15:09:41 Started by upstream project "Trigger" build number 24
15:09:41 originally caused by:
15:09:41 Started by user devspace
15:09:41 Running as SYSTEM
15:09:41 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
15:09:42 [OMERO-server] $ /bin/bash -xe /tmp/jenkins16872609482254265181.sh
15:09:42 + source /home/settings.env
15:09:42 ++ OMERO_DB_HOST=pg
15:09:42 ++ OMERO_DB_USER=postgres
15:09:42 ++ OMERO_DB_PASS=
15:09:42 ++ OMERO_ROOT_PASS=omero
15:09:42 ++ OMERO_DATA_DIR=/OMERO
15:09:42 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
15:09:42 + OMERO_DB_NAME=OMERO-server
15:09:42 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
15:09:42 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
15:09:42 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
15:09:42 + OMERO_DATA_DIR=/home/omero/omero-server-data
15:09:42 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
15:09:42 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
15:09:42 ++ deactivate nondestructive
15:09:42 ++ '[' -n '' ']'
15:09:42 ++ '[' -n '' ']'
15:09:42 ++ hash -r
15:09:42 ++ '[' -n '' ']'
15:09:42 ++ unset VIRTUAL_ENV
15:09:42 ++ unset VIRTUAL_ENV_PROMPT
15:09:42 ++ '[' '!' nondestructive = nondestructive ']'
15:09:42 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
15:09:42 ++ export VIRTUAL_ENV
15:09:42 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
15:09:42 ++ 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
15:09:42 ++ export PATH
15:09:42 ++ '[' -n '' ']'
15:09:42 ++ '[' -z '' ']'
15:09:42 ++ _OLD_VIRTUAL_PS1=
15:09:42 ++ PS1='(.venv3) '
15:09:42 ++ export PS1
15:09:42 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
15:09:42 ++ export VIRTUAL_ENV_PROMPT
15:09:42 ++ hash -r
15:09:42 + omero admin stop
15:09:53 Server not running
15:09:53 + echo not running
15:09:53 not running
15:09:53 + sleep 5
15:09:58 + deactivate
15:09:58 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
15:09:58 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
15:09:58 + export PATH
15:09:58 + unset _OLD_VIRTUAL_PATH
15:09:58 + '[' -n '' ']'
15:09:58 + hash -r
15:09:58 + '[' -n '' ']'
15:09:58 + unset VIRTUAL_ENV
15:09:58 + unset VIRTUAL_ENV_PROMPT
15:09:58 + '[' '!' '' = nondestructive ']'
15:09:58 + unset -f deactivate
15:09:58 + rm -rf /home/omero/workspace/OMERO-server/.venv3
15:09:59 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
15:10:03 + '[' false = true ']'
15:10:03 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
15:10:03 Skipping PURGE_DATA:CleanDbAndRepo
15:10:03 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.4-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-5.22.0.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.9.2.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.30.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
15:10:05 Copied 1 artifact from "OMERO-build" build number 6
15:10:05 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 6
15:10:05 Copied 2 artifacts from "OMERO-build-build" build number 9
15:10:05 [OMERO-server] $ /bin/bash -xe /tmp/jenkins6958874845194184558.sh
15:10:05 + source /home/settings.env
15:10:05 ++ OMERO_DB_HOST=pg
15:10:05 ++ OMERO_DB_USER=postgres
15:10:05 ++ OMERO_DB_PASS=
15:10:05 ++ OMERO_ROOT_PASS=omero
15:10:05 ++ OMERO_DATA_DIR=/OMERO
15:10:05 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
15:10:05 + OMERO_DB_NAME=OMERO-server
15:10:05 + OMERO_DATA_DIR=/home/omero/omero-server-data
15:10:05 + mkdir -p /home/omero/omero-server-data
15:10:05 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
15:10:05 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
15:10:05 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
15:10:05 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
15:10:05 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
15:10:05 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
15:10:05 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
15:10:05 ++ ls OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6.zip
15:10:05 + ZIP=OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6.zip
15:10:05 + '[' '!' -z '' ']'
15:10:05 + DIST=OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6
15:10:05 + unzip OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6.zip
15:10:05 Archive: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6.zip
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/blitz/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/grid/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/profiles/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/error/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/grid/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/luts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/luts/janelia/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/luts/matplotlib/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/luts/ncsa_paledit/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/luts/seaborn/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/luts/wcif/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/analysis_scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/annotation_scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/export_scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/figure_scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/import_scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/scripts/omero/util_scripts/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/server/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/share/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/share/licenses/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/misc/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__1/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__10/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__11/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__2/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__3/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__4/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__5/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__6/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__7/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__8/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3A__9/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3__4/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3__5/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3__6/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO3__7/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.1__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.2__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.2__0/t/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.3__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.4__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.0__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.1__1/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.2__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4DEV__1/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4DEV__2/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4DEV__3/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/var/
15:10:05 creating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/var/tmp/
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/LICENSE.txt
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/backup.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/blitz/mail-senders.example
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/blitz/mail-server.example
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/build.properties
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/env.bat
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/env.sh
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/hibernate.properties
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/ice.config
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/logback-cli.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/logback-indexing-cli.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/logback-indexing.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/logback.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/mime.types
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/node1.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/node2.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/omero.properties
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/profiles/psql
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/rollover.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/Windows.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/error/maintainance.html
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/grid/README
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/grid/default.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/grid/templates.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/grid/windefault.xml
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/ice.config
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/internal.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/master.cfg
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/templates/robot.template
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/etc/testdropbox.config
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/history.rst
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/OMEZarrReader.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/accessors-smart.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/activation.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/aggdesigner-algorithm.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/aircompressor.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/antlr.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/aopalliance.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/apiguardian-api.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/asm.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/avatica-core.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/avatica-metrics.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/aws-java-sdk-core.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/aws-java-sdk-kms.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/aws-java-sdk-s3.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/base.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-anim.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-awt-util.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-bridge.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-codec.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-constants.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-css.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-dom.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-ext.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-gvt.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-i18n.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-parser.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-script.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-shared-resources.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-svg-dom.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-svggen.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-transcoder.jar
15:10:05 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/lib/client/batik-util.jar
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15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO4__0/OMERO3A__11.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/psql-footer.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/psql-header.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/schema.sql
15:10:08 inflating: OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6/sql/psql/OMERO5.4__0/views.sql
15:10:08 + rm -f OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6.zip
15:10:08 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-578-d52c0e2f83-ice36-b6 /home/omero/workspace/OMERO-server/OMERO.server
15:10:08 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
15:10:08 ++ deactivate nondestructive
15:10:08 ++ '[' -n '' ']'
15:10:08 ++ '[' -n '' ']'
15:10:08 ++ hash -r
15:10:08 ++ '[' -n '' ']'
15:10:08 ++ unset VIRTUAL_ENV
15:10:08 ++ unset VIRTUAL_ENV_PROMPT
15:10:08 ++ '[' '!' nondestructive = nondestructive ']'
15:10:08 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
15:10:08 ++ export VIRTUAL_ENV
15:10:08 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
15:10:08 ++ 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
15:10:08 ++ export PATH
15:10:08 ++ '[' -n '' ']'
15:10:08 ++ '[' -z '' ']'
15:10:08 ++ _OLD_VIRTUAL_PS1=
15:10:08 ++ PS1='(.venv3) '
15:10:08 ++ export PS1
15:10:08 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
15:10:08 ++ export VIRTUAL_ENV_PROMPT
15:10:08 ++ hash -r
15:10:08 + pip install -U pip
15:10:08 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
15:10:08 Collecting pip
15:10:08 Using cached pip-25.3-py3-none-any.whl (1.8 MB)
15:10:08 Installing collected packages: pip
15:10:08 Attempting uninstall: pip
15:10:08 Found existing installation: pip 22.3.1
15:10:08 Uninstalling pip-22.3.1:
15:10:08 Successfully uninstalled pip-22.3.1
15:10:09 Successfully installed pip-25.3
15:10:09 + 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
15:10:10 Collecting zeroc-ice==3.6.5
15:10:10 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)
15:10:12 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 20.0 MB/s 0:00:01
15:10:12 Installing collected packages: zeroc-ice
15:10:13 Successfully installed zeroc-ice-3.6.5
15:10:13 + pip install markdown
15:10:13 Collecting markdown
15:10:13 Using cached markdown-3.10-py3-none-any.whl.metadata (5.1 kB)
15:10:13 Using cached markdown-3.10-py3-none-any.whl (107 kB)
15:10:13 Installing collected packages: markdown
15:10:13 Successfully installed markdown-3.10
15:10:14 + pip install reportlab
15:10:14 Collecting reportlab
15:10:14 Using cached reportlab-4.4.7-py3-none-any.whl.metadata (1.7 kB)
15:10:15 Collecting pillow>=9.0.0 (from reportlab)
15:10:15 Downloading pillow-12.1.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.8 kB)
15:10:15 Collecting charset-normalizer (from reportlab)
15:10:15 Using cached charset_normalizer-3.4.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (37 kB)
15:10:15 Using cached reportlab-4.4.7-py3-none-any.whl (2.0 MB)
15:10:15 Downloading pillow-12.1.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.0 MB)
15:10:15 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 7.0/7.0 MB 20.2 MB/s 0:00:00
15:10:15 Using cached charset_normalizer-3.4.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (151 kB)
15:10:16 Installing collected packages: pillow, charset-normalizer, reportlab
15:10:16
15:10:16 Successfully installed charset-normalizer-3.4.4 pillow-12.1.0 reportlab-4.4.7
15:10:17 + pip install omego
15:10:17 Collecting omego
15:10:17 Using cached omego-0.7.0-py3-none-any.whl
15:10:17 Collecting future (from omego)
15:10:17 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
15:10:17 Collecting yaclifw>=0.1.1 (from omego)
15:10:17 Using cached yaclifw-0.2.0-py3-none-any.whl
15:10:17 Collecting six (from yaclifw>=0.1.1->omego)
15:10:17 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
15:10:17 Using cached future-1.0.0-py3-none-any.whl (491 kB)
15:10:17 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
15:10:17 Installing collected packages: six, future, yaclifw, omego
15:10:18
15:10:18 Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0
15:10:18 + pip install tables
15:10:18 Collecting tables
15:10:18 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB)
15:10:19 Collecting numpy>=1.20.0 (from tables)
15:10:19 Using cached numpy-2.4.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
15:10:19 Collecting numexpr>=2.6.2 (from tables)
15:10:19 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
15:10:19 Collecting packaging (from tables)
15:10:19 Using cached packaging-25.0-py3-none-any.whl.metadata (3.3 kB)
15:10:19 Collecting py-cpuinfo (from tables)
15:10:19 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
15:10:19 Collecting blosc2>=2.3.0 (from tables)
15:10:19 Using cached blosc2-3.12.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (7.1 kB)
15:10:19 Collecting typing-extensions>=4.4.0 (from tables)
15:10:19 Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
15:10:19 Collecting ndindex (from blosc2>=2.3.0->tables)
15:10:19 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
15:10:19 Collecting msgpack (from blosc2>=2.3.0->tables)
15:10:19 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)
15:10:19 Collecting platformdirs (from blosc2>=2.3.0->tables)
15:10:19 Using cached platformdirs-4.5.1-py3-none-any.whl.metadata (12 kB)
15:10:19 Collecting requests (from blosc2>=2.3.0->tables)
15:10:19 Using cached requests-2.32.5-py3-none-any.whl.metadata (4.9 kB)
15:10:20 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.4)
15:10:20 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
15:10:20 Using cached idna-3.11-py3-none-any.whl.metadata (8.4 kB)
15:10:20 Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables)
15:10:20 Using cached urllib3-2.6.2-py3-none-any.whl.metadata (6.6 kB)
15:10:20 Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables)
15:10:20 Using cached certifi-2025.11.12-py3-none-any.whl.metadata (2.5 kB)
15:10:20 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
15:10:20 Using cached blosc2-3.12.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (4.5 MB)
15:10:20 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
15:10:20 Using cached numpy-2.4.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.6 MB)
15:10:20 Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
15:10:20 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (426 kB)
15:10:20 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
15:10:20 Using cached packaging-25.0-py3-none-any.whl (66 kB)
15:10:20 Using cached platformdirs-4.5.1-py3-none-any.whl (18 kB)
15:10:20 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
15:10:20 Using cached requests-2.32.5-py3-none-any.whl (64 kB)
15:10:20 Using cached idna-3.11-py3-none-any.whl (71 kB)
15:10:20 Using cached urllib3-2.6.2-py3-none-any.whl (131 kB)
15:10:20 Using cached certifi-2025.11.12-py3-none-any.whl (159 kB)
15:10:20 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, certifi, requests, numexpr, blosc2, tables
15:10:23
15:10:23 Successfully installed blosc2-3.12.2 certifi-2025.11.12 idna-3.11 msgpack-1.1.2 ndindex-1.10.1 numexpr-2.14.1 numpy-2.4.0 packaging-25.0 platformdirs-4.5.1 py-cpuinfo-9.0.0 requests-2.32.5 tables-3.10.2 typing-extensions-4.15.0 urllib3-2.6.2
15:10:23 + pip install jinja2
15:10:24 Collecting jinja2
15:10:24 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
15:10:24 Collecting MarkupSafe>=2.0 (from jinja2)
15:10:24 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)
15:10:24 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
15:10:24 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
15:10:24 Installing collected packages: MarkupSafe, jinja2
15:10:24
15:10:24 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
15:10:24 + pip install omero-py
15:10:25 Collecting omero-py
15:10:25 Using cached omero_py-5.21.3-py3-none-any.whl.metadata (6.5 kB)
15:10:25 Collecting appdirs (from omero-py)
15:10:25 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
15:10:25 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
15:10:25 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.0)
15:10:25 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.1.0)
15:10:25 Collecting PyYAML (from omero-py)
15:10:25 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)
15:10:25 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
15:10:25 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.5)
15:10:25 Collecting portalocker (from omero-py)
15:10:25 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
15:10:25 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.4)
15:10:25 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.11)
15:10:25 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.6.2)
15:10:25 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2025.11.12)
15:10:25 Using cached omero_py-5.21.3-py3-none-any.whl (2.8 MB)
15:10:25 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
15:10:25 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
15:10:25 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
15:10:25 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
15:10:27
15:10:27 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.21.3 portalocker-3.2.0
15:10:27 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
15:10:27 Collecting omero-metadata
15:10:27 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-1an_5zm2/omero-metadata_70dce62865524d6c85d1fc5a616f65ee
15:10:27 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-1an_5zm2/omero-metadata_70dce62865524d6c85d1fc5a616f65ee
15:10:28 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 31ce3a4c5db930d3f77dc123a67952ba2b03da74
15:10:28 Installing build dependencies: started
15:10:29 Installing build dependencies: finished with status 'done'
15:10:29 Getting requirements to build wheel: started
15:10:29 Getting requirements to build wheel: finished with status 'done'
15:10:29 Preparing metadata (pyproject.toml): started
15:10:30 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:30 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.21.3)
15:10:30 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
15:10:30 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
15:10:30 Collecting pandas (from omero-metadata)
15:10:30 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
15:10:30 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
15:10:30 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
15:10:30 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.0)
15:10:30 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (12.1.0)
15:10:30 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)
15:10:30 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.5)
15:10:30 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
15:10:30 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
15:10:30 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
15:10:30 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
15:10:30 Collecting pytz>=2020.1 (from pandas->omero-metadata)
15:10:30 Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
15:10:30 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
15:10:30 Using cached tzdata-2025.3-py2.py3-none-any.whl.metadata (1.4 kB)
15:10:30 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)
15:10:30 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.4)
15:10:30 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.11)
15:10:30 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.6.2)
15:10:30 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.11.12)
15:10:30 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
15:10:30 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
15:10:30 Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
15:10:30 Using cached tzdata-2025.3-py2.py3-none-any.whl (348 kB)
15:10:30 Building wheels for collected packages: omero-metadata
15:10:30 Building wheel for omero-metadata (pyproject.toml): started
15:10:31 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
15:10:31 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39282 sha256=d2dbc3c1ea2f95db8b6385739d2c247c05ec7d53e4a3fb2adecb668f9e0ab04e
15:10:31 Stored in directory: /tmp/pip-ephem-wheel-cache-6u5ude14/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
15:10:31 Successfully built omero-metadata
15:10:31 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
15:10:35
15:10:35 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2025.2 tzdata-2025.3
15:10:35 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
15:10:36 Collecting omero-cli-render
15:10:36 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-bnoy6ayn/omero-cli-render_05dcb70517c94ac08b3994a995903fd1
15:10:36 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-bnoy6ayn/omero-cli-render_05dcb70517c94ac08b3994a995903fd1
15:10:36 Running command git checkout -b merge_ci --track origin/merge_ci
15:10:37 Switched to a new branch 'merge_ci'
15:10:37 branch 'merge_ci' set up to track 'origin/merge_ci'.
15:10:37 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit ab1209bcbdcf153f2205ec1b5f1296efa61a491e
15:10:37 Installing build dependencies: started
15:10:37 Installing build dependencies: finished with status 'done'
15:10:37 Getting requirements to build wheel: started
15:10:38 Getting requirements to build wheel: finished with status 'done'
15:10:38 Preparing metadata (pyproject.toml): started
15:10:38 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:38 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
15:10:38 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.21.3)
15:10:38 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
15:10:38 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
15:10:38 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.0)
15:10:38 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (12.1.0)
15:10:38 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
15:10:38 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.5)
15:10:38 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
15:10:38 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.4)
15:10:38 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.11)
15:10:38 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.6.2)
15:10:38 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.11.12)
15:10:38 Building wheels for collected packages: omero-cli-render
15:10:38 Building wheel for omero-cli-render (pyproject.toml): started
15:10:38 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
15:10:38 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19840 sha256=a1df65d473dbe9cba6380c218535f07e5d954d564e8cf1be4c99f9f5b324849f
15:10:38 Stored in directory: /tmp/pip-ephem-wheel-cache-6h__r75j/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
15:10:38 Successfully built omero-cli-render
15:10:38 Installing collected packages: omero-cli-render
15:10:38 Successfully installed omero-cli-render-0.8.2.dev0
15:10:38 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
15:10:39 Collecting omero-cli-duplicate
15:10:39 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-ugg0fpug/omero-cli-duplicate_be23130b2b42495197be03abcdfa1ef8
15:10:39 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-ugg0fpug/omero-cli-duplicate_be23130b2b42495197be03abcdfa1ef8
15:10:39 Running command git checkout -b merge_ci --track origin/merge_ci
15:10:40 Switched to a new branch 'merge_ci'
15:10:40 branch 'merge_ci' set up to track 'origin/merge_ci'.
15:10:40 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 490a17b94d93999e91f7d55f90e4394ec35bac07
15:10:40 Installing build dependencies: started
15:10:40 Installing build dependencies: finished with status 'done'
15:10:40 Getting requirements to build wheel: started
15:10:41 Getting requirements to build wheel: finished with status 'done'
15:10:41 Preparing metadata (pyproject.toml): started
15:10:41 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:41 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.21.3)
15:10:41 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
15:10:41 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
15:10:41 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.0)
15:10:41 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (12.1.0)
15:10:41 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
15:10:41 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)
15:10:41 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.5)
15:10:41 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
15:10:41 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.4)
15:10:41 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.11)
15:10:41 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.6.2)
15:10:41 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.11.12)
15:10:41 Building wheels for collected packages: omero-cli-duplicate
15:10:41 Building wheel for omero-cli-duplicate (pyproject.toml): started
15:10:41 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
15:10:41 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11541 sha256=a3209864f14a389f467a399b33c94f287528db42f3e24df2ae18a049add749a9
15:10:41 Stored in directory: /tmp/pip-ephem-wheel-cache-me0kby3e/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
15:10:41 Successfully built omero-cli-duplicate
15:10:41 Installing collected packages: omero-cli-duplicate
15:10:41 Successfully installed omero-cli-duplicate-0.4.1.dev0
15:10:41 + pip install omero-certificates
15:10:42 Collecting omero-certificates
15:10:42 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
15:10:42 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.21.3)
15:10:42 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
15:10:42 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
15:10:42 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.0)
15:10:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (12.1.0)
15:10:42 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
15:10:42 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)
15:10:42 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.5)
15:10:42 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
15:10:42 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.4)
15:10:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.11)
15:10:42 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.6.2)
15:10:42 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.11.12)
15:10:42 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
15:10:42 Installing collected packages: omero-certificates
15:10:42 Successfully installed omero-certificates-0.4.0
15:10:42 + for x in *.tar.gz
15:10:42 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
15:10:43 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
15:10:43 Installing build dependencies: started
15:10:43 Installing build dependencies: finished with status 'done'
15:10:43 Getting requirements to build wheel: started
15:10:44 Getting requirements to build wheel: finished with status 'done'
15:10:44 Preparing metadata (pyproject.toml): started
15:10:44 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:44 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.21.3)
15:10:44 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
15:10:44 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
15:10:44 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.0)
15:10:44 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (12.1.0)
15:10:44 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
15:10:44 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)
15:10:44 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.5)
15:10:44 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
15:10:44 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.4)
15:10:44 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.11)
15:10:44 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.6.2)
15:10:44 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.11.12)
15:10:44 Building wheels for collected packages: omero-dropbox
15:10:44 Building wheel for omero-dropbox (pyproject.toml): started
15:10:44 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
15:10:44 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=0981e41d50a2806f186d978e226d22ad62f300bb1f48d4465002ba9b96f9b8bb
15:10:44 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
15:10:44 Successfully built omero-dropbox
15:10:44 Installing collected packages: omero-dropbox
15:10:44 Successfully installed omero-dropbox-5.7.1.dev0
15:10:44 + for x in *.tar.gz
15:10:44 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
15:10:45 Processing ./omero_marshal-0.9.2.dev0.tar.gz
15:10:45 Installing build dependencies: started
15:10:45 Installing build dependencies: finished with status 'done'
15:10:45 Getting requirements to build wheel: started
15:10:46 Getting requirements to build wheel: finished with status 'done'
15:10:46 Preparing metadata (pyproject.toml): started
15:10:46 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:46 Building wheels for collected packages: omero_marshal
15:10:46 Building wheel for omero_marshal (pyproject.toml): started
15:10:46 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
15:10:46 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88122 sha256=688a0f0c398600632a5931252a6bd03bbeb410bcca72b20f41a83a2545a7676e
15:10:46 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
15:10:46 Successfully built omero_marshal
15:10:46 Installing collected packages: omero_marshal
15:10:46 Successfully installed omero_marshal-0.9.2.dev0
15:10:46 + for x in *.tar.gz
15:10:46 + pip install -U omero_py-5.22.0.dev0.tar.gz
15:10:47 Processing ./omero_py-5.22.0.dev0.tar.gz
15:10:47 Installing build dependencies: started
15:10:48 Installing build dependencies: finished with status 'done'
15:10:48 Getting requirements to build wheel: started
15:10:48 Getting requirements to build wheel: finished with status 'done'
15:10:48 Preparing metadata (pyproject.toml): started
15:10:48 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:48 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (1.4.4)
15:10:48 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (1.0.0)
15:10:48 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (2.4.0)
15:10:48 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (12.1.0)
15:10:48 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (6.0.3)
15:10:48 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (3.6.5)
15:10:48 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (2.32.5)
15:10:48 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (3.2.0)
15:10:48 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (3.4.4)
15:10:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (3.11)
15:10:48 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (2.6.2)
15:10:48 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (2025.11.12)
15:10:48 Building wheels for collected packages: omero-py
15:10:48 Building wheel for omero-py (pyproject.toml): started
15:10:49 Building wheel for omero-py (pyproject.toml): finished with status 'done'
15:10:49 Created wheel for omero-py: filename=omero_py-5.22.0.dev0-py3-none-any.whl size=2786250 sha256=f6576d9e331ae4ead8d4a6d2d81b75a3d9ac9d104766cc1b117d0f173a69ff79
15:10:49 Stored in directory: /home/omero/.cache/pip/wheels/b2/dd/fb/0f3c8a08eddbfe6a2bff7fe7d61ee876973c474d282bc441e3
15:10:49 Successfully built omero-py
15:10:49 Installing collected packages: omero-py
15:10:49 Attempting uninstall: omero-py
15:10:49 Found existing installation: omero-py 5.21.3
15:10:50 Uninstalling omero-py-5.21.3:
15:10:50 Successfully uninstalled omero-py-5.21.3
15:10:52 Successfully installed omero-py-5.22.0.dev0
15:10:52 + for x in *.tar.gz
15:10:52 + pip install -U omero_scripts-5.9.2.dev0.tar.gz
15:10:52 Processing ./omero_scripts-5.9.2.dev0.tar.gz
15:10:52 Installing build dependencies: started
15:10:53 Installing build dependencies: finished with status 'done'
15:10:53 Getting requirements to build wheel: started
15:10:53 Getting requirements to build wheel: finished with status 'done'
15:10:53 Preparing metadata (pyproject.toml): started
15:10:53 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:53 Building wheels for collected packages: omero-scripts
15:10:53 Building wheel for omero-scripts (pyproject.toml): started
15:10:54 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
15:10:54 Created wheel for omero-scripts: filename=omero_scripts-5.9.2.dev0-py3-none-any.whl size=136991 sha256=01e8808bed4fc43a3e63d08aeed731d2d3011ef42fe9f5ac6bffb4c8fc82569d
15:10:54 Stored in directory: /home/omero/.cache/pip/wheels/e3/db/94/c7ed73401c8459f3935212f514ee953d11b520ca8c20333850
15:10:54 Successfully built omero-scripts
15:10:54 Installing collected packages: omero-scripts
15:10:54 Successfully installed omero-scripts-5.9.2.dev0
15:10:54 + for x in *.tar.gz
15:10:54 + pip install -U omero_web-5.30.1.dev0.tar.gz
15:10:54 Processing ./omero_web-5.30.1.dev0.tar.gz
15:10:54 Installing build dependencies: started
15:10:55 Installing build dependencies: finished with status 'done'
15:10:55 Getting requirements to build wheel: started
15:10:56 Getting requirements to build wheel: finished with status 'done'
15:10:56 Preparing metadata (pyproject.toml): started
15:10:56 Preparing metadata (pyproject.toml): finished with status 'done'
15:10:56 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.1.dev0) (5.22.0.dev0)
15:10:56 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.30.1.dev0)
15:10:56 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl.metadata (23 kB)
15:10:56 Collecting Django<5.3,>=5.2.9 (from omero-web==5.30.1.dev0)
15:10:56 Using cached django-5.2.9-py3-none-any.whl.metadata (4.1 kB)
15:10:56 Collecting django-pipeline (from omero-web==5.30.1.dev0)
15:10:56 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
15:10:57 Collecting django-cors-headers==3.7.0 (from omero-web==5.30.1.dev0)
15:10:57 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
15:10:57 Collecting whitenoise>=5.3.0 (from omero-web==5.30.1.dev0)
15:10:57 Using cached whitenoise-6.11.0-py3-none-any.whl.metadata (3.7 kB)
15:10:57 Collecting gunicorn>=19.3 (from omero-web==5.30.1.dev0)
15:10:57 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
15:10:57 Requirement already satisfied: omero-marshal>=0.9.1 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.1.dev0) (0.9.2.dev0)
15:10:57 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.1.dev0) (12.1.0)
15:10:57 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.1.dev0) (2025.2)
15:10:57 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.1.dev0) (3.2.0)
15:10:57 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.1.dev0) (25.0)
15:10:57 Collecting importlib-resources (from omero-web==5.30.1.dev0)
15:10:57 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
15:10:57 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.30.1.dev0)
15:10:57 Using cached asgiref-3.11.0-py3-none-any.whl.metadata (9.3 kB)
15:10:57 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.30.1.dev0)
15:10:57 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
15:10:57 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.1.dev0) (1.4.4)
15:10:57 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.1.dev0) (1.0.0)
15:10:57 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.1.dev0) (2.4.0)
15:10:57 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.1.dev0) (6.0.3)
15:10:57 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==5.30.1.dev0) (3.6.5)
15:10:57 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.1.dev0) (2.32.5)
15:10:57 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.30.1.dev0) (65.5.1)
15:10:57 Collecting wheel (from django-pipeline->omero-web==5.30.1.dev0)
15:10:57 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
15:10:57 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.1.dev0) (3.4.4)
15:10:57 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.1.dev0) (3.11)
15:10:57 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.1.dev0) (2.6.2)
15:10:57 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.1.dev0) (2025.11.12)
15:10:57 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
15:10:57 Using cached django-5.2.9-py3-none-any.whl (8.3 MB)
15:10:57 Using cached asgiref-3.11.0-py3-none-any.whl (24 kB)
15:10:57 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl (28 kB)
15:10:57 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
15:10:57 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
15:10:57 Using cached whitenoise-6.11.0-py3-none-any.whl (20 kB)
15:10:57 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
15:10:57 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
15:10:57 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
15:10:57 Building wheels for collected packages: omero-web
15:10:57 Building wheel for omero-web (pyproject.toml): started
15:10:58 Building wheel for omero-web (pyproject.toml): finished with status 'done'
15:10:58 Created wheel for omero-web: filename=omero_web-5.30.1.dev0-py3-none-any.whl size=2819192 sha256=322b315b26ca5b531d1210240051a804ac800c22bbf5e1471d98bb0311f6f875
15:10:58 Stored in directory: /home/omero/.cache/pip/wheels/55/56/8c/76994afd7450bff12c009b26528517ee8944f8f2e1a40edc6c
15:10:58 Successfully built omero-web
15:10:58 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
15:11:01
15:11:01 Successfully installed Django-5.2.9 asgiref-3.11.0 concurrent-log-handler-0.9.28 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.30.1.dev0 sqlparse-0.5.5 wheel-0.45.1 whitenoise-6.11.0
15:11:01 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
15:11:02 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
15:11:02 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
15:11:02 --2026-01-03 15:11:02-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
15:11:02 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.108.133, 185.199.111.133, ...
15:11:02 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
15:11:02 HTTP request sent, awaiting response... 200 OK
15:11:02 Length: 126476 (124K) [text/plain]
15:11:02 Saving to: ‘Figure_To_Pdf.py’
15:11:02
15:11:02 0K .......... .......... .......... .......... .......... 40% 4.05M 0s
15:11:02 50K .......... .......... .......... .......... .......... 80% 11.6M 0s
15:11:02 100K .......... .......... ... 100% 4.70M=0.02s
15:11:02
15:11:02 2026-01-03 15:11:02 (5.71 MB/s) - ‘Figure_To_Pdf.py’ saved [126476/126476]
15:11:02
15:11:02 + chmod 755 Figure_To_Pdf.py
15:11:02 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
15:11:02 + omero config set omero.db.name OMERO-server
15:11:03 + omero config set omero.db.host pg
15:11:05 + omero config set omero.db.user postgres
15:11:06 + omero config set omero.data.dir /home/omero/omero-server-data
15:11:07 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
15:11:08 + omero config set omero.db.poolsize 25
15:11:09 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
15:11:10 + omero config set omero.security.trustStorePassword changeit
15:11:11 + omero config set omero.mail.config true
15:11:13 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
15:11:14 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
15:11:15 + omero certificates
15:11:16 OpenSSL 3.5.1 1 Jul 2025 (Library: OpenSSL 3.5.1 1 Jul 2025)
15:11:16 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
15:11:16 + '[' false = true ']'
15:11:16 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
15:11:16 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
15:11:16 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG dbcommand => upgrade
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG dbhost => localhost
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG dbname => OMERO-server
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG dbpass => omero
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG dbuser => omero
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG rootpass => omero
15:11:17 2026-01-03 15:11:17,032 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
15:11:17 2026-01-03 15:11:17,032 [omego.extern] INFO Executing : omero version
15:11:18 OMERO.py version:
15:11:18 OMERO.server version:
15:11:18 5.6.3-578-d52c0e2f83-ice36-b6
15:11:18 5.22.0.dev0
15:11:18 2026-01-03 15:11:18,222 [omego.extern] INFO Completed [1.190 s]
15:11:18 2026-01-03 15:11:18,222 [omego.extern] DEBUG Using omero CLI from omero
15:11:18 2026-01-03 15:11:18,222 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
15:11:18 2026-01-03 15:11:18,223 [omego.extern] INFO Running [current environment]: omero config get --show-password
15:11:18 2026-01-03 15:11:18,223 [omego.extern] INFO Executing : omero config get --show-password
15:11:19 2026-01-03 15:11:19,350 [omego.extern] INFO Completed [1.128 s]
15:11:19 2026-01-03 15:11:19,350 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
15:11:19 2026-01-03 15:11:19,351 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
15:11:19 2026-01-03 15:11:19,726 [omego.extern] INFO Completed [0.375 s]
15:11:19 2026-01-03 15:11:19,726 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.11\n'
15:11:19 2026-01-03 15:11:19,726 [ omego.db] INFO psql version: psql (PostgreSQL) 16.11
15:11:19
15:11:19 2026-01-03 15:11:19,726 [omego.extern] INFO Running [current environment]: omero config get --show-password
15:11:19 2026-01-03 15:11:19,726 [omego.extern] INFO Executing : omero config get --show-password
15:11:20 2026-01-03 15:11:20,859 [omego.extern] INFO Completed [1.133 s]
15:11:20 2026-01-03 15:11:20,859 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
15:11:20 2026-01-03 15:11:20,859 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
15:11:21 2026-01-03 15:11:21,019 [omego.extern] INFO Completed [0.160 s]
15:11:21 2026-01-03 15:11:21,019 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.2") at port "5432".\n'
15:11:21 2026-01-03 15:11:21,019 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
15:11:21 2026-01-03 15:11:21,020 [omego.extern] INFO Running [current environment]: omero config get --show-password
15:11:21 2026-01-03 15:11:21,020 [omego.extern] INFO Executing : omero config get --show-password
15:11:22 2026-01-03 15:11:22,152 [omego.extern] INFO Completed [1.133 s]
15:11:22 2026-01-03 15:11:22,153 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
15:11:22 2026-01-03 15:11:22,153 [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
15:11:22 2026-01-03 15:11:22,603 [omego.extern] INFO Completed [0.450 s]
15:11:22 2026-01-03 15:11:22,603 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
15:11:22 2026-01-03 15:11:22,603 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
15:11:22 2026-01-03 15:11:22,604 [ omego.db] INFO Database is already at OMERO5.4__0
15:11:22 + export LANG=en_US.UTF-8
15:11:22 + LANG=en_US.UTF-8
15:11:22 + export LANGUAGE=en_US:en
15:11:22 + LANGUAGE=en_US:en
15:11:22 + export LC_ALL=en_US.UTF-8
15:11:22 + LC_ALL=en_US.UTF-8
15:11:22 + BUILD_ID=DONT_KILL_ME
15:11:22 + omero admin start
15:11:28 No descriptor given. Using etc/grid/default.xml
15:11:41 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
15:11:41 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
15:11:41 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
15:11:41 Waiting on startup. Use CTRL-C to exit
15:11:41 + omero admin waitup
15:11:43 Waiting on startup. Use CTRL-C to exit
15:11:43 + omero admin diagnostics
15:11:44 WARNING:omero.util.UpgradeCheck:UPGRADE AVAILABLE:<html>
15:11:44 <head><title>503 Service Temporarily Unavailable</title></head>
15:11:44 <body>
15:11:44 <center><h1>503 Service Temporarily Unavailable</h1></center>
15:11:44 <hr><center>nginx/1.28.1</center>
15:11:44 </body>
15:11:44 </html>
15:11:44
15:11:44
15:11:44 ================================================================================
15:11:44 OMERO Diagnostics (admin)
15:11:44 ================================================================================
15:11:44
15:11:44
15:11:44 Commands: java -version 11.0.25 (/usr/bin/java)
15:11:44 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
15:11:44 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
15:11:44 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
15:11:44 Commands: psql --version 16.11 (/usr/bin/psql)
15:11:44 Commands: openssl version 3.5.11 (/usr/bin/openssl)
15:11:44
15:11:44 Component: OMERO.py 5.22.0.dev0
15:11:44 Component: OMERO.server 5.6.3-578-d52c0e2f83-ice36-b6
15:11:44
15:11:44 Server: icegridnode running
15:11:44 Server: Blitz-0 active (pid = 4562, enabled)
15:11:44 Server: Indexer-0 active (pid = 4586, enabled)
15:11:44 Server: OMERO.Glacier2 active (pid = 4617, enabled)
15:11:44 Server: OMERO.IceStorm active (pid = 4599, enabled)
15:11:44 Server: Processor-0 activating (enabled)
15:11:44 Server: Tables-0 activating (enabled)
15:11:44
15:11:44 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
15:11:44 Log files: Blitz-0.log 23.7 KB errors=0 warnings=1
15:11:44 Log files: DropBox.log n/a
15:11:44 Log files: FileServer.log n/a
15:11:44 Log files: Indexer-0.log 2.6 KB
15:11:44 Log files: MonitorServer.log n/a
15:11:44 Log files: Processor-0.log 592 B
15:11:44 Log files: Tables-0.log 841 B
15:11:44 Log files: TestDropBox.log n/a
15:11:44 Log files: master.err empty
15:11:44 Log files: master.out 30.5 KB
15:11:44 Log files: Total size 0.06 MB
15:11:44
15:11:44
15:11:44 Environment:OMERO_HOME=(unset)
15:11:44 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
15:11:44 Environment:OMERO_NODE=(unset)
15:11:44 Environment:OMERO_MASTER=(unset)
15:11:44 Environment:OMERO_USERDIR=(unset)
15:11:44 Environment:OMERO_TMPDIR=(unset)
15:11:44 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
15:11:44 Environment:PYTHONPATH=(unset)
15:11:44 Environment:ICE_HOME=/opt/ice-3.6.5
15:11:44 Environment:LD_LIBRARY_PATH=(unset)
15:11:44 Environment:DYLD_LIBRARY_PATH=(unset)
15:11:44
15:11:44 OMERO SSL port:4064
15:11:44 OMERO TCP port:4063
15:11:44 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
15:11:44 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
15:11:44
15:11:44 JVM settings: Blitz-${index} -Xmx7200m
15:11:44 JVM settings: Indexer-${index} -Xmx4800m
15:11:44 JVM settings: PixelData-${index} -Xmx7200m
15:11:44 JVM settings: Repository-${index} -Xmx4800m
15:11:44
15:11:44 Jar: lib/server/formats-api.jar Bio-Formats API 8.4.0-SNAPSHOT 3 January 2026 4d4288e77fd5a6b9de2ae83c93d339f7c84b6025
15:11:44 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.4.0-SNAPSHOT 3 January 2026 4d4288e77fd5a6b9de2ae83c93d339f7c84b6025
15:11:44 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.4.0-SNAPSHOT 3 January 2026 4d4288e77fd5a6b9de2ae83c93d339f7c84b6025
15:11:44 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3-SNAPSHOT 3 January 2026 3635906eee386997f59dbd8c298c43bb680b5247
15:11:44 Jar: lib/server/ome-common.jar OME Common Java 6.1.2-SNAPSHOT 3 January 2026 3635906eee386997f59dbd8c298c43bb680b5247
15:11:44 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 3 January 2026 3635906eee386997f59dbd8c298c43bb680b5247
15:11:44 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 3 January 2026 3635906eee386997f59dbd8c298c43bb680b5247
15:11:44 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 3 January 2026 3635906eee386997f59dbd8c298c43bb680b5247
15:11:44 Jar: lib/server/ome-xml.jar OME XML library 6.5.2-SNAPSHOT 3 January 2026 3635906eee386997f59dbd8c298c43bb680b5247
15:11:44 Jar: lib/server/omero-blitz.jar jar 5.8.4-SNAPSHOT
15:11:44 Jar: lib/server/omero-common.jar jar 5.7.4-SNAPSHOT
15:11:44 Jar: lib/server/omero-gateway.jar jar 5.10.5-SNAPSHOT
15:11:44 Jar: lib/server/omero-model.jar jar 5.7.4-SNAPSHOT
15:11:44 Jar: lib/server/omero-renderer.jar jar 5.6.4-SNAPSHOT
15:11:44 Jar: lib/server/omero-romio.jar jar 5.8.4-SNAPSHOT
15:11:44 Jar: lib/server/omero-server.jar jar 5.7.4-SNAPSHOT
15:11:44 + deactivate
15:11:44 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
15:11:44 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
15:11:44 + export PATH
15:11:44 + unset _OLD_VIRTUAL_PATH
15:11:44 + '[' -n '' ']'
15:11:44 + hash -r
15:11:44 + '[' -n '' ']'
15:11:44 + unset VIRTUAL_ENV
15:11:44 + unset VIRTUAL_ENV_PROMPT
15:11:44 + '[' '!' '' = nondestructive ']'
15:11:44 + unset -f deactivate
15:11:44 Finished: SUCCESS
