00:44:59 Started by upstream project "Trigger" build number 43
00:44:59 originally caused by:
00:44:59 Started by timer
00:44:59 Running as SYSTEM
00:44:59 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:44:59 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5044706115479001084.sh
00:44:59 + source /home/settings.env
00:44:59 ++ OMERO_DB_HOST=pg
00:44:59 ++ OMERO_DB_USER=postgres
00:44:59 ++ OMERO_DB_PASS=
00:44:59 ++ OMERO_ROOT_PASS=omero
00:44:59 ++ OMERO_DATA_DIR=/OMERO
00:44:59 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:44:59 + OMERO_DB_NAME=OMERO-server
00:44:59 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:44:59 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:44:59 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:44:59 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:44:59 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:44:59 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:44:59 ++ deactivate nondestructive
00:44:59 ++ '[' -n '' ']'
00:44:59 ++ '[' -n '' ']'
00:44:59 ++ hash -r
00:44:59 ++ '[' -n '' ']'
00:44:59 ++ unset VIRTUAL_ENV
00:44:59 ++ unset VIRTUAL_ENV_PROMPT
00:44:59 ++ '[' '!' nondestructive = nondestructive ']'
00:44:59 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:44:59 ++ export VIRTUAL_ENV
00:44:59 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:44:59 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:44:59 ++ export PATH
00:44:59 ++ '[' -n '' ']'
00:44:59 ++ '[' -z '' ']'
00:44:59 ++ _OLD_VIRTUAL_PS1=
00:44:59 ++ PS1='(.venv3) '
00:44:59 ++ export PS1
00:44:59 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:44:59 ++ export VIRTUAL_ENV_PROMPT
00:44:59 ++ hash -r
00:44:59 + omero admin stop
00:45:00 Waiting on shutdown. Use CTRL-C to exit
00:45:00 .+ sleep 5
00:45:16 + deactivate
00:45:16 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:45:16 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:16 + export PATH
00:45:16 + unset _OLD_VIRTUAL_PATH
00:45:16 + '[' -n '' ']'
00:45:16 + hash -r
00:45:16 + '[' -n '' ']'
00:45:16 + unset VIRTUAL_ENV
00:45:16 + unset VIRTUAL_ENV_PROMPT
00:45:16 + '[' '!' '' = nondestructive ']'
00:45:16 + unset -f deactivate
00:45:16 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:45:16 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
00:45:20 + '[' false = true ']'
00:45:20 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:45:20 Skipping PURGE_DATA:CleanDbAndRepo
00:45:20 + 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-5.30.2.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:45:21 Copied 1 artifact from "OMERO-build" build number 20
00:45:21 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 20
00:45:22 Copied 2 artifacts from "OMERO-build-build" build number 24
00:45:22 Copied 1 artifact from "OMERO-zarr-pixel-buffer-build" build number 17
00:45:22 [OMERO-server] $ /bin/bash -xe /tmp/jenkins1729593763517273504.sh
00:45:22 + source /home/settings.env
00:45:22 ++ OMERO_DB_HOST=pg
00:45:22 ++ OMERO_DB_USER=postgres
00:45:22 ++ OMERO_DB_PASS=
00:45:22 ++ OMERO_ROOT_PASS=omero
00:45:22 ++ OMERO_DATA_DIR=/OMERO
00:45:22 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:45:22 + OMERO_DB_NAME=OMERO-server
00:45:22 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:45:22 + mkdir -p /home/omero/omero-server-data
00:45:22 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:45:22 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:22 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:22 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:45:22 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:45:22 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:45:22 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:45:22 ++ ls OMERO.server-5.6.3-583-128585fa6a-ice36-b20.zip
00:45:22 + ZIP=OMERO.server-5.6.3-583-128585fa6a-ice36-b20.zip
00:45:22 + '[' '!' -z '' ']'
00:45:22 + DIST=OMERO.server-5.6.3-583-128585fa6a-ice36-b20
00:45:22 + unzip OMERO.server-5.6.3-583-128585fa6a-ice36-b20.zip
00:45:22 Archive: OMERO.server-5.6.3-583-128585fa6a-ice36-b20.zip
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/blitz/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/grid/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/profiles/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/error/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/grid/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/luts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/luts/janelia/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/luts/matplotlib/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/luts/ncsa_paledit/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/luts/seaborn/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/luts/wcif/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/analysis_scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/annotation_scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/export_scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/figure_scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/import_scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/scripts/omero/util_scripts/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/server/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/share/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/share/licenses/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/misc/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__1/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__10/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__11/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__2/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__3/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__4/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__5/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__6/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__7/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__8/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3A__9/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3__4/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3__5/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3__6/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO3__7/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO4.1__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO4.2__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO4.2__0/t/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO4.3__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO4.4__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO4__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.0__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.1__1/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.2__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4DEV__1/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4DEV__2/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4DEV__3/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/var/
00:45:22 creating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/var/tmp/
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/LICENSE.txt
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/backup.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/blitz/mail-senders.example
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/blitz/mail-server.example
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/build.properties
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/env.bat
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/env.sh
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/hibernate.properties
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/ice.config
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/logback-cli.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/logback-indexing-cli.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/logback-indexing.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/logback.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/mime.types
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/node1.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/node2.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/omero.properties
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/profiles/psql
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/rollover.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/Windows.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/error/maintainance.html
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/grid/README
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/grid/default.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/grid/templates.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/grid/windefault.xml
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/ice.config
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/internal.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/master.cfg
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/templates/robot.template
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/etc/testdropbox.config
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/history.rst
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/OMEZarrReader.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/accessors-smart.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/activation.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/aggdesigner-algorithm.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/aircompressor.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/antlr.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/aopalliance.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/apiguardian-api.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/asm.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/avatica-core.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/avatica-metrics.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/aws-java-sdk-core.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/aws-java-sdk-kms.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/aws-java-sdk-s3.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/base.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-anim.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-awt-util.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-bridge.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-codec.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-constants.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-css.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-dom.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-ext.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-gvt.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-i18n.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-parser.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-script.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-shared-resources.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-svg-dom.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-svggen.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-transcoder.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-util.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/batik-xml.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/btm.jar
00:45:22 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/lib/client/calcite-core.jar
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00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/psql-footer.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/psql-header.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/schema.sql
00:45:24 inflating: OMERO.server-5.6.3-583-128585fa6a-ice36-b20/sql/psql/OMERO5.4__0/views.sql
00:45:24 + rm -f OMERO.server-5.6.3-583-128585fa6a-ice36-b20.zip
00:45:24 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-583-128585fa6a-ice36-b20 /home/omero/workspace/OMERO-server/OMERO.server
00:45:24 + wget -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo.maven.apache.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar
00:45:24 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:45:24 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:45:24 --2026-01-16 00:45:24-- https://repo.maven.apache.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar
00:45:24 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.18.12, 104.18.19.12, 2606:4700::6812:120c, ...
00:45:24 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.18.12|:443... connected.
00:45:24 HTTP request sent, awaiting response... 200 OK
00:45:24 Length: 889211 (868K) [application/java-archive]
00:45:24 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’
00:45:24
00:45:24 0K .......... .......... .......... .......... .......... 5% 3.42M 0s
00:45:24 50K .......... .......... .......... .......... .......... 11% 7.14M 0s
00:45:24 100K .......... .......... .......... .......... .......... 17% 4.61M 0s
00:45:24 150K .......... .......... .......... .......... .......... 23% 10.5M 0s
00:45:24 200K .......... .......... .......... .......... .......... 28% 13.0M 0s
00:45:24 250K .......... .......... .......... .......... .......... 34% 10.7M 0s
00:45:24 300K .......... .......... .......... .......... .......... 40% 17.1M 0s
00:45:24 350K .......... .......... .......... .......... .......... 46% 16.7M 0s
00:45:24 400K .......... .......... .......... .......... .......... 51% 18.8M 0s
00:45:24 450K .......... .......... .......... .......... .......... 57% 24.0M 0s
00:45:24 500K .......... .......... .......... .......... .......... 63% 13.2M 0s
00:45:24 550K .......... .......... .......... .......... .......... 69% 23.7M 0s
00:45:24 600K .......... .......... .......... .......... .......... 74% 13.5M 0s
00:45:24 650K .......... .......... .......... .......... .......... 80% 13.5M 0s
00:45:24 700K .......... .......... .......... .......... .......... 86% 45.2M 0s
00:45:24 750K .......... .......... .......... .......... .......... 92% 9.14M 0s
00:45:24 800K .......... .......... .......... .......... .......... 97% 116M 0s
00:45:24 850K .......... ........ 100% 11.7M=0.08s
00:45:24
00:45:24 2026-01-16 00:45:24 (11.1 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’ saved [889211/889211]
00:45:24
00:45:24 + wget -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo.maven.apache.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar
00:45:24 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:45:24 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:45:24 --2026-01-16 00:45:24-- https://repo.maven.apache.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar
00:45:24 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.19.12, 104.18.18.12, 2606:4700::6812:120c, ...
00:45:24 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.19.12|:443... connected.
00:45:24 HTTP request sent, awaiting response... 200 OK
00:45:24 Length: 73309 (72K) [application/java-archive]
00:45:24 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’
00:45:24
00:45:24 0K .......... .......... .......... .......... .......... 69% 35.1M 0s
00:45:24 50K .......... .......... . 100% 1.67M=0.01s
00:45:24
00:45:24 2026-01-16 00:45:24 (5.00 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’ saved [73309/73309]
00:45:24
00:45:24 + wget -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo.maven.apache.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar
00:45:24 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:45:24 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:45:24 --2026-01-16 00:45:24-- https://repo.maven.apache.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar
00:45:25 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.18.12, 104.18.19.12, 2606:4700::6812:130c, ...
00:45:25 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.18.12|:443... connected.
00:45:25 HTTP request sent, awaiting response... 200 OK
00:45:25 Length: 63303 (62K) [application/java-archive]
00:45:25 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’
00:45:25
00:45:25 0K .......... .......... .......... .......... .......... 80% 3.48M 0s
00:45:25 50K .......... . 100% 10.8M=0.02s
00:45:25
00:45:25 2026-01-16 00:45:25 (3.99 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’ saved [63303/63303]
00:45:25
00:45:25 + wget -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo.maven.apache.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar
00:45:25 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:45:25 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:45:25 --2026-01-16 00:45:25-- https://repo.maven.apache.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar
00:45:25 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.19.12, 104.18.18.12, 2606:4700::6812:130c, ...
00:45:25 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.19.12|:443... connected.
00:45:25 HTTP request sent, awaiting response... 200 OK
00:45:25 Length: 1271272 (1.2M) [application/java-archive]
00:45:25 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’
00:45:25
00:45:25 0K .......... .......... .......... .......... .......... 4% 3.53M 0s
00:45:25 50K .......... .......... .......... .......... .......... 8% 7.33M 0s
00:45:25 100K .......... .......... .......... .......... .......... 12% 5.13M 0s
00:45:25 150K .......... .......... .......... .......... .......... 16% 9.34M 0s
00:45:25 200K .......... .......... .......... .......... .......... 20% 13.5M 0s
00:45:25 250K .......... .......... .......... .......... .......... 24% 9.71M 0s
00:45:25 300K .......... .......... .......... .......... .......... 28% 19.0M 0s
00:45:25 350K .......... .......... .......... .......... .......... 32% 17.1M 0s
00:45:25 400K .......... .......... .......... .......... .......... 36% 34.8M 0s
00:45:25 450K .......... .......... .......... .......... .......... 40% 22.3M 0s
00:45:25 500K .......... .......... .......... .......... .......... 44% 11.7M 0s
00:45:25 550K .......... .......... .......... .......... .......... 48% 13.4M 0s
00:45:25 600K .......... .......... .......... .......... .......... 52% 17.8M 0s
00:45:25 650K .......... .......... .......... .......... .......... 56% 13.0M 0s
00:45:25 700K .......... .......... .......... .......... .......... 60% 127M 0s
00:45:25 750K .......... .......... .......... .......... .......... 64% 12.0M 0s
00:45:25 800K .......... .......... .......... .......... .......... 68% 17.8M 0s
00:45:25 850K .......... .......... .......... .......... .......... 72% 18.1M 0s
00:45:25 900K .......... .......... .......... .......... .......... 76% 20.3M 0s
00:45:25 950K .......... .......... .......... .......... .......... 80% 20.2M 0s
00:45:25 1000K .......... .......... .......... .......... .......... 84% 11.4M 0s
00:45:25 1050K .......... .......... .......... .......... .......... 88% 25.6M 0s
00:45:25 1100K .......... .......... .......... .......... .......... 92% 18.5M 0s
00:45:25 1150K .......... .......... .......... .......... .......... 96% 19.8M 0s
00:45:25 1200K .......... .......... .......... .......... . 100% 17.9M=0.1s
00:45:25
00:45:25 2026-01-16 00:45:25 (12.7 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’ saved [1271272/1271272]
00:45:25
00:45:25 + wget -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-core/1.12.659/aws-java-sdk-core-1.12.659.jar
00:45:25 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:45:25 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:45:25 --2026-01-16 00:45:25-- https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-core/1.12.659/aws-java-sdk-core-1.12.659.jar
00:45:25 Resolving repo1.maven.org (repo1.maven.org)... 104.18.19.12, 104.18.18.12, 2606:4700::6812:130c, ...
00:45:25 Connecting to repo1.maven.org (repo1.maven.org)|104.18.19.12|:443... connected.
00:45:25 HTTP request sent, awaiting response... 200 OK
00:45:25 Length: 1036468 (1012K) [application/java-archive]
00:45:25 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-core-1.12.659.jar’
00:45:25
00:45:25 0K .......... .......... .......... .......... .......... 4% 3.48M 0s
00:45:26 50K .......... .......... .......... .......... .......... 9% 8.49M 0s
00:45:26 100K .......... .......... .......... .......... .......... 14% 4.60M 0s
00:45:26 150K .......... .......... .......... .......... .......... 19% 9.21M 0s
00:45:26 200K .......... .......... .......... .......... .......... 24% 13.3M 0s
00:45:26 250K .......... .......... .......... .......... .......... 29% 10.6M 0s
00:45:26 300K .......... .......... .......... .......... .......... 34% 17.8M 0s
00:45:26 350K .......... .......... .......... .......... .......... 39% 16.9M 0s
00:45:26 400K .......... .......... .......... .......... .......... 44% 23.5M 0s
00:45:26 450K .......... .......... .......... .......... .......... 49% 14.7M 0s
00:45:26 500K .......... .......... .......... .......... .......... 54% 13.5M 0s
00:45:26 550K .......... .......... .......... .......... .......... 59% 26.9M 0s
00:45:26 600K .......... .......... .......... .......... .......... 64% 12.6M 0s
00:45:26 650K .......... .......... .......... .......... .......... 69% 24.3M 0s
00:45:26 700K .......... .......... .......... .......... .......... 74% 19.7M 0s
00:45:26 750K .......... .......... .......... .......... .......... 79% 14.5M 0s
00:45:26 800K .......... .......... .......... .......... .......... 83% 20.8M 0s
00:45:26 850K .......... .......... .......... .......... .......... 88% 14.2M 0s
00:45:26 900K .......... .......... .......... .......... .......... 93% 16.5M 0s
00:45:26 950K .......... .......... .......... .......... .......... 98% 126M 0s
00:45:26 1000K .......... .. 100% 248M=0.08s
00:45:26
00:45:26 2026-01-16 00:45:26 (12.1 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-core-1.12.659.jar’ saved [1036468/1036468]
00:45:26
00:45:26 + for x in *.jar
00:45:26 + mv omero-zarr-pixel-buffer-0.6.2-SNAPSHOT.jar /home/omero/workspace/OMERO-server/OMERO.server/lib/server
00:45:26 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:45:26 ++ deactivate nondestructive
00:45:26 ++ '[' -n '' ']'
00:45:26 ++ '[' -n '' ']'
00:45:26 ++ hash -r
00:45:26 ++ '[' -n '' ']'
00:45:26 ++ unset VIRTUAL_ENV
00:45:26 ++ unset VIRTUAL_ENV_PROMPT
00:45:26 ++ '[' '!' nondestructive = nondestructive ']'
00:45:26 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:45:26 ++ export VIRTUAL_ENV
00:45:26 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:26 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:26 ++ export PATH
00:45:26 ++ '[' -n '' ']'
00:45:26 ++ '[' -z '' ']'
00:45:26 ++ _OLD_VIRTUAL_PS1=
00:45:26 ++ PS1='(.venv3) '
00:45:26 ++ export PS1
00:45:26 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:45:26 ++ export VIRTUAL_ENV_PROMPT
00:45:26 ++ hash -r
00:45:26 + pip install -U pip
00:45:26 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
00:45:26 Collecting pip
00:45:26 Using cached pip-25.3-py3-none-any.whl (1.8 MB)
00:45:26 Installing collected packages: pip
00:45:26 Attempting uninstall: pip
00:45:26 Found existing installation: pip 22.3.1
00:45:26 Uninstalling pip-22.3.1:
00:45:26 Successfully uninstalled pip-22.3.1
00:45:27 Successfully installed pip-25.3
00:45:27 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
00:45:27 Collecting zeroc-ice==3.6.5
00:45:28 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)
00:45:32 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 9.3 MB/s 0:00:03
00:45:32 Installing collected packages: zeroc-ice
00:45:33 Successfully installed zeroc-ice-3.6.5
00:45:33 + pip install markdown
00:45:33 Collecting markdown
00:45:33 Using cached markdown-3.10-py3-none-any.whl.metadata (5.1 kB)
00:45:33 Using cached markdown-3.10-py3-none-any.whl (107 kB)
00:45:33 Installing collected packages: markdown
00:45:33 Successfully installed markdown-3.10
00:45:33 + pip install reportlab
00:45:34 Collecting reportlab
00:45:34 Downloading reportlab-4.4.9-py3-none-any.whl.metadata (1.7 kB)
00:45:34 Collecting pillow>=9.0.0 (from reportlab)
00:45:34 Using cached pillow-12.1.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.8 kB)
00:45:34 Collecting charset-normalizer (from reportlab)
00:45:34 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)
00:45:34 Downloading reportlab-4.4.9-py3-none-any.whl (2.0 MB)
00:45:34 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.0/2.0 MB 8.0 MB/s 0:00:00
00:45:34 Using cached pillow-12.1.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.0 MB)
00:45:34 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)
00:45:35 Installing collected packages: pillow, charset-normalizer, reportlab
00:45:35
00:45:35 Successfully installed charset-normalizer-3.4.4 pillow-12.1.0 reportlab-4.4.9
00:45:36 + pip install omego
00:45:36 Collecting omego
00:45:36 Using cached omego-0.7.0-py3-none-any.whl
00:45:36 Collecting future (from omego)
00:45:36 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
00:45:36 Collecting yaclifw>=0.1.1 (from omego)
00:45:36 Using cached yaclifw-0.2.0-py3-none-any.whl
00:45:36 Collecting six (from yaclifw>=0.1.1->omego)
00:45:36 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:45:36 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:45:36 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:45:36 Installing collected packages: six, future, yaclifw, omego
00:45:38
00:45:38 Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:45:38 + pip install tables
00:45:39 Collecting tables
00:45:39 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB)
00:45:39 Collecting numpy>=1.20.0 (from tables)
00:45:39 Using cached numpy-2.4.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
00:45:39 Collecting numexpr>=2.6.2 (from tables)
00:45:39 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
00:45:39 Collecting packaging (from tables)
00:45:39 Using cached packaging-25.0-py3-none-any.whl.metadata (3.3 kB)
00:45:39 Collecting py-cpuinfo (from tables)
00:45:39 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:45:39 Collecting blosc2>=2.3.0 (from tables)
00:45:39 Using cached blosc2-3.12.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (7.1 kB)
00:45:39 Collecting typing-extensions>=4.4.0 (from tables)
00:45:39 Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
00:45:39 Collecting ndindex (from blosc2>=2.3.0->tables)
00:45:39 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
00:45:39 Collecting msgpack (from blosc2>=2.3.0->tables)
00:45:39 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:45:39 Collecting platformdirs (from blosc2>=2.3.0->tables)
00:45:39 Using cached platformdirs-4.5.1-py3-none-any.whl.metadata (12 kB)
00:45:39 Collecting requests (from blosc2>=2.3.0->tables)
00:45:39 Using cached requests-2.32.5-py3-none-any.whl.metadata (4.9 kB)
00:45:39 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.4)
00:45:39 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
00:45:39 Using cached idna-3.11-py3-none-any.whl.metadata (8.4 kB)
00:45:39 Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables)
00:45:39 Using cached urllib3-2.6.3-py3-none-any.whl.metadata (6.9 kB)
00:45:39 Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables)
00:45:39 Using cached certifi-2026.1.4-py3-none-any.whl.metadata (2.5 kB)
00:45:39 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:45:39 Using cached blosc2-3.12.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (4.5 MB)
00:45:39 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
00:45:39 Using cached numpy-2.4.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.7 MB)
00:45:39 Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
00:45:39 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (426 kB)
00:45:39 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
00:45:39 Using cached packaging-25.0-py3-none-any.whl (66 kB)
00:45:39 Using cached platformdirs-4.5.1-py3-none-any.whl (18 kB)
00:45:39 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:45:39 Using cached requests-2.32.5-py3-none-any.whl (64 kB)
00:45:39 Using cached idna-3.11-py3-none-any.whl (71 kB)
00:45:39 Using cached urllib3-2.6.3-py3-none-any.whl (131 kB)
00:45:39 Using cached certifi-2026.1.4-py3-none-any.whl (152 kB)
00:45:40 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, certifi, requests, numexpr, blosc2, tables
00:45:43
00:45:43 Successfully installed blosc2-3.12.2 certifi-2026.1.4 idna-3.11 msgpack-1.1.2 ndindex-1.10.1 numexpr-2.14.1 numpy-2.4.1 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 urllib3-2.6.3
00:45:43 + pip install jinja2
00:45:43 Collecting jinja2
00:45:43 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
00:45:43 Collecting MarkupSafe>=2.0 (from jinja2)
00:45:43 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.7 kB)
00:45:43 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
00:45:43 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
00:45:43 Installing collected packages: MarkupSafe, jinja2
00:45:43
00:45:43 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
00:45:44 + pip install omero-py
00:45:44 Collecting omero-py
00:45:44 Using cached omero_py-5.21.3-py3-none-any.whl.metadata (6.5 kB)
00:45:44 Collecting appdirs (from omero-py)
00:45:44 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:45:44 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
00:45:44 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.1)
00:45:44 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.1.0)
00:45:44 Collecting PyYAML (from omero-py)
00:45:44 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.4 kB)
00:45:44 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
00:45:44 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.5)
00:45:44 Collecting portalocker (from omero-py)
00:45:44 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
00:45:44 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.4)
00:45:44 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.11)
00:45:44 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.6.3)
00:45:44 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.1.4)
00:45:44 Using cached omero_py-5.21.3-py3-none-any.whl (2.8 MB)
00:45:44 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:45:44 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
00:45:44 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
00:45:44 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
00:45:46
00:45:46 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.21.3 portalocker-3.2.0
00:45:46 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:45:46 Collecting omero-metadata
00:45:46 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-6_e54sfg/omero-metadata_1229160326f042bdb5db25c68fcfa1d4
00:45:46 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-6_e54sfg/omero-metadata_1229160326f042bdb5db25c68fcfa1d4
00:45:47 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 65bf3c1eece464420932f5f352c2fae0d9d285d1
00:45:47 Installing build dependencies: started
00:45:48 Installing build dependencies: finished with status 'done'
00:45:48 Getting requirements to build wheel: started
00:45:48 Getting requirements to build wheel: finished with status 'done'
00:45:48 Preparing metadata (pyproject.toml): started
00:45:48 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:48 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.21.3)
00:45:48 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
00:45:48 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
00:45:48 Collecting pandas (from omero-metadata)
00:45:48 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
00:45:49 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:45:49 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:45:49 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.1)
00:45:49 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)
00:45:49 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:45:49 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.5)
00:45:49 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
00:45:49 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
00:45:49 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:45:49 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:45:49 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:45:49 Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
00:45:49 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:45:49 Using cached tzdata-2025.3-py2.py3-none-any.whl.metadata (1.4 kB)
00:45:49 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:45:49 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)
00:45:49 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)
00:45:49 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.6.3)
00:45:49 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.1.4)
00:45:49 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
00:45:49 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:45:49 Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
00:45:49 Using cached tzdata-2025.3-py2.py3-none-any.whl (348 kB)
00:45:49 Building wheels for collected packages: omero-metadata
00:45:49 Building wheel for omero-metadata (pyproject.toml): started
00:45:49 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:45:49 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39375 sha256=7867d1cac3081b74de0b671da3fe721b67759fee0e46a09fce71907d575f122a
00:45:49 Stored in directory: /tmp/pip-ephem-wheel-cache-h2jyt6tc/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
00:45:49 Successfully built omero-metadata
00:45:49 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:45:54
00:45:54 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2025.2 tzdata-2025.3
00:45:54 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:45:54 Collecting omero-cli-render
00:45:54 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-g2zkd397/omero-cli-render_1f0cedf0506d4c1bba0e2a65d8c77f96
00:45:54 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-g2zkd397/omero-cli-render_1f0cedf0506d4c1bba0e2a65d8c77f96
00:45:55 Running command git checkout -b merge_ci --track origin/merge_ci
00:45:55 Switched to a new branch 'merge_ci'
00:45:55 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:45:55 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit f95a42929b256510fddb437c18538154f75dd511
00:45:55 Installing build dependencies: started
00:45:56 Installing build dependencies: finished with status 'done'
00:45:56 Getting requirements to build wheel: started
00:45:56 Getting requirements to build wheel: finished with status 'done'
00:45:56 Preparing metadata (pyproject.toml): started
00:45:56 Preparing metadata (pyproject.toml): finished with status 'done'
00:45:56 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
00:45:56 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.21.3)
00:45:56 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:45:56 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:45:56 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.1)
00:45:56 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)
00:45:56 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:45:56 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.5)
00:45:56 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
00:45:56 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)
00:45:56 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)
00:45:56 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) (2.6.3)
00:45:56 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.1.4)
00:45:56 Building wheels for collected packages: omero-cli-render
00:45:56 Building wheel for omero-cli-render (pyproject.toml): started
00:45:57 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:45:57 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19840 sha256=f21e41f984d64a5af16d4089af427e8416784fd41ec4e2ac6951fc636f4ddae8
00:45:57 Stored in directory: /tmp/pip-ephem-wheel-cache-tpd_cjch/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
00:45:57 Successfully built omero-cli-render
00:45:57 Installing collected packages: omero-cli-render
00:45:58 Successfully installed omero-cli-render-0.8.2.dev0
00:45:58 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:45:58 Collecting omero-cli-duplicate
00:45:58 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-r8lk0kq2/omero-cli-duplicate_84955f2ab3a84935b6292e73a4bfe92b
00:45:58 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-r8lk0kq2/omero-cli-duplicate_84955f2ab3a84935b6292e73a4bfe92b
00:45:59 Running command git checkout -b merge_ci --track origin/merge_ci
00:45:59 Switched to a new branch 'merge_ci'
00:45:59 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:45:59 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit b655b6d665caf15755522d01ef117500d9a31f20
00:45:59 Installing build dependencies: started
00:46:00 Installing build dependencies: finished with status 'done'
00:46:00 Getting requirements to build wheel: started
00:46:00 Getting requirements to build wheel: finished with status 'done'
00:46:00 Preparing metadata (pyproject.toml): started
00:46:00 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:00 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.21.3)
00:46:00 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:46:00 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:46:00 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.1)
00:46:00 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)
00:46:00 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
00:46:00 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:46:00 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.5)
00:46:00 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
00:46:00 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)
00:46:00 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)
00:46:00 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.6.3)
00:46:00 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.1.4)
00:46:00 Building wheels for collected packages: omero-cli-duplicate
00:46:00 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:46:01 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:46:01 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11541 sha256=877fc359476d1d004ec9347081b28b7ef5afd767bbd69f76d1aacf77e6d2b44e
00:46:01 Stored in directory: /tmp/pip-ephem-wheel-cache-0gbv85yh/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
00:46:01 Successfully built omero-cli-duplicate
00:46:01 Installing collected packages: omero-cli-duplicate
00:46:01 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:46:01 + pip install omero-certificates
00:46:01 Collecting omero-certificates
00:46:01 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
00:46:01 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.21.3)
00:46:01 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:46:01 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:46:01 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.1)
00:46:01 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)
00:46:01 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
00:46:01 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:46:01 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.5)
00:46:01 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
00:46:01 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)
00:46:01 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)
00:46:01 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.6.3)
00:46:01 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.1.4)
00:46:01 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
00:46:01 Installing collected packages: omero-certificates
00:46:01 Successfully installed omero-certificates-0.4.0
00:46:01 + for x in *.tar.gz
00:46:01 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:46:02 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:46:02 Installing build dependencies: started
00:46:02 Installing build dependencies: finished with status 'done'
00:46:02 Getting requirements to build wheel: started
00:46:03 Getting requirements to build wheel: finished with status 'done'
00:46:03 Preparing metadata (pyproject.toml): started
00:46:03 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:03 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.21.3)
00:46:03 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:46:03 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:46:03 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.1)
00:46:03 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)
00:46:03 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
00:46:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
00:46:03 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.5)
00:46:03 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
00:46:03 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)
00:46:03 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)
00:46:03 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) (2.6.3)
00:46:03 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.1.4)
00:46:03 Building wheels for collected packages: omero-dropbox
00:46:03 Building wheel for omero-dropbox (pyproject.toml): started
00:46:03 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:46:03 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=ef632888c95554227206ccd0dbc6f6e9f3d8368a44834277d854f3feb9533350
00:46:03 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
00:46:03 Successfully built omero-dropbox
00:46:03 Installing collected packages: omero-dropbox
00:46:03 Successfully installed omero-dropbox-5.7.1.dev0
00:46:03 + for x in *.tar.gz
00:46:03 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
00:46:04 Processing ./omero_marshal-0.9.2.dev0.tar.gz
00:46:04 Installing build dependencies: started
00:46:04 Installing build dependencies: finished with status 'done'
00:46:04 Getting requirements to build wheel: started
00:46:05 Getting requirements to build wheel: finished with status 'done'
00:46:05 Preparing metadata (pyproject.toml): started
00:46:05 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:05 Building wheels for collected packages: omero_marshal
00:46:05 Building wheel for omero_marshal (pyproject.toml): started
00:46:05 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:46:05 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88132 sha256=8842bdf9a90f3fe1e99c299e8296178a4d97df664baf6272bd92ef24caaae07e
00:46:05 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
00:46:05 Successfully built omero_marshal
00:46:05 Installing collected packages: omero_marshal
00:46:05 Successfully installed omero_marshal-0.9.2.dev0
00:46:05 + for x in *.tar.gz
00:46:05 + pip install -U omero_py-5.22.0.dev0.tar.gz
00:46:06 Processing ./omero_py-5.22.0.dev0.tar.gz
00:46:06 Installing build dependencies: started
00:46:07 Installing build dependencies: finished with status 'done'
00:46:07 Getting requirements to build wheel: started
00:46:07 Getting requirements to build wheel: finished with status 'done'
00:46:07 Preparing metadata (pyproject.toml): started
00:46:07 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:07 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (1.4.4)
00:46:07 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (1.0.0)
00:46:07 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (2.4.1)
00:46:07 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (12.1.0)
00:46:07 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (6.0.3)
00:46:07 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)
00:46:07 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (2.32.5)
00:46:07 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (3.2.0)
00:46:07 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)
00:46:07 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (3.11)
00:46:07 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (2.6.3)
00:46:07 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (2026.1.4)
00:46:07 Building wheels for collected packages: omero-py
00:46:07 Building wheel for omero-py (pyproject.toml): started
00:46:08 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:46:08 Created wheel for omero-py: filename=omero_py-5.22.0.dev0-py3-none-any.whl size=2785928 sha256=d4f6cc42c912904dce12d5f681915c4bd380721a7ed7a49234f122ce0bca8f2e
00:46:08 Stored in directory: /home/omero/.cache/pip/wheels/b2/dd/fb/0f3c8a08eddbfe6a2bff7fe7d61ee876973c474d282bc441e3
00:46:08 Successfully built omero-py
00:46:08 Installing collected packages: omero-py
00:46:08 Attempting uninstall: omero-py
00:46:08 Found existing installation: omero-py 5.21.3
00:46:08 Uninstalling omero-py-5.21.3:
00:46:09 Successfully uninstalled omero-py-5.21.3
00:46:11 Successfully installed omero-py-5.22.0.dev0
00:46:11 + for x in *.tar.gz
00:46:11 + pip install -U omero_scripts-5.9.2.dev0.tar.gz
00:46:11 Processing ./omero_scripts-5.9.2.dev0.tar.gz
00:46:11 Installing build dependencies: started
00:46:12 Installing build dependencies: finished with status 'done'
00:46:12 Getting requirements to build wheel: started
00:46:12 Getting requirements to build wheel: finished with status 'done'
00:46:12 Preparing metadata (pyproject.toml): started
00:46:12 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:12 Building wheels for collected packages: omero-scripts
00:46:12 Building wheel for omero-scripts (pyproject.toml): started
00:46:13 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:46:13 Created wheel for omero-scripts: filename=omero_scripts-5.9.2.dev0-py3-none-any.whl size=136991 sha256=8e6eb7664074909492aab3e942c0b88d6c95836d9436a0d4cf47233e48c969d3
00:46:13 Stored in directory: /home/omero/.cache/pip/wheels/e3/db/94/c7ed73401c8459f3935212f514ee953d11b520ca8c20333850
00:46:13 Successfully built omero-scripts
00:46:13 Installing collected packages: omero-scripts
00:46:13 Successfully installed omero-scripts-5.9.2.dev0
00:46:13 + for x in *.tar.gz
00:46:13 + pip install -U omero_web-5.30.2.dev0.tar.gz
00:46:13 Processing ./omero_web-5.30.2.dev0.tar.gz
00:46:13 Installing build dependencies: started
00:46:14 Installing build dependencies: finished with status 'done'
00:46:14 Getting requirements to build wheel: started
00:46:15 Getting requirements to build wheel: finished with status 'done'
00:46:15 Preparing metadata (pyproject.toml): started
00:46:15 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:15 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (5.22.0.dev0)
00:46:15 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.30.2.dev0)
00:46:15 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl.metadata (23 kB)
00:46:15 Collecting Django<5.3,>=5.2.9 (from omero-web==5.30.2.dev0)
00:46:15 Using cached django-5.2.10-py3-none-any.whl.metadata (4.1 kB)
00:46:15 Collecting django-pipeline (from omero-web==5.30.2.dev0)
00:46:15 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
00:46:15 Collecting django-cors-headers==3.7.0 (from omero-web==5.30.2.dev0)
00:46:15 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:46:15 Collecting whitenoise>=5.3.0 (from omero-web==5.30.2.dev0)
00:46:15 Using cached whitenoise-6.11.0-py3-none-any.whl.metadata (3.7 kB)
00:46:15 Collecting gunicorn>=19.3 (from omero-web==5.30.2.dev0)
00:46:15 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:46:15 Requirement already satisfied: omero-marshal>=0.9.1 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (0.9.2.dev0)
00:46:15 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (12.1.0)
00:46:15 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (2025.2)
00:46:15 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (3.2.0)
00:46:15 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (25.0)
00:46:15 Collecting importlib-resources (from omero-web==5.30.2.dev0)
00:46:15 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
00:46:15 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.30.2.dev0)
00:46:15 Using cached asgiref-3.11.0-py3-none-any.whl.metadata (9.3 kB)
00:46:15 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.30.2.dev0)
00:46:15 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
00:46:15 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.2.dev0) (1.4.4)
00:46:15 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.2.dev0) (1.0.0)
00:46:15 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.2.dev0) (2.4.1)
00:46:15 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.2.dev0) (6.0.3)
00:46:15 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==5.30.2.dev0) (3.6.5)
00:46:15 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.30.2.dev0) (2.32.5)
00:46:15 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.30.2.dev0) (65.5.1)
00:46:15 Collecting wheel (from django-pipeline->omero-web==5.30.2.dev0)
00:46:15 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
00:46:15 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.2.dev0) (3.4.4)
00:46:15 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.2.dev0) (3.11)
00:46:15 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.2.dev0) (2.6.3)
00:46:15 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.30.2.dev0) (2026.1.4)
00:46:16 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:46:16 Using cached django-5.2.10-py3-none-any.whl (8.3 MB)
00:46:16 Using cached asgiref-3.11.0-py3-none-any.whl (24 kB)
00:46:16 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl (28 kB)
00:46:16 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:46:16 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
00:46:16 Using cached whitenoise-6.11.0-py3-none-any.whl (20 kB)
00:46:16 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
00:46:16 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
00:46:16 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
00:46:16 Building wheels for collected packages: omero-web
00:46:16 Building wheel for omero-web (pyproject.toml): started
00:46:17 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:46:17 Created wheel for omero-web: filename=omero_web-5.30.2.dev0-py3-none-any.whl size=2819315 sha256=a203ffc2e7af8f11353fa06979c9fbb6fe4cf35772f5601d170af41badc0e82e
00:46:17 Stored in directory: /home/omero/.cache/pip/wheels/22/8a/f9/2aa2b64b8351936989ad8693ee70db658c8360167f1ee574e7
00:46:17 Successfully built omero-web
00:46:17 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
00:46:19
00:46:19 Successfully installed Django-5.2.10 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-5.30.2.dev0 sqlparse-0.5.5 wheel-0.45.1 whitenoise-6.11.0
00:46:19 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:46:19 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:46:19 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:46:19 --2026-01-16 00:46:19-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:46:19 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.109.133, 185.199.108.133, ...
00:46:19 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
00:46:19 HTTP request sent, awaiting response... 200 OK
00:46:20 Length: 129238 (126K) [text/plain]
00:46:20 Saving to: ‘Figure_To_Pdf.py’
00:46:20
00:46:20 0K .......... .......... .......... .......... .......... 39% 4.03M 0s
00:46:20 50K .......... .......... .......... .......... .......... 79% 5.53M 0s
00:46:20 100K .......... .......... ...... 100% 58.9M=0.02s
00:46:20
00:46:20 2026-01-16 00:46:20 (5.77 MB/s) - ‘Figure_To_Pdf.py’ saved [129238/129238]
00:46:20
00:46:20 + chmod 755 Figure_To_Pdf.py
00:46:20 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:46:20 + omero config set omero.db.name OMERO-server
00:46:21 + omero config set omero.db.host pg
00:46:22 + omero config set omero.db.user postgres
00:46:23 + omero config set omero.data.dir /home/omero/omero-server-data
00:46:24 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:46:25 + omero config set omero.db.poolsize 25
00:46:27 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:46:28 + omero config set omero.security.trustStorePassword changeit
00:46:29 + omero config set omero.mail.config true
00:46:30 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:46:31 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:46:32 + omero certificates
00:46:33 OpenSSL 3.5.1 1 Jul 2025 (Library: OpenSSL 3.5.1 1 Jul 2025)
00:46:33 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:46:33 + '[' false = true ']'
00:46:33 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:46:33 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:46:33 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:46:34 2026-01-16 00:46:34,132 [ omego.db] DEBUG dbcommand => upgrade
00:46:34 2026-01-16 00:46:34,132 [ omego.db] DEBUG dbhost => localhost
00:46:34 2026-01-16 00:46:34,132 [ omego.db] DEBUG dbname => OMERO-server
00:46:34 2026-01-16 00:46:34,133 [ omego.db] DEBUG dbpass => omero
00:46:34 2026-01-16 00:46:34,133 [ omego.db] DEBUG dbuser => omero
00:46:34 2026-01-16 00:46:34,133 [ omego.db] DEBUG rootpass => omero
00:46:34 2026-01-16 00:46:34,133 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:46:34 2026-01-16 00:46:34,133 [omego.extern] INFO Executing : omero version
00:46:35 OMERO.py version:
00:46:35 OMERO.server version:
00:46:35 5.6.3-583-128585fa6a-ice36-b20
00:46:35 5.22.0.dev0
00:46:35 2026-01-16 00:46:35,313 [omego.extern] INFO Completed [1.181 s]
00:46:35 2026-01-16 00:46:35,314 [omego.extern] DEBUG Using omero CLI from omero
00:46:35 2026-01-16 00:46:35,314 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:46:35 2026-01-16 00:46:35,314 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:46:35 2026-01-16 00:46:35,314 [omego.extern] INFO Executing : omero config get --show-password
00:46:36 2026-01-16 00:46:36,442 [omego.extern] INFO Completed [1.128 s]
00:46:36 2026-01-16 00:46:36,442 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:46:36 2026-01-16 00:46:36,442 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:46:36 2026-01-16 00:46:36,447 [omego.extern] INFO Completed [0.005 s]
00:46:36 2026-01-16 00:46:36,447 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.11\n'
00:46:36 2026-01-16 00:46:36,447 [ omego.db] INFO psql version: psql (PostgreSQL) 16.11
00:46:36
00:46:36 2026-01-16 00:46:36,447 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:46:36 2026-01-16 00:46:36,447 [omego.extern] INFO Executing : omero config get --show-password
00:46:37 2026-01-16 00:46:37,622 [omego.extern] INFO Completed [1.175 s]
00:46:37 2026-01-16 00:46:37,622 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:46:37 2026-01-16 00:46:37,622 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:46:37 2026-01-16 00:46:37,631 [omego.extern] INFO Completed [0.009 s]
00:46:37 2026-01-16 00:46:37,632 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.11") at port "5432".\n'
00:46:37 2026-01-16 00:46:37,632 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:46:37 2026-01-16 00:46:37,632 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:46:37 2026-01-16 00:46:37,632 [omego.extern] INFO Executing : omero config get --show-password
00:46:38 2026-01-16 00:46:38,789 [omego.extern] INFO Completed [1.157 s]
00:46:38 2026-01-16 00:46:38,789 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:46:38 2026-01-16 00:46:38,789 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:46:38 2026-01-16 00:46:38,799 [omego.extern] INFO Completed [0.010 s]
00:46:38 2026-01-16 00:46:38,799 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:46:38 2026-01-16 00:46:38,799 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:46:38 2026-01-16 00:46:38,801 [ omego.db] INFO Database is already at OMERO5.4__0
00:46:38 + export LANG=en_US.UTF-8
00:46:38 + LANG=en_US.UTF-8
00:46:38 + export LANGUAGE=en_US:en
00:46:38 + LANGUAGE=en_US:en
00:46:38 + export LC_ALL=en_US.UTF-8
00:46:38 + LC_ALL=en_US.UTF-8
00:46:38 + BUILD_ID=DONT_KILL_ME
00:46:38 + omero admin start
00:46:43 No descriptor given. Using etc/grid/default.xml
00:46:51 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:46:51 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:46:51 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:46:51 Waiting on startup. Use CTRL-C to exit
00:46:51 + omero admin waitup
00:46:52 Waiting on startup. Use CTRL-C to exit
00:46:52 + omero admin diagnostics
00:46:53
00:46:53 ================================================================================
00:46:53 OMERO Diagnostics (admin)
00:46:53 ================================================================================
00:46:53
00:46:53 Commands: java -version 11.0.25 (/usr/bin/java)
00:46:53 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:46:53 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:46:53 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:46:53 Commands: psql --version 16.11 (/usr/bin/psql)
00:46:53 Commands: openssl version 3.5.11 (/usr/bin/openssl)
00:46:53
00:46:53 Component: OMERO.py 5.22.0.dev0
00:46:53 Component: OMERO.server 5.6.3-583-128585fa6a-ice36-b20
00:46:53
00:46:53 Server: icegridnode running
00:46:53 Server: Blitz-0 active (pid = 28632, enabled)
00:46:53 Server: Indexer-0 activating (enabled)
00:46:53 Server: OMERO.Glacier2 active (pid = 28662, enabled)
00:46:53 Server: OMERO.IceStorm active (pid = 28669, enabled)
00:46:53 Server: Processor-0 activating (enabled)
00:46:53 Server: Tables-0 activating (enabled)
00:46:53
00:46:53 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:46:53 Log files: Blitz-0.log 23.7 KB errors=0 warnings=1
00:46:53 Log files: DropBox.log n/a
00:46:53 Log files: FileServer.log n/a
00:46:53 Log files: Indexer-0.log 114 B
00:46:53 Log files: MonitorServer.log n/a
00:46:53 Log files: Processor-0.log 281 B
00:46:53 Log files: Tables-0.log 281 B
00:46:53 Log files: TestDropBox.log n/a
00:46:53 Log files: master.err empty
00:46:53 Log files: master.out 30.5 KB
00:46:53 Log files: Total size 0.05 MB
00:46:53
00:46:53
00:46:53 Environment:OMERO_HOME=(unset)
00:46:53 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:53 Environment:OMERO_NODE=(unset)
00:46:53 Environment:OMERO_MASTER=(unset)
00:46:53 Environment:OMERO_USERDIR=(unset)
00:46:53 Environment:OMERO_TMPDIR=(unset)
00:46:53 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:53 Environment:PYTHONPATH=(unset)
00:46:53 Environment:ICE_HOME=/opt/ice-3.6.5
00:46:53 Environment:LD_LIBRARY_PATH=(unset)
00:46:53 Environment:DYLD_LIBRARY_PATH=(unset)
00:46:53
00:46:53 OMERO SSL port:4064
00:46:53 OMERO TCP port:4063
00:46:53 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:46:53 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:46:53
00:46:53 JVM settings: Blitz-${index} -Xmx7200m
00:46:53 JVM settings: Indexer-${index} -Xmx4800m
00:46:53 JVM settings: PixelData-${index} -Xmx7200m
00:46:53 JVM settings: Repository-${index} -Xmx4800m
00:46:53
00:46:53 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0-SNAPSHOT 16 January 2026 67c8141e4bcdfdcfef2050b066ecd7b04d69be8e
00:46:53 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0-SNAPSHOT 16 January 2026 67c8141e4bcdfdcfef2050b066ecd7b04d69be8e
00:46:53 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0-SNAPSHOT 16 January 2026 67c8141e4bcdfdcfef2050b066ecd7b04d69be8e
00:46:53 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3-SNAPSHOT 16 January 2026 5410fbabba565c17f0dde35c481f37ead1520eb4
00:46:53 Jar: lib/server/ome-common.jar OME Common Java 6.1.3-SNAPSHOT 16 January 2026 5410fbabba565c17f0dde35c481f37ead1520eb4
00:46:53 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 16 January 2026 5410fbabba565c17f0dde35c481f37ead1520eb4
00:46:53 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 16 January 2026 5410fbabba565c17f0dde35c481f37ead1520eb4
00:46:53 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 16 January 2026 5410fbabba565c17f0dde35c481f37ead1520eb4
00:46:53 Jar: lib/server/ome-xml.jar OME XML library 6.5.3-SNAPSHOT 16 January 2026 5410fbabba565c17f0dde35c481f37ead1520eb4
00:46:53 Jar: lib/server/omero-blitz.jar jar 5.8.4-SNAPSHOT
00:46:53 Jar: lib/server/omero-common.jar jar 5.7.4-SNAPSHOT
00:46:53 Jar: lib/server/omero-gateway.jar jar 5.10.5-SNAPSHOT
00:46:53 Jar: lib/server/omero-model.jar jar 5.7.4-SNAPSHOT
00:46:53 Jar: lib/server/omero-renderer.jar jar 5.6.4-SNAPSHOT
00:46:53 Jar: lib/server/omero-romio.jar jar 5.8.4-SNAPSHOT
00:46:53 Jar: lib/server/omero-server.jar jar 5.7.4-SNAPSHOT
00:46:53 Jar: lib/server/omero-zarr-pixel-buffer-0.6.2-SNAPSHOT.jar OMERO Zarr Pixel Buffer 0.6.2-SNAPSHOT 969d8f431acde818e3bde12a78bc811b980e9b66
00:46:54 + deactivate
00:46:54 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:46:54 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:54 + export PATH
00:46:54 + unset _OLD_VIRTUAL_PATH
00:46:54 + '[' -n '' ']'
00:46:54 + hash -r
00:46:54 + '[' -n '' ']'
00:46:54 + unset VIRTUAL_ENV
00:46:54 + unset VIRTUAL_ENV_PROMPT
00:46:54 + '[' '!' '' = nondestructive ']'
00:46:54 + unset -f deactivate
00:46:54 Finished: SUCCESS
