14:37:35 Started by upstream project "Trigger" build number 177
14:37:35 originally caused by:
14:37:35 Started by user devspace
14:37:35 Running as SYSTEM
14:37:35 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
14:37:35 [OMERO-server] $ /bin/bash -xe /tmp/jenkins950885350934400884.sh
14:37:35 + source /home/settings.env
14:37:35 ++ OMERO_DB_HOST=pg
14:37:35 ++ OMERO_DB_USER=postgres
14:37:35 ++ OMERO_DB_PASS=
14:37:35 ++ OMERO_ROOT_PASS=omero
14:37:35 ++ OMERO_DATA_DIR=/OMERO
14:37:35 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:37:35 + OMERO_DB_NAME=OMERO-server
14:37:35 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:37:35 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:37:35 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:37:35 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:37:35 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
14:37:35 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:37:35 ++ deactivate nondestructive
14:37:35 ++ '[' -n '' ']'
14:37:35 ++ '[' -n '' ']'
14:37:35 ++ hash -r
14:37:35 ++ '[' -n '' ']'
14:37:35 ++ unset VIRTUAL_ENV
14:37:35 ++ unset VIRTUAL_ENV_PROMPT
14:37:35 ++ '[' '!' nondestructive = nondestructive ']'
14:37:35 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:37:35 ++ export VIRTUAL_ENV
14:37:35 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:37:35 ++ 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
14:37:35 ++ export PATH
14:37:35 ++ '[' -n '' ']'
14:37:35 ++ '[' -z '' ']'
14:37:35 ++ _OLD_VIRTUAL_PS1=
14:37:35 ++ PS1='(.venv3) '
14:37:35 ++ export PS1
14:37:35 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
14:37:35 ++ export VIRTUAL_ENV_PROMPT
14:37:35 ++ hash -r
14:37:35 + omero admin stop
14:37:37 Waiting on shutdown. Use CTRL-C to exit
14:37:37 .+ sleep 5
14:37:52 + deactivate
14:37:52 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
14:37:52 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:37:52 + export PATH
14:37:52 + unset _OLD_VIRTUAL_PATH
14:37:52 + '[' -n '' ']'
14:37:52 + hash -r
14:37:52 + '[' -n '' ']'
14:37:52 + unset VIRTUAL_ENV
14:37:52 + unset VIRTUAL_ENV_PROMPT
14:37:52 + '[' '!' '' = nondestructive ']'
14:37:52 + unset -f deactivate
14:37:52 + rm -rf /home/omero/workspace/OMERO-server/.venv3
14:37:53 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
14:37:56 + '[' false = true ']'
14:37:56 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
14:37:56 Skipping PURGE_DATA:CleanDbAndRepo
14:37:56 + 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
14:37:58 Copied 1 artifact from "OMERO-build" build number 135
14:37:58 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 126
14:37:58 Copied 2 artifacts from "OMERO-build-build" build number 144
14:37:58 [OMERO-server] $ /bin/bash -xe /tmp/jenkins6226017362154064809.sh
14:37:58 + source /home/settings.env
14:37:58 ++ OMERO_DB_HOST=pg
14:37:58 ++ OMERO_DB_USER=postgres
14:37:58 ++ OMERO_DB_PASS=
14:37:58 ++ OMERO_ROOT_PASS=omero
14:37:58 ++ OMERO_DATA_DIR=/OMERO
14:37:58 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:37:58 + OMERO_DB_NAME=OMERO-server
14:37:58 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:37:58 + mkdir -p /home/omero/omero-server-data
14:37:58 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:37:58 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:37:58 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:37:58 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:37:58 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:37:58 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:37:58 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:37:58 ++ ls OMERO.server-5.6.3-594-c5a74ab183-ice36-b135.zip
14:37:58 + ZIP=OMERO.server-5.6.3-594-c5a74ab183-ice36-b135.zip
14:37:58 + '[' '!' -z '' ']'
14:37:58 + DIST=OMERO.server-5.6.3-594-c5a74ab183-ice36-b135
14:37:58 + unzip OMERO.server-5.6.3-594-c5a74ab183-ice36-b135.zip
14:37:58 Archive: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135.zip
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/blitz/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/grid/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/profiles/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/error/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/grid/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/luts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/luts/janelia/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/luts/matplotlib/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/luts/ncsa_paledit/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/luts/seaborn/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/luts/wcif/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/analysis_scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/annotation_scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/export_scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/figure_scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/import_scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/scripts/omero/util_scripts/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/server/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/share/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/share/licenses/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/misc/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__1/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__10/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__11/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__2/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__3/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__4/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__5/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__6/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__7/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__8/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3A__9/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3__4/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3__5/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3__6/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO3__7/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO4.1__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO4.2__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO4.2__0/t/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO4.3__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO4.4__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO4__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.0__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.1__1/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.2__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.3__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4DEV__1/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4DEV__2/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4DEV__3/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/var/
14:37:58 creating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/var/tmp/
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/LICENSE.txt
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/backup.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/blitz/mail-senders.example
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/blitz/mail-server.example
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/build.properties
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/env.bat
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/env.sh
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/hibernate.properties
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/ice.config
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/logback-cli.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/logback-indexing-cli.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/logback-indexing.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/logback.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/mime.types
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/node1.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/node2.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/omero.properties
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/profiles/psql
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/rollover.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/Windows.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/error/maintainance.html
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/grid/README
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/grid/default.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/grid/templates.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/grid/windefault.xml
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/ice.config
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/internal.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/master.cfg
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/templates/robot.template
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/etc/testdropbox.config
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/history.rst
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/OMEZarrReader.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/accessors-smart.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/activation.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/aggdesigner-algorithm.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/aircompressor.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/antlr.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/aopalliance.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/apiguardian-api.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/asm.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/avatica-core.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/avatica-metrics.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/aws-java-sdk-core.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/aws-java-sdk-kms.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/aws-java-sdk-s3.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/base.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-anim.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-awt-util.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-bridge.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-codec.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-constants.jar
14:37:58 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-css.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-dom.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-ext.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-gvt.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-i18n.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-parser.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-script.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-shared-resources.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-svg-dom.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-svggen.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-transcoder.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-util.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/batik-xml.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/btm.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/calcite-core.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/calcite-linq4j.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/cdm-core.jar
14:37:59 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/lib/client/checker-qual.jar
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14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/psql-footer.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/psql-header.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/schema.sql
14:38:01 inflating: OMERO.server-5.6.3-594-c5a74ab183-ice36-b135/sql/psql/OMERO5.4__0/views.sql
14:38:01 + rm -f OMERO.server-5.6.3-594-c5a74ab183-ice36-b135.zip
14:38:01 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-594-c5a74ab183-ice36-b135 /home/omero/workspace/OMERO-server/OMERO.server
14:38:01 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:38:01 ++ deactivate nondestructive
14:38:01 ++ '[' -n '' ']'
14:38:01 ++ '[' -n '' ']'
14:38:01 ++ hash -r
14:38:01 ++ '[' -n '' ']'
14:38:01 ++ unset VIRTUAL_ENV
14:38:01 ++ unset VIRTUAL_ENV_PROMPT
14:38:01 ++ '[' '!' nondestructive = nondestructive ']'
14:38:01 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:38:01 ++ export VIRTUAL_ENV
14:38:01 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:38:01 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:38:01 ++ export PATH
14:38:01 ++ '[' -n '' ']'
14:38:01 ++ '[' -z '' ']'
14:38:01 ++ _OLD_VIRTUAL_PS1=
14:38:01 ++ PS1='(.venv3) '
14:38:01 ++ export PS1
14:38:01 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
14:38:01 ++ export VIRTUAL_ENV_PROMPT
14:38:01 ++ hash -r
14:38:01 + pip install -U pip
14:38:01 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
14:38:01 Collecting pip
14:38:01 Using cached pip-26.0.1-py3-none-any.whl (1.8 MB)
14:38:01 Installing collected packages: pip
14:38:01 Attempting uninstall: pip
14:38:01 Found existing installation: pip 22.3.1
14:38:01 Uninstalling pip-22.3.1:
14:38:01 Successfully uninstalled pip-22.3.1
14:38:02 Successfully installed pip-26.0.1
14:38:02 WARNING: There was an error checking the latest version of pip.
14:38:02 + 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
14:38:03 Collecting zeroc-ice==3.6.5
14:38:03 Downloading https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
14:38:06 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 12.3 MB/s 0:00:03
14:38:06 Installing collected packages: zeroc-ice
14:38:07 Successfully installed zeroc-ice-3.6.5
14:38:07 + pip install markdown
14:38:07 Collecting markdown
14:38:07 Using cached markdown-3.10.2-py3-none-any.whl.metadata (5.1 kB)
14:38:07 Using cached markdown-3.10.2-py3-none-any.whl (108 kB)
14:38:07 Installing collected packages: markdown
14:38:07 Successfully installed markdown-3.10.2
14:38:08 + pip install reportlab
14:38:08 Collecting reportlab
14:38:08 Using cached reportlab-4.4.10-py3-none-any.whl.metadata (1.7 kB)
14:38:08 Collecting pillow>=9.0.0 (from reportlab)
14:38:08 Using cached pillow-12.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.8 kB)
14:38:08 Collecting charset-normalizer (from reportlab)
14:38:08 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)
14:38:08 Using cached reportlab-4.4.10-py3-none-any.whl (2.0 MB)
14:38:08 Using cached pillow-12.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.1 MB)
14:38:08 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)
14:38:08 Installing collected packages: pillow, charset-normalizer, reportlab
14:38:10
14:38:10 Successfully installed charset-normalizer-3.4.7 pillow-12.2.0 reportlab-4.4.10
14:38:10 + pip install omego
14:38:10 Collecting omego
14:38:10 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
14:38:10 Collecting future (from omego)
14:38:10 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
14:38:11 Collecting yaclifw>=0.1.1 (from omego)
14:38:11 Using cached yaclifw-0.2.0-py3-none-any.whl
14:38:11 Collecting six (from yaclifw>=0.1.1->omego)
14:38:11 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
14:38:11 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
14:38:11 Using cached future-1.0.0-py3-none-any.whl (491 kB)
14:38:11 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
14:38:11 Installing collected packages: six, future, yaclifw, omego
14:38:11
14:38:11 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
14:38:11 + pip install tables
14:38:12 Collecting tables
14:38:12 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)
14:38:12 Collecting numpy>=1.20.0 (from tables)
14:38:12 Using cached numpy-2.4.4-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
14:38:12 Collecting numexpr>=2.6.2 (from tables)
14:38:12 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
14:38:12 Collecting packaging (from tables)
14:38:12 Using cached packaging-26.1-py3-none-any.whl.metadata (3.5 kB)
14:38:12 Collecting py-cpuinfo (from tables)
14:38:12 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
14:38:12 Collecting blosc2>=2.3.0 (from tables)
14:38:12 Using cached blosc2-4.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (6.2 kB)
14:38:12 Collecting ndindex (from blosc2>=2.3.0->tables)
14:38:12 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
14:38:12 Collecting msgpack (from blosc2>=2.3.0->tables)
14:38:12 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)
14:38:12 Collecting requests (from blosc2>=2.3.0->tables)
14:38:12 Using cached requests-2.33.1-py3-none-any.whl.metadata (4.8 kB)
14:38:12 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.7)
14:38:12 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
14:38:12 Using cached idna-3.13-py3-none-any.whl.metadata (8.0 kB)
14:38:12 Collecting urllib3<3,>=1.26 (from requests->blosc2>=2.3.0->tables)
14:38:12 Using cached urllib3-2.6.3-py3-none-any.whl.metadata (6.9 kB)
14:38:12 Collecting certifi>=2023.5.7 (from requests->blosc2>=2.3.0->tables)
14:38:12 Using cached certifi-2026.4.22-py3-none-any.whl.metadata (2.5 kB)
14:38:12 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)
14:38:12 Using cached blosc2-4.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (5.2 MB)
14:38:12 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
14:38:12 Using cached numpy-2.4.4-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
14:38:12 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (426 kB)
14:38:12 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
14:38:12 Using cached packaging-26.1-py3-none-any.whl (95 kB)
14:38:12 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
14:38:12 Using cached requests-2.33.1-py3-none-any.whl (64 kB)
14:38:12 Using cached idna-3.13-py3-none-any.whl (68 kB)
14:38:12 Using cached urllib3-2.6.3-py3-none-any.whl (131 kB)
14:38:12 Using cached certifi-2026.4.22-py3-none-any.whl (135 kB)
14:38:13 Installing collected packages: py-cpuinfo, urllib3, packaging, numpy, ndindex, msgpack, idna, certifi, requests, numexpr, blosc2, tables
14:38:16
14:38:16 Successfully installed blosc2-4.1.2 certifi-2026.4.22 idna-3.13 msgpack-1.1.2 ndindex-1.10.1 numexpr-2.14.1 numpy-2.4.4 packaging-26.1 py-cpuinfo-9.0.0 requests-2.33.1 tables-3.11.1 urllib3-2.6.3
14:38:16 + pip install jinja2
14:38:16 Collecting jinja2
14:38:16 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
14:38:16 Collecting MarkupSafe>=2.0 (from jinja2)
14:38:16 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)
14:38:16 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
14:38:16 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
14:38:16 Installing collected packages: MarkupSafe, jinja2
14:38:17
14:38:17 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
14:38:17 + pip install omero-py
14:38:17 Collecting omero-py
14:38:17 Using cached omero_py-5.22.1-py3-none-any.whl.metadata (6.5 kB)
14:38:17 Collecting appdirs (from omero-py)
14:38:17 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
14:38:17 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
14:38:17 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.4)
14:38:17 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.2.0)
14:38:17 Collecting PyYAML (from omero-py)
14:38:17 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)
14:38:17 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
14:38:17 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.33.1)
14:38:17 Collecting portalocker (from omero-py)
14:38:17 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
14:38:17 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.7)
14:38:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.13)
14:38:17 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.6.3)
14:38:17 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.4.22)
14:38:17 Using cached omero_py-5.22.1-py3-none-any.whl (2.8 MB)
14:38:17 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
14:38:17 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
14:38:17 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
14:38:17 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
14:38:19
14:38:19 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.22.1 portalocker-3.2.0
14:38:19 + pip install pyarrow
14:38:20 Collecting pyarrow
14:38:20 Using cached pyarrow-24.0.0-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB)
14:38:20 Using cached pyarrow-24.0.0-cp311-cp311-manylinux_2_28_x86_64.whl (48.8 MB)
14:38:20 Installing collected packages: pyarrow
14:38:21 Successfully installed pyarrow-24.0.0
14:38:21 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
14:38:22 Collecting omero-metadata
14:38:22 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-kcyhy55a/omero-metadata_4b11aabdc31f43c8a2dad61746a6a770
14:38:22 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-kcyhy55a/omero-metadata_4b11aabdc31f43c8a2dad61746a6a770
14:38:23 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 8c67b2289a655d6d923c3c407686d42774d1a203
14:38:23 Installing build dependencies: started
14:38:23 Installing build dependencies: finished with status 'done'
14:38:23 Getting requirements to build wheel: started
14:38:24 Getting requirements to build wheel: finished with status 'done'
14:38:24 Preparing metadata (pyproject.toml): started
14:38:24 Preparing metadata (pyproject.toml): finished with status 'done'
14:38:24 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.22.1)
14:38:24 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
14:38:24 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
14:38:24 Collecting pandas (from omero-metadata)
14:38:24 Using cached pandas-3.0.2-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
14:38:24 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
14:38:24 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
14:38:24 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.4)
14:38:24 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)
14:38:24 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)
14:38:24 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.33.1)
14:38:24 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
14:38:24 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
14:38:24 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
14:38:24 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
14:38:24 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)
14:38:24 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)
14:38:24 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)
14:38:24 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.6.3)
14:38:24 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)
14:38:24 Using cached pandas-3.0.2-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (11.3 MB)
14:38:24 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
14:38:24 Building wheels for collected packages: omero-metadata
14:38:24 Building wheel for omero-metadata (pyproject.toml): started
14:38:24 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
14:38:24 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=21a7aa10c650e228db028da5593f240c7aab5e5d13724027d76627ff348dcbba
14:38:24 Stored in directory: /tmp/pip-ephem-wheel-cache-ltve_ms8/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
14:38:24 Successfully built omero-metadata
14:38:24 Installing collected packages: python-dateutil, pandas, omero-metadata
14:38:29
14:38:29 Successfully installed omero-metadata-0.13.1.dev0 pandas-3.0.2 python-dateutil-2.9.0.post0
14:38:29 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
14:38:29 Collecting omero-cli-render
14:38:29 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-bu_68vaa/omero-cli-render_71401d9de5734aa3be018d64ec77d56f
14:38:29 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-bu_68vaa/omero-cli-render_71401d9de5734aa3be018d64ec77d56f
14:38:30 Running command git checkout -b merge_ci --track origin/merge_ci
14:38:30 Switched to a new branch 'merge_ci'
14:38:30 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:38:30 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 4e0d4f8517dd203bfd947d050c9a8f56ff57e529
14:38:30 Installing build dependencies: started
14:38:31 Installing build dependencies: finished with status 'done'
14:38:31 Getting requirements to build wheel: started
14:38:31 Getting requirements to build wheel: finished with status 'done'
14:38:31 Preparing metadata (pyproject.toml): started
14:38:32 Preparing metadata (pyproject.toml): finished with status 'done'
14:38:32 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
14:38:32 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.22.1)
14:38:32 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
14:38:32 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
14:38:32 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)
14:38:32 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)
14:38:32 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
14:38:32 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.33.1)
14:38:32 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
14:38:32 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)
14:38:32 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)
14:38:32 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.6.3)
14:38:32 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)
14:38:32 Building wheels for collected packages: omero-cli-render
14:38:32 Building wheel for omero-cli-render (pyproject.toml): started
14:38:32 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
14:38:32 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19839 sha256=ee68ad85112f4bc696f2549854cbc93aa657db8db29c2234dbfa01376c8e50b0
14:38:32 Stored in directory: /tmp/pip-ephem-wheel-cache-famep0to/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
14:38:32 Successfully built omero-cli-render
14:38:32 Installing collected packages: omero-cli-render
14:38:32 Successfully installed omero-cli-render-0.8.2.dev0
14:38:32 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
14:38:32 Collecting omero-cli-duplicate
14:38:32 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-wllwpmls/omero-cli-duplicate_9c9d8136471744dabbc85f46d4ca6f29
14:38:32 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-wllwpmls/omero-cli-duplicate_9c9d8136471744dabbc85f46d4ca6f29
14:38:33 Running command git checkout -b merge_ci --track origin/merge_ci
14:38:34 Switched to a new branch 'merge_ci'
14:38:34 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:38:34 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit c72cbfc004936631ceca2b3fed615156a17a238f
14:38:34 Installing build dependencies: started
14:38:34 Installing build dependencies: finished with status 'done'
14:38:34 Getting requirements to build wheel: started
14:38:35 Getting requirements to build wheel: finished with status 'done'
14:38:35 Preparing metadata (pyproject.toml): started
14:38:35 Preparing metadata (pyproject.toml): finished with status 'done'
14:38:35 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.22.1)
14:38:35 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
14:38:35 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
14:38:35 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.4)
14:38:35 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)
14:38:35 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
14:38:35 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)
14:38:35 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.33.1)
14:38:35 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
14:38:35 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)
14:38:35 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)
14:38:35 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.6.3)
14:38:35 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)
14:38:35 Building wheels for collected packages: omero-cli-duplicate
14:38:35 Building wheel for omero-cli-duplicate (pyproject.toml): started
14:38:35 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
14:38:35 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11539 sha256=060b53b5d7a7387afdbc7d985a75de12819f9e5683cacce371cf124c5175ce38
14:38:35 Stored in directory: /tmp/pip-ephem-wheel-cache-jw462ibb/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
14:38:35 Successfully built omero-cli-duplicate
14:38:35 Installing collected packages: omero-cli-duplicate
14:38:35 Successfully installed omero-cli-duplicate-0.4.1.dev0
14:38:35 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
14:38:36 Collecting omero-cli-zarr
14:38:36 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-ylrg1pi9/omero-cli-zarr_0081e50315b5483c802c2473568aa17a
14:38:36 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-ylrg1pi9/omero-cli-zarr_0081e50315b5483c802c2473568aa17a
14:38:37 Running command git checkout -b merge_ci --track origin/merge_ci
14:38:37 Switched to a new branch 'merge_ci'
14:38:37 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:38:37 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit f9ac66cb6ed1af5b06906eff715281d8bd3de669
14:38:37 Installing build dependencies: started
14:38:38 Installing build dependencies: finished with status 'done'
14:38:38 Getting requirements to build wheel: started
14:38:38 Getting requirements to build wheel: finished with status 'done'
14:38:38 Installing backend dependencies: started
14:38:39 Installing backend dependencies: finished with status 'done'
14:38:39 Preparing metadata (pyproject.toml): started
14:38:39 Preparing metadata (pyproject.toml): finished with status 'done'
14:38:39 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.22.1)
14:38:39 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
14:38:39 Using cached ome_zarr-0.16.0-py3-none-any.whl.metadata (2.9 kB)
14:38:39 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.4)
14:38:39 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:39 Using cached dask-2026.3.0-py3-none-any.whl.metadata (3.9 kB)
14:38:39 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:39 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
14:38:39 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)
14:38:39 Using cached fsspec-2026.3.0-py3-none-any.whl.metadata (10 kB)
14:38:40 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 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)
14:38:40 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.33.1)
14:38:40 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
14:38:40 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
14:38:40 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
14:38:40 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
14:38:40 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached click-8.3.3-py3-none-any.whl.metadata (2.6 kB)
14:38:40 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
14:38:40 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) (26.1)
14:38:40 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
14:38:40 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)
14:38:40 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)
14:38:40 Using cached importlib_metadata-9.0.0-py3-none-any.whl.metadata (4.5 kB)
14:38:40 Collecting s3fs>2024.2.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:40 Using cached s3fs-2026.3.0-py3-none-any.whl.metadata (1.2 kB)
14:38:40 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)
14:38:40 Using cached zipp-3.23.1-py3-none-any.whl.metadata (3.6 kB)
14:38:40 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
14:38:40 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
14:38:40 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)
14:38:40 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.6.5)
14:38:40 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.2.0)
14:38:40 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)
14:38:40 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
14:38:40 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)
14:38:40 Using cached aiobotocore-3.5.0-py3-none-any.whl.metadata (27 kB)
14:38:40 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)
14:38:40 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
14:38:41 Collecting botocore<1.42.92,>=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)
14:38:41 Using cached botocore-1.42.91-py3-none-any.whl.metadata (5.9 kB)
14:38:41 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)
14:38:41 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)
14:38:41 Using cached jmespath-1.1.0-py3-none-any.whl.metadata (7.6 kB)
14:38:41 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)
14:38:41 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)
14:38:41 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)
14:38:41 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)
14:38:41 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:41 Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl.metadata (5.9 kB)
14:38:41 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:41 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
14:38:41 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:41 Using cached attrs-26.1.0-py3-none-any.whl.metadata (8.8 kB)
14:38:41 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:41 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)
14:38:42 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 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)
14:38:42 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 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)
14:38:42 Requirement already satisfied: urllib3!=2.2.0,<3,>=1.25.4 in ./.venv3/lib64/python3.11/site-packages (from botocore<1.42.92,>=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) (2.6.3)
14:38:42 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)
14:38:42 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)
14:38:42 Collecting typing-extensions>=4.2 (from aiosignal>=1.4.0->aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
14:38:42 Collecting scipy>=1.11.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (62 kB)
14:38:42 Collecting networkx>=3.0 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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14:38:42 Collecting imageio!=2.35.0,>=2.33 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 Using cached imageio-2.37.3-py3-none-any.whl.metadata (9.7 kB)
14:38:42 Collecting tifffile>=2022.8.12 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 Using cached tifffile-2026.3.3-py3-none-any.whl.metadata (31 kB)
14:38:42 Collecting lazy-loader>=0.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 Using cached lazy_loader-0.5-py3-none-any.whl.metadata (5.9 kB)
14:38:42 Collecting donfig>=0.8 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 Using cached donfig-0.8.1.post1-py3-none-any.whl.metadata (5.0 kB)
14:38:42 Collecting google-crc32c>=1.5 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 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)
14:38:42 Collecting numcodecs>=0.14 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:38:42 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)
14:38:42 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)
14:38:42 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)
14:38:42 Using cached ome_zarr-0.16.0-py3-none-any.whl (46 kB)
14:38:42 Using cached dask-2026.3.0-py3-none-any.whl (1.5 MB)
14:38:42 Using cached click-8.3.3-py3-none-any.whl (110 kB)
14:38:42 Using cached cloudpickle-3.1.2-py3-none-any.whl (22 kB)
14:38:42 Using cached fsspec-2026.3.0-py3-none-any.whl (202 kB)
14:38:42 Using cached importlib_metadata-9.0.0-py3-none-any.whl (27 kB)
14:38:42 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
14:38:42 Using cached s3fs-2026.3.0-py3-none-any.whl (32 kB)
14:38:42 Using cached aiobotocore-3.5.0-py3-none-any.whl (88 kB)
14:38:42 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)
14:38:42 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
14:38:42 Using cached botocore-1.42.91-py3-none-any.whl (14.9 MB)
14:38:42 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
14:38:42 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (246 kB)
14:38:42 Using cached wrapt-2.1.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (114 kB)
14:38:42 Using cached yarl-1.23.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (102 kB)
14:38:42 Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl (15 kB)
14:38:42 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
14:38:42 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
14:38:42 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
14:38:42 Using cached propcache-0.4.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (210 kB)
14:38:42 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
14:38:43 Using cached imageio-2.37.3-py3-none-any.whl (317 kB)
14:38:43 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB)
14:38:43 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
14:38:43 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
14:38:43 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
14:38:43 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
14:38:43 Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
14:38:43 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
14:38:43 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
14:38:43 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)
14:38:43 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)
14:38:43 Using cached zipp-3.23.1-py3-none-any.whl (10 kB)
14:38:43 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
14:38:43 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
14:38:43 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
14:38:43 Building wheels for collected packages: omero-cli-zarr
14:38:43 Building wheel for omero-cli-zarr (pyproject.toml): started
14:38:43 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
14:38:43 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev162+gf9ac66c-py3-none-any.whl size=38288 sha256=a069aff8dce6de40aadbad31acab855d2fd415402db1e6b9125ac8db85e84b0a
14:38:43 Stored in directory: /tmp/pip-ephem-wheel-cache-szf8a8iq/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
14:38:43 Successfully built omero-cli-zarr
14:38:43 Installing collected packages: rangehttpserver, zipp, wrapt, typing-extensions, toolz, tifffile, scipy, propcache, networkx, multidict, locket, lazy-loader, jmespath, imageio, google-crc32c, fsspec, frozenlist, donfig, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, yarl, scikit-image, partd, numcodecs, importlib_metadata, Deprecated, botocore, aiosignal, zarr, dask, aiohttp, aiobotocore, s3fs, ome-zarr, omero-cli-zarr
14:38:52
14:38:52 Successfully installed Deprecated-1.3.1 aiobotocore-3.5.0 aiohappyeyeballs-2.6.1 aiohttp-3.13.5 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.42.91 click-8.3.3 cloudpickle-3.1.2 dask-2026.3.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.3.0 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+gf9ac66c partd-1.4.2 propcache-0.4.1 rangehttpserver-1.4.0 s3fs-2026.3.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 typing-extensions-4.15.0 wrapt-2.1.2 yarl-1.23.0 zarr-3.1.6 zipp-3.23.1
14:38:53 + pip install omero-certificates
14:38:53 Collecting omero-certificates
14:38:53 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
14:38:53 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.22.1)
14:38:53 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
14:38:53 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
14:38:53 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.4)
14:38:53 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)
14:38:53 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
14:38:53 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)
14:38:53 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.33.1)
14:38:53 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
14:38:53 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)
14:38:53 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)
14:38:53 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.6.3)
14:38:53 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)
14:38:53 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
14:38:53 Installing collected packages: omero-certificates
14:38:53 Successfully installed omero-certificates-0.4.0
14:38:53 + for x in *.tar.gz
14:38:53 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
14:38:54 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
14:38:54 Installing build dependencies: started
14:38:54 Installing build dependencies: finished with status 'done'
14:38:54 Getting requirements to build wheel: started
14:38:55 Getting requirements to build wheel: finished with status 'done'
14:38:55 Preparing metadata (pyproject.toml): started
14:38:55 Preparing metadata (pyproject.toml): finished with status 'done'
14:38:55 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.22.1)
14:38:55 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
14:38:55 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
14:38:55 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)
14:38:55 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)
14:38:55 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
14:38:55 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)
14:38:55 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.33.1)
14:38:55 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
14:38:55 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)
14:38:55 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)
14:38:55 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.6.3)
14:38:55 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)
14:38:55 Building wheels for collected packages: omero-dropbox
14:38:55 Building wheel for omero-dropbox (pyproject.toml): started
14:38:55 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
14:38:55 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49154 sha256=19d3bb3d7cf482656bd076b74def02c02c0ed6ff410e34243f476e078cc73b3e
14:38:55 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
14:38:55 Successfully built omero-dropbox
14:38:55 Installing collected packages: omero-dropbox
14:38:55 Successfully installed omero-dropbox-5.7.1.dev0
14:38:55 + for x in *.tar.gz
14:38:55 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
14:38:56 Processing ./omero_marshal-0.9.2.dev0.tar.gz
14:38:56 Installing build dependencies: started
14:38:57 Installing build dependencies: finished with status 'done'
14:38:57 Getting requirements to build wheel: started
14:38:57 Getting requirements to build wheel: finished with status 'done'
14:38:57 Preparing metadata (pyproject.toml): started
14:38:57 Preparing metadata (pyproject.toml): finished with status 'done'
14:38:57 Building wheels for collected packages: omero_marshal
14:38:57 Building wheel for omero_marshal (pyproject.toml): started
14:38:57 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
14:38:57 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88131 sha256=1513dbf3b558d2ee95497dee5a94bba4651e4ee6fa05c3a30609a971bcc590e5
14:38:57 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
14:38:57 Successfully built omero_marshal
14:38:58 Installing collected packages: omero_marshal
14:38:58 Successfully installed omero_marshal-0.9.2.dev0
14:38:58 + for x in *.tar.gz
14:38:58 + pip install -U omero_py-5.22.2.dev0.tar.gz
14:38:58 Processing ./omero_py-5.22.2.dev0.tar.gz
14:38:58 Installing build dependencies: started
14:38:59 Installing build dependencies: finished with status 'done'
14:38:59 Getting requirements to build wheel: started
14:38:59 Getting requirements to build wheel: finished with status 'done'
14:38:59 Preparing metadata (pyproject.toml): started
14:39:00 Preparing metadata (pyproject.toml): finished with status 'done'
14:39:00 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.4.4)
14:39:00 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.0.0)
14:39:00 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.4.4)
14:39:00 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (12.2.0)
14:39:00 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (6.0.3)
14:39:00 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)
14:39:00 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.33.1)
14:39:00 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.2.0)
14:39:00 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)
14:39:00 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.13)
14:39:00 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2.6.3)
14:39:00 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)
14:39:00 Building wheels for collected packages: omero-py
14:39:00 Building wheel for omero-py (pyproject.toml): started
14:39:01 Building wheel for omero-py (pyproject.toml): finished with status 'done'
14:39:01 Created wheel for omero-py: filename=omero_py-5.22.2.dev0-py3-none-any.whl size=2786692 sha256=9f1624a6793aefca341182c6c20781ff9a1fe2c7c82cee4461570faa88cf3138
14:39:01 Stored in directory: /home/omero/.cache/pip/wheels/ec/3f/72/4027ca0a7faf1f66d4577cc07619b0497ac8e99396d43dd8fa
14:39:01 Successfully built omero-py
14:39:01 Installing collected packages: omero-py
14:39:01 Attempting uninstall: omero-py
14:39:01 Found existing installation: omero-py 5.22.1
14:39:01 Uninstalling omero-py-5.22.1:
14:39:01 Successfully uninstalled omero-py-5.22.1
14:39:03 Successfully installed omero-py-5.22.2.dev0
14:39:03 + for x in *.tar.gz
14:39:03 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
14:39:03 Processing ./omero_scripts-5.10.1.dev0.tar.gz
14:39:03 Installing build dependencies: started
14:39:04 Installing build dependencies: finished with status 'done'
14:39:04 Getting requirements to build wheel: started
14:39:05 Getting requirements to build wheel: finished with status 'done'
14:39:05 Preparing metadata (pyproject.toml): started
14:39:05 Preparing metadata (pyproject.toml): finished with status 'done'
14:39:05 Building wheels for collected packages: omero-scripts
14:39:05 Building wheel for omero-scripts (pyproject.toml): started
14:39:05 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
14:39:05 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137001 sha256=9df7902eeac2d7060ed666ffedddcce8e2d5e29519b9910e921f98f6f7a2b9d1
14:39:05 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
14:39:05 Successfully built omero-scripts
14:39:05 Installing collected packages: omero-scripts
14:39:05 Successfully installed omero-scripts-5.10.1.dev0
14:39:05 + for x in *.tar.gz
14:39:05 + pip install -U omero_web-5.31.1.dev0.tar.gz
14:39:06 Processing ./omero_web-5.31.1.dev0.tar.gz
14:39:06 Installing build dependencies: started
14:39:07 Installing build dependencies: finished with status 'done'
14:39:07 Getting requirements to build wheel: started
14:39:07 Getting requirements to build wheel: finished with status 'done'
14:39:07 Preparing metadata (pyproject.toml): started
14:39:07 Preparing metadata (pyproject.toml): finished with status 'done'
14:39:07 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)
14:39:07 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.31.1.dev0)
14:39:07 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
14:39:07 Collecting Django<5.3,>=5.2.9 (from omero-web==5.31.1.dev0)
14:39:07 Using cached django-5.2.13-py3-none-any.whl.metadata (4.1 kB)
14:39:08 Collecting django-pipeline>=4.1.0 (from omero-web==5.31.1.dev0)
14:39:08 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
14:39:08 Collecting django-cors-headers==3.7.0 (from omero-web==5.31.1.dev0)
14:39:08 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
14:39:08 Collecting whitenoise>=5.3.0 (from omero-web==5.31.1.dev0)
14:39:08 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
14:39:08 Collecting gunicorn>=19.3 (from omero-web==5.31.1.dev0)
14:39:08 Using cached gunicorn-25.3.0-py3-none-any.whl.metadata (5.5 kB)
14:39:08 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)
14:39:08 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (12.2.0)
14:39:08 Collecting pytz (from omero-web==5.31.1.dev0)
14:39:08 Using cached pytz-2026.1.post1-py2.py3-none-any.whl.metadata (22 kB)
14:39:08 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (3.2.0)
14:39:08 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (26.1)
14:39:08 Collecting importlib-resources (from omero-web==5.31.1.dev0)
14:39:08 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
14:39:08 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.31.1.dev0)
14:39:08 Using cached asgiref-3.11.1-py3-none-any.whl.metadata (9.3 kB)
14:39:08 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.31.1.dev0)
14:39:08 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
14:39:08 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)
14:39:08 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.31.1.dev0)
14:39:08 Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
14:39:08 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)
14:39:08 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)
14:39:08 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)
14:39:08 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)
14:39:08 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.6.5)
14:39:08 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)
14:39:08 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.4.7)
14:39:08 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.13)
14:39:08 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.6.3)
14:39:08 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (2026.4.22)
14:39:08 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
14:39:08 Using cached django-5.2.13-py3-none-any.whl (8.3 MB)
14:39:08 Using cached asgiref-3.11.1-py3-none-any.whl (24 kB)
14:39:08 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
14:39:08 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
14:39:08 Using cached gunicorn-25.3.0-py3-none-any.whl (208 kB)
14:39:08 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
14:39:08 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
14:39:08 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
14:39:08 Using cached pytz-2026.1.post1-py2.py3-none-any.whl (510 kB)
14:39:08 Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
14:39:08 Building wheels for collected packages: omero-web
14:39:08 Building wheel for omero-web (pyproject.toml): started
14:39:09 Building wheel for omero-web (pyproject.toml): finished with status 'done'
14:39:09 Created wheel for omero-web: filename=omero_web-5.31.1.dev0-py3-none-any.whl size=2819315 sha256=076e659edf071ba80016701a824bddd80b5078098e161614421fd1c8e4e9bfd1
14:39:09 Stored in directory: /home/omero/.cache/pip/wheels/48/a3/5b/968853abf49b64e1726fdb37874d77f08ddad2d06b53de06b3
14:39:09 Successfully built omero-web
14:39:09 Installing collected packages: pytz, whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
14:39:12
14:39:12 Successfully installed Django-5.2.13 asgiref-3.11.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-25.3.0 importlib-resources-7.1.0 omero-web-5.31.1.dev0 pytz-2026.1.post1 sqlparse-0.5.5 wheel-0.47.0 whitenoise-6.12.0
14:39:12 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:39:12 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
14:39:12 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
14:39:12 --2026-04-23 14:39:12-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:39:12 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.108.133, 185.199.109.133, ...
14:39:12 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
14:39:12 HTTP request sent, awaiting response... 200 OK
14:39:13 Length: 139337 (136K) [text/plain]
14:39:13 Saving to: ‘Figure_To_Pdf.py’
14:39:13
14:39:13 0K .......... .......... .......... .......... .......... 36% 1.37M 0s
14:39:13 50K .......... .......... .......... .......... .......... 73% 2.60M 0s
14:39:13 100K .......... .......... .......... ...... 100% 5.52M=0.06s
14:39:13
14:39:13 2026-04-23 14:39:13 (2.18 MB/s) - ‘Figure_To_Pdf.py’ saved [139337/139337]
14:39:13
14:39:13 + chmod 755 Figure_To_Pdf.py
14:39:13 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
14:39:13 + omero config set omero.db.name OMERO-server
14:39:15 + omero config set omero.db.host pg
14:39:17 + omero config set omero.db.user postgres
14:39:19 + omero config set omero.data.dir /home/omero/omero-server-data
14:39:21 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
14:39:23 + omero config set omero.db.poolsize 25
14:39:25 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
14:39:27 + omero config set omero.security.trustStorePassword changeit
14:39:29 + omero config set omero.mail.config true
14:39:30 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
14:39:32 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
14:39:34 + omero certificates
14:39:36 OpenSSL 3.5.1 1 Jul 2025 (Library: OpenSSL 3.5.1 1 Jul 2025)
14:39:36 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
14:39:36 + '[' false = true ']'
14:39:36 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
14:39:36 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
14:39:36 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
14:39:37 2026-04-23 14:39:37,002 [ omego.db] DEBUG dbcommand => upgrade
14:39:37 2026-04-23 14:39:37,003 [ omego.db] DEBUG dbhost => localhost
14:39:37 2026-04-23 14:39:37,003 [ omego.db] DEBUG dbname => OMERO-server
14:39:37 2026-04-23 14:39:37,003 [ omego.db] DEBUG dbpass => omero
14:39:37 2026-04-23 14:39:37,003 [ omego.db] DEBUG dbuser => omero
14:39:37 2026-04-23 14:39:37,003 [ omego.db] DEBUG rootpass => omero
14:39:37 2026-04-23 14:39:37,003 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
14:39:37 2026-04-23 14:39:37,003 [omego.extern] INFO Executing : omero version
14:39:38 OMERO.py version:
14:39:38 OMERO.server version:
14:39:38 5.6.3-594-c5a74ab183-ice36-b135
14:39:38 5.22.2.dev0
14:39:39 2026-04-23 14:39:39,011 [omego.extern] INFO Completed [2.008 s]
14:39:39 2026-04-23 14:39:39,011 [omego.extern] DEBUG Using omero CLI from omero
14:39:39 2026-04-23 14:39:39,011 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
14:39:39 2026-04-23 14:39:39,011 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:39:39 2026-04-23 14:39:39,011 [omego.extern] INFO Executing : omero config get --show-password
14:39:40 2026-04-23 14:39:40,969 [omego.extern] INFO Completed [1.958 s]
14:39:40 2026-04-23 14:39:40,970 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:39:40 2026-04-23 14:39:40,970 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
14:39:40 2026-04-23 14:39:40,975 [omego.extern] INFO Completed [0.005 s]
14:39:40 2026-04-23 14:39:40,975 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.11\n'
14:39:40 2026-04-23 14:39:40,975 [ omego.db] INFO psql version: psql (PostgreSQL) 16.11
14:39:40
14:39:40 2026-04-23 14:39:40,975 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:39:40 2026-04-23 14:39:40,975 [omego.extern] INFO Executing : omero config get --show-password
14:39:42 2026-04-23 14:39:42,944 [omego.extern] INFO Completed [1.969 s]
14:39:42 2026-04-23 14:39:42,944 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:39:42 2026-04-23 14:39:42,945 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
14:39:42 2026-04-23 14:39:42,953 [omego.extern] INFO Completed [0.009 s]
14:39:42 2026-04-23 14:39:42,953 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.4") at port "5432".\n'
14:39:42 2026-04-23 14:39:42,954 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
14:39:42 2026-04-23 14:39:42,954 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:39:42 2026-04-23 14:39:42,954 [omego.extern] INFO Executing : omero config get --show-password
14:39:44 2026-04-23 14:39:44,924 [omego.extern] INFO Completed [1.971 s]
14:39:44 2026-04-23 14:39:44,924 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:39:44 2026-04-23 14:39:44,924 [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
14:39:44 2026-04-23 14:39:44,935 [omego.extern] INFO Completed [0.010 s]
14:39:44 2026-04-23 14:39:44,935 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
14:39:44 2026-04-23 14:39:44,935 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
14:39:44 2026-04-23 14:39:44,936 [ omego.db] INFO Database is already at OMERO5.4__0
14:39:44 + export LANG=en_US.UTF-8
14:39:44 + LANG=en_US.UTF-8
14:39:44 + export LANGUAGE=en_US:en
14:39:44 + LANGUAGE=en_US:en
14:39:44 + export LC_ALL=en_US.UTF-8
14:39:44 + LC_ALL=en_US.UTF-8
14:39:44 + BUILD_ID=DONT_KILL_ME
14:39:44 + omero admin start
14:39:49 No descriptor given. Using etc/grid/default.xml
14:39:59 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
14:39:59 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
14:39:59 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
14:39:59 Waiting on startup. Use CTRL-C to exit
14:39:59 + omero admin waitup
14:40:01 Waiting on startup. Use CTRL-C to exit
14:40:01 + omero admin diagnostics
14:40:03
14:40:03 ================================================================================
14:40:03 OMERO Diagnostics (admin)
14:40:03 ================================================================================
14:40:03
14:40:03 Commands: java -version 17.0.17 (/usr/bin/java)
14:40:03 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
14:40:03 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
14:40:03 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
14:40:03 Commands: psql --version 16.11 (/usr/bin/psql)
14:40:03 Commands: openssl version 3.5.11 (/usr/bin/openssl)
14:40:03
14:40:03 Component: OMERO.py 5.22.2.dev0
14:40:03 Component: OMERO.server 5.6.3-594-c5a74ab183-ice36-b135
14:40:03
14:40:03 Server: icegridnode running
14:40:03 Server: Blitz-0 active (pid = 15482, enabled)
14:40:03 Server: Indexer-0 activating (enabled)
14:40:03 Server: OMERO.Glacier2 active (pid = 15516, enabled)
14:40:03 Server: OMERO.IceStorm active (pid = 15545, enabled)
14:40:03 Server: Processor-0 active (pid = 15533, enabled)
14:40:03 Server: Tables-0 active (pid = 15546, enabled)
14:40:03
14:40:03 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
14:40:03 Log files: Blitz-0.log 33.6 KB errors=0 warnings=1
14:40:03 Log files: DropBox.log n/a
14:40:03 Log files: FileServer.log n/a
14:40:03 Log files: Indexer-0.log 598 B
14:40:03 Log files: MonitorServer.log n/a
14:40:03 Log files: Processor-0.log 735 B
14:40:03 Log files: Tables-0.log 961 B
14:40:03 Log files: TestDropBox.log n/a
14:40:03 Log files: master.err empty
14:40:03 Log files: master.out 30.5 KB
14:40:03 Log files: Total size 0.07 MB
14:40:03
14:40:03
14:40:03 Environment:OMERO_HOME=(unset)
14:40:03 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:40:03 Environment:OMERO_NODE=(unset)
14:40:03 Environment:OMERO_MASTER=(unset)
14:40:03 Environment:OMERO_USERDIR=(unset)
14:40:03 Environment:OMERO_TMPDIR=(unset)
14:40:03 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
14:40:03 Environment:PYTHONPATH=(unset)
14:40:03 Environment:ICE_HOME=/opt/ice-3.6.5
14:40:03 Environment:LD_LIBRARY_PATH=(unset)
14:40:03 Environment:DYLD_LIBRARY_PATH=(unset)
14:40:03
14:40:03 OMERO SSL port:4064
14:40:03 OMERO TCP port:4063
14:40:03 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
14:40:03 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
14:40:03
14:40:03 JVM settings: Blitz-${index} -Xmx7200m
14:40:03 JVM settings: Indexer-${index} -Xmx4800m
14:40:03 JVM settings: PixelData-${index} -Xmx7200m
14:40:03 JVM settings: Repository-${index} -Xmx4800m
14:40:03
14:40:03 Jar: lib/server/formats-api.jar Bio-Formats API 8.6.0-SNAPSHOT 23 April 2026 8746a5cd22083148bb65250c7fe68c9846bd2628
14:40:03 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.6.0-SNAPSHOT 23 April 2026 8746a5cd22083148bb65250c7fe68c9846bd2628
14:40:03 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.6.0-SNAPSHOT 23 April 2026 8746a5cd22083148bb65250c7fe68c9846bd2628
14:40:03 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.4-SNAPSHOT 23 April 2026 d86f268ead53b39cbb63f05e52eb5cd61d4bef8a
14:40:03 Jar: lib/server/ome-common.jar OME Common Java 6.2.2-SNAPSHOT 23 April 2026 d86f268ead53b39cbb63f05e52eb5cd61d4bef8a
14:40:03 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 23 April 2026 d86f268ead53b39cbb63f05e52eb5cd61d4bef8a
14:40:03 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 23 April 2026 d86f268ead53b39cbb63f05e52eb5cd61d4bef8a
14:40:03 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 23 April 2026 d86f268ead53b39cbb63f05e52eb5cd61d4bef8a
14:40:03 Jar: lib/server/ome-xml.jar OME XML library 6.5.4-SNAPSHOT 23 April 2026 d86f268ead53b39cbb63f05e52eb5cd61d4bef8a
14:40:03 Jar: lib/server/omero-blitz.jar jar 5.8.5-SNAPSHOT
14:40:03 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
14:40:03 Jar: lib/server/omero-gateway.jar jar 5.10.6-SNAPSHOT
14:40:03 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
14:40:03 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
14:40:03 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
14:40:03 Jar: lib/server/omero-server.jar jar 5.7.5-SNAPSHOT
14:40:04 + deactivate
14:40:04 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
14:40:04 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:40:04 + export PATH
14:40:04 + unset _OLD_VIRTUAL_PATH
14:40:04 + '[' -n '' ']'
14:40:04 + hash -r
14:40:04 + '[' -n '' ']'
14:40:04 + unset VIRTUAL_ENV
14:40:04 + unset VIRTUAL_ENV_PROMPT
14:40:04 + '[' '!' '' = nondestructive ']'
14:40:04 + unset -f deactivate
14:40:04 Finished: SUCCESS
