2026.4.0-py3-none-any.whl (32 kB)
00:47:29 Using cached aiobotocore-3.6.0-py3-none-any.whl (88 kB)
00:47:29 Using cached aiohttp-3.13.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB)
00:47:29 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
00:47:29 Using cached botocore-1.43.0-py3-none-any.whl (15.0 MB)
00:47:29 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
00:47:29 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (246 kB)
00:47:29 Using cached wrapt-2.1.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (114 kB)
00:47:29 Using cached yarl-1.23.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (102 kB)
00:47:29 Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl (15 kB)
00:47:29 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
00:47:29 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
00:47:29 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
00:47:29 Using cached propcache-0.4.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (210 kB)
00:47:29 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
00:47:29 Using cached imageio-2.37.3-py3-none-any.whl (317 kB)
00:47:29 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB)
00:47:29 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
00:47:29 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
00:47:29 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
00:47:29 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
00:47:29 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
00:47:29 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
00:47:29 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)
00:47:29 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (9.1 MB)
00:47:29 Using cached zipp-3.23.1-py3-none-any.whl (10 kB)
00:47:29 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
00:47:29 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
00:47:29 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
00:47:29 Building wheels for collected packages: omero-cli-zarr
00:47:29 Building wheel for omero-cli-zarr (pyproject.toml): started
00:47:29 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
00:47:29 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev162+g63437a6-py3-none-any.whl size=38288 sha256=6082f2af9698f6849c5cde172af9937e989b1c0d9cf7fec477b6abb05c03c65a
00:47:29 Stored in directory: /tmp/pip-ephem-wheel-cache-w_vqnqls/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
00:47:29 Successfully built omero-cli-zarr
00:47:29 Installing collected packages: rangehttpserver, zipp, wrapt, toolz, tifffile, scipy, propcache, numcodecs, networkx, multidict, locket, lazy-loader, jmespath, imageio, google-crc32c, fsspec, frozenlist, donfig, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, zarr, yarl, scikit-image, partd, importlib_metadata, Deprecated, botocore, aiosignal, dask, aiohttp, aiobotocore, s3fs, ome-zarr, omero-cli-zarr
00:47:39
00:47:39 Successfully installed Deprecated-1.3.1 aiobotocore-3.6.0 aiohappyeyeballs-2.6.1 aiohttp-3.13.5 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.0 click-8.3.3 cloudpickle-3.1.2 dask-2026.3.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.4.0 google-crc32c-1.8.0 imageio-2.37.3 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-0.16.0 omero-cli-zarr-0.5.5.dev162+g63437a6 partd-1.4.2 propcache-0.4.1 rangehttpserver-1.4.0 s3fs-2026.4.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.1.2 yarl-1.23.0 zarr-3.1.6 zipp-3.23.1
00:47:39 + pip install omero-certificates
00:47:40 Collecting omero-certificates
00:47:40 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
00:47:40 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.22.1)
00:47:40 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:47:40 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:47:40 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.4)
00:47:40 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (12.2.0)
00:47:40 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
00:47:40 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:47:40 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.33.1)
00:47:40 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
00:47:40 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.7)
00:47:40 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.13)
00:47:40 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)
00:47:40 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.4.22)
00:47:40 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
00:47:40 Installing collected packages: omero-certificates
00:47:40 Successfully installed omero-certificates-0.4.0
00:47:40 + for x in *.tar.gz
00:47:40 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:47:40 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:47:40 Installing build dependencies: started
00:47:41 Installing build dependencies: finished with status 'done'
00:47:41 Getting requirements to build wheel: started
00:47:41 Getting requirements to build wheel: finished with status 'done'
00:47:41 Preparing metadata (pyproject.toml): started
00:47:41 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:41 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.22.1)
00:47:41 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:47:41 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:47:41 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.4)
00:47:41 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (12.2.0)
00:47:41 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
00:47:41 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)
00:47:41 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.33.1)
00:47:41 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
00:47:41 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.7)
00:47:41 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.13)
00:47:41 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)
00:47:41 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.4.22)
00:47:41 Building wheels for collected packages: omero-dropbox
00:47:41 Building wheel for omero-dropbox (pyproject.toml): started
00:47:42 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:47:42 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49154 sha256=ed3f47fb65d57378a87df8f5b77d0e4c9c0a8c6cd5db8df5ebe6116e245ffce7
00:47:42 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
00:47:42 Successfully built omero-dropbox
00:47:42 Installing collected packages: omero-dropbox
00:47:42 Successfully installed omero-dropbox-5.7.1.dev0
00:47:42 + for x in *.tar.gz
00:47:42 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
00:47:42 Processing ./omero_marshal-0.9.2.dev0.tar.gz
00:47:42 Installing build dependencies: started
00:47:43 Installing build dependencies: finished with status 'done'
00:47:43 Getting requirements to build wheel: started
00:47:43 Getting requirements to build wheel: finished with status 'done'
00:47:43 Preparing metadata (pyproject.toml): started
00:47:44 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:44 Building wheels for collected packages: omero_marshal
00:47:44 Building wheel for omero_marshal (pyproject.toml): started
00:47:44 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:47:44 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88131 sha256=648a0f58e189d7c78d26e82d4b83e8dcee1b0ed0d6f46bce64100afea875dcb4
00:47:44 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
00:47:44 Successfully built omero_marshal
00:47:44 Installing collected packages: omero_marshal
00:47:44 Successfully installed omero_marshal-0.9.2.dev0
00:47:44 + for x in *.tar.gz
00:47:44 + pip install -U omero_py-5.22.2.dev0.tar.gz
00:47:44 Processing ./omero_py-5.22.2.dev0.tar.gz
00:47:45 Installing build dependencies: started
00:47:46 Installing build dependencies: finished with status 'done'
00:47:46 Getting requirements to build wheel: started
00:47:46 Getting requirements to build wheel: finished with status 'done'
00:47:46 Preparing metadata (pyproject.toml): started
00:47:46 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:46 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.4.4)
00:47:46 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.0.0)
00:47:46 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.4.4)
00:47:46 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (12.2.0)
00:47:46 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (6.0.3)
00:47:46 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.6.5)
00:47:46 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.33.1)
00:47:46 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.2.0)
00:47:46 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.4.7)
00:47:46 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.13)
00:47:46 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2.7.0)
00:47:46 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2026.4.22)
00:47:46 Building wheels for collected packages: omero-py
00:47:46 Building wheel for omero-py (pyproject.toml): started
00:47:47 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:47:47 Created wheel for omero-py: filename=omero_py-5.22.2.dev0-py3-none-any.whl size=2786692 sha256=4424b4ebfe9c236dc9a0d622cf7d1b6204d0dd3bc6707da4f609f67ce9c3da31
00:47:47 Stored in directory: /home/omero/.cache/pip/wheels/ec/3f/72/4027ca0a7faf1f66d4577cc07619b0497ac8e99396d43dd8fa
00:47:47 Successfully built omero-py
00:47:47 Installing collected packages: omero-py
00:47:47 Attempting uninstall: omero-py
00:47:47 Found existing installation: omero-py 5.22.1
00:47:47 Uninstalling omero-py-5.22.1:
00:47:48 Successfully uninstalled omero-py-5.22.1
00:47:50 Successfully installed omero-py-5.22.2.dev0
00:47:50 + for x in *.tar.gz
00:47:50 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
00:47:50 Processing ./omero_scripts-5.10.1.dev0.tar.gz
00:47:50 Installing build dependencies: started
00:47:51 Installing build dependencies: finished with status 'done'
00:47:51 Getting requirements to build wheel: started
00:47:51 Getting requirements to build wheel: finished with status 'done'
00:47:51 Preparing metadata (pyproject.toml): started
00:47:51 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:51 Building wheels for collected packages: omero-scripts
00:47:51 Building wheel for omero-scripts (pyproject.toml): started
00:47:52 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:47:52 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137001 sha256=153447fd5ca8ae7ae07c531bf0e76dc50ecc4f040a18379068fcf7024ab2224b
00:47:52 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
00:47:52 Successfully built omero-scripts
00:47:52 Installing collected packages: omero-scripts
00:47:52 Successfully installed omero-scripts-5.10.1.dev0
00:47:52 + for x in *.tar.gz
00:47:52 + pip install -U omero_web-5.31.1.dev0.tar.gz
00:47:52 Processing ./omero_web-5.31.1.dev0.tar.gz
00:47:52 Installing build dependencies: started
00:47:53 Installing build dependencies: finished with status 'done'
00:47:53 Getting requirements to build wheel: started
00:47:54 Getting requirements to build wheel: finished with status 'done'
00:47:54 Preparing metadata (pyproject.toml): started
00:47:54 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:54 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (5.22.2.dev0)
00:47:54 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.31.1.dev0)
00:47:54 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
00:47:54 Collecting Django<5.3,>=5.2.9 (from omero-web==5.31.1.dev0)
00:47:54 Using cached django-5.2.14-py3-none-any.whl.metadata (4.1 kB)
00:47:54 Collecting django-pipeline>=4.1.0 (from omero-web==5.31.1.dev0)
00:47:54 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
00:47:54 Collecting django-cors-headers==3.7.0 (from omero-web==5.31.1.dev0)
00:47:54 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:47:54 Collecting whitenoise>=5.3.0 (from omero-web==5.31.1.dev0)
00:47:54 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
00:47:54 Collecting gunicorn>=19.3 (from omero-web==5.31.1.dev0)
00:47:54 Using cached gunicorn-26.0.0-py3-none-any.whl.metadata (5.4 kB)
00:47:54 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (0.9.2.dev0)
00:47:54 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (12.2.0)
00:47:54 Collecting pytz (from omero-web==5.31.1.dev0)
00:47:54 Using cached pytz-2026.2-py2.py3-none-any.whl.metadata (22 kB)
00:47:54 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (3.2.0)
00:47:54 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (26.2)
00:47:54 Collecting importlib-resources (from omero-web==5.31.1.dev0)
00:47:54 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
00:47:54 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.31.1.dev0)
00:47:54 Using cached asgiref-3.11.1-py3-none-any.whl.metadata (9.3 kB)
00:47:54 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.31.1.dev0)
00:47:54 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
00:47:54 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.31.1.dev0) (65.5.1)
00:47:54 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.31.1.dev0)
00:47:54 Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
00:47:54 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (1.4.4)
00:47:54 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (1.0.0)
00:47:54 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.4.4)
00:47:54 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (6.0.3)
00:47:54 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==5.31.1.dev0) (3.6.5)
00:47:54 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.33.1)
00:47:54 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.4.7)
00:47:54 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.13)
00:47:54 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.7.0)
00:47:54 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (2026.4.22)
00:47:54 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:47:54 Using cached django-5.2.14-py3-none-any.whl (8.3 MB)
00:47:54 Using cached asgiref-3.11.1-py3-none-any.whl (24 kB)
00:47:54 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
00:47:54 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
00:47:54 Using cached gunicorn-26.0.0-py3-none-any.whl (212 kB)
00:47:54 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
00:47:54 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
00:47:54 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
00:47:54 Using cached pytz-2026.2-py2.py3-none-any.whl (510 kB)
00:47:54 Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
00:47:54 Building wheels for collected packages: omero-web
00:47:54 Building wheel for omero-web (pyproject.toml): started
00:47:56 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:47:56 Created wheel for omero-web: filename=omero_web-5.31.1.dev0-py3-none-any.whl size=2819232 sha256=8a12860cda30b215ee4c9956e62cf967346767717a70d9280637962146501ed6
00:47:56 Stored in directory: /home/omero/.cache/pip/wheels/48/a3/5b/968853abf49b64e1726fdb37874d77f08ddad2d06b53de06b3
00:47:56 Successfully built omero-web
00:47:56 Installing collected packages: pytz, whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
00:47:58
00:47:58 Successfully installed Django-5.2.14 asgiref-3.11.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.0.0 importlib-resources-7.1.0 omero-web-5.31.1.dev0 pytz-2026.2 sqlparse-0.5.5 wheel-0.47.0 whitenoise-6.12.0
00:47:59 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:47:59 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:47:59 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:47:59 --2026-05-08 00:47:59-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:47:59 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.110.133, ...
00:47:59 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
00:47:59 HTTP request sent, awaiting response... 200 OK
00:47:59 Length: 139337 (136K) [text/plain]
00:47:59 Saving to: ‘Figure_To_Pdf.py’
00:47:59
00:47:59 0K .......... .......... .......... .......... .......... 36% 2.58M 0s
00:47:59 50K .......... .......... .......... .......... .......... 73% 3.83M 0s
00:47:59 100K .......... .......... .......... ...... 100% 25.1M=0.03s
00:47:59
00:47:59 2026-05-08 00:47:59 (4.02 MB/s) - ‘Figure_To_Pdf.py’ saved [139337/139337]
00:47:59
00:47:59 + chmod 755 Figure_To_Pdf.py
00:47:59 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:47:59 + omero config set omero.db.name OMERO-server
00:48:01 + omero config set omero.db.host pg
00:48:03 + omero config set omero.db.user postgres
00:48:05 + omero config set omero.data.dir /home/omero/omero-server-data
00:48:07 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:48:09 + omero config set omero.db.poolsize 25
00:48:11 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:48:13 + omero config set omero.security.trustStorePassword changeit
00:48:15 + omero config set omero.mail.config true
00:48:17 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:48:19 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
00:48:21 + omero certificates
00:48:23 OpenSSL 3.5.1 1 Jul 2025 (Library: OpenSSL 3.5.1 1 Jul 2025)
00:48:23 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:48:23 + '[' false = true ']'
00:48:23 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:48:23 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:48:23 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:48:23 2026-05-08 00:48:23,559 [ omego.db] DEBUG dbcommand => upgrade
00:48:23 2026-05-08 00:48:23,559 [ omego.db] DEBUG dbhost => localhost
00:48:23 2026-05-08 00:48:23,559 [ omego.db] DEBUG dbname => OMERO-server
00:48:23 2026-05-08 00:48:23,560 [ omego.db] DEBUG dbpass => omero
00:48:23 2026-05-08 00:48:23,560 [ omego.db] DEBUG dbuser => omero
00:48:23 2026-05-08 00:48:23,560 [ omego.db] DEBUG rootpass => omero
00:48:23 2026-05-08 00:48:23,560 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:48:23 2026-05-08 00:48:23,560 [omego.extern] INFO Executing : omero version
00:48:25 OMERO.py version:
00:48:25 OMERO.server version:
00:48:25 5.6.3-594-f673a13f5c-ice36-b146
00:48:25 5.22.2.dev0
00:48:25 2026-05-08 00:48:25,651 [omego.extern] INFO Completed [2.092 s]
00:48:25 2026-05-08 00:48:25,652 [omego.extern] DEBUG Using omero CLI from omero
00:48:25 2026-05-08 00:48:25,652 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:48:25 2026-05-08 00:48:25,652 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:25 2026-05-08 00:48:25,652 [omego.extern] INFO Executing : omero config get --show-password
00:48:27 2026-05-08 00:48:27,673 [omego.extern] INFO Completed [2.021 s]
00:48:27 2026-05-08 00:48:27,673 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:27 2026-05-08 00:48:27,673 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:48:27 2026-05-08 00:48:27,679 [omego.extern] INFO Completed [0.005 s]
00:48:27 2026-05-08 00:48:27,679 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.11\n'
00:48:27 2026-05-08 00:48:27,679 [ omego.db] INFO psql version: psql (PostgreSQL) 16.11
00:48:27
00:48:27 2026-05-08 00:48:27,679 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:27 2026-05-08 00:48:27,679 [omego.extern] INFO Executing : omero config get --show-password
00:48:29 2026-05-08 00:48:29,787 [omego.extern] INFO Completed [2.108 s]
00:48:29 2026-05-08 00:48:29,787 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:29 2026-05-08 00:48:29,787 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:48:29 2026-05-08 00:48:29,797 [omego.extern] INFO Completed [0.009 s]
00:48:29 2026-05-08 00:48:29,797 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.11") at port "5432".\n'
00:48:29 2026-05-08 00:48:29,797 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:48:29 2026-05-08 00:48:29,797 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:29 2026-05-08 00:48:29,797 [omego.extern] INFO Executing : omero config get --show-password
00:48:31 2026-05-08 00:48:31,864 [omego.extern] INFO Completed [2.067 s]
00:48:31 2026-05-08 00:48:31,864 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:31 2026-05-08 00:48:31,864 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:48:31 2026-05-08 00:48:31,874 [omego.extern] INFO Completed [0.010 s]
00:48:31 2026-05-08 00:48:31,874 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:48:31 2026-05-08 00:48:31,874 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:48:31 2026-05-08 00:48:31,876 [ omego.db] INFO Database is already at OMERO5.4__0
00:48:31 + export LANG=en_US.UTF-8
00:48:31 + LANG=en_US.UTF-8
00:48:31 + export LANGUAGE=en_US:en
00:48:31 + LANGUAGE=en_US:en
00:48:31 + export LC_ALL=en_US.UTF-8
00:48:31 + LC_ALL=en_US.UTF-8
00:48:31 + BUILD_ID=DONT_KILL_ME
00:48:31 + omero admin start
00:48:36 No descriptor given. Using etc/grid/default.xml
00:48:45 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:48:45 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:48:45 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:48:45 Waiting on startup. Use CTRL-C to exit
00:48:45 + omero admin waitup
00:48:47 Waiting on startup. Use CTRL-C to exit
00:48:47 + omero admin diagnostics
00:48:49
00:48:49 ================================================================================
00:48:49 OMERO Diagnostics (admin)
00:48:49 ================================================================================
00:48:49
00:48:49 Commands: java -version 17.0.17 (/usr/bin/java)
00:48:49 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:48:49 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:48:49 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:48:49 Commands: psql --version 16.11 (/usr/bin/psql)
00:48:49 Commands: openssl version 3.5.11 (/usr/bin/openssl)
00:48:49
00:48:49 Component: OMERO.py 5.22.2.dev0
00:48:49 Component: OMERO.server 5.6.3-594-f673a13f5c-ice36-b146
00:48:49
00:48:49 Server: icegridnode running
00:48:49 Server: Blitz-0 active (pid = 43902, enabled)
00:48:49 Server: Indexer-0 activating (enabled)
00:48:49 Server: OMERO.Glacier2 active (pid = 43935, enabled)
00:48:49 Server: OMERO.IceStorm active (pid = 43966, enabled)
00:48:49 Server: Processor-0 active (pid = 43952, enabled)
00:48:49 Server: Tables-0 active (pid = 43967, enabled)
00:48:49
00:48:49 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:48:49 Log files: Blitz-0.log 33.3 KB errors=0 warnings=1
00:48:49 Log files: DropBox.log n/a
00:48:49 Log files: FileServer.log n/a
00:48:49 Log files: Indexer-0.log 598 B
00:48:49 Log files: MonitorServer.log n/a
00:48:49 Log files: Processor-0.log 735 B
00:48:49 Log files: Tables-0.log 961 B
00:48:49 Log files: TestDropBox.log n/a
00:48:49 Log files: master.err empty
00:48:49 Log files: master.out 30.5 KB
00:48:49 Log files: Total size 0.07 MB
00:48:49
00:48:49
00:48:49 Environment:OMERO_HOME=(unset)
00:48:49 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:49 Environment:OMERO_NODE=(unset)
00:48:49 Environment:OMERO_MASTER=(unset)
00:48:49 Environment:OMERO_USERDIR=(unset)
00:48:49 Environment:OMERO_TMPDIR=(unset)
00:48:49 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:49 Environment:PYTHONPATH=(unset)
00:48:49 Environment:ICE_HOME=/opt/ice-3.6.5
00:48:49 Environment:LD_LIBRARY_PATH=(unset)
00:48:49 Environment:DYLD_LIBRARY_PATH=(unset)
00:48:49
00:48:49 OMERO SSL port:4064
00:48:49 OMERO TCP port:4063
00:48:49 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:48:49 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:48:49
00:48:49 JVM settings: Blitz-${index} -Xmx7200m
00:48:49 JVM settings: Indexer-${index} -Xmx4800m
00:48:49 JVM settings: PixelData-${index} -Xmx7200m
00:48:49 JVM settings: Repository-${index} -Xmx4800m
00:48:49
00:48:49 Jar: lib/server/formats-api.jar Bio-Formats API 8.6.0-SNAPSHOT 8 May 2026 04d23ac7aa095b1ac61fe918f926a0badb07fc82
00:48:49 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.6.0-SNAPSHOT 8 May 2026 04d23ac7aa095b1ac61fe918f926a0badb07fc82
00:48:49 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.6.0-SNAPSHOT 8 May 2026 04d23ac7aa095b1ac61fe918f926a0badb07fc82
00:48:49 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.4-SNAPSHOT 8 May 2026 d2231cdb9937c380093adbefa933daf0cb39493a
00:48:49 Jar: lib/server/ome-common.jar OME Common Java 6.2.2-SNAPSHOT 8 May 2026 d2231cdb9937c380093adbefa933daf0cb39493a
00:48:49 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 8 May 2026 d2231cdb9937c380093adbefa933daf0cb39493a
00:48:49 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 8 May 2026 d2231cdb9937c380093adbefa933daf0cb39493a
00:48:49 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 8 May 2026 d2231cdb9937c380093adbefa933daf0cb39493a
00:48:49 Jar: lib/server/ome-xml.jar OME XML library 6.5.4-SNAPSHOT 8 May 2026 d2231cdb9937c380093adbefa933daf0cb39493a
00:48:49 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT
00:48:49 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
00:48:49 Jar: lib/server/omero-gateway.jar jar 5.10.6-SNAPSHOT
00:48:49 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
00:48:49 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
00:48:49 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
00:48:49 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT
00:48:50 + deactivate
00:48:50 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:48:50 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:50 + export PATH
00:48:50 + unset _OLD_VIRTUAL_PATH
00:48:50 + '[' -n '' ']'
00:48:50 + hash -r
00:48:50 + '[' -n '' ']'
00:48:50 + unset VIRTUAL_ENV
00:48:50 + unset VIRTUAL_ENV_PROMPT
00:48:50 + '[' '!' '' = nondestructive ']'
00:48:50 + unset -f deactivate
00:48:50 Finished: SUCCESS
