09:50:40 Started by user devspace
09:50:40 Running as SYSTEM
09:50:40 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
09:50:40 [OMERO-server] $ /bin/bash -xe /tmp/jenkins16874395224853958727.sh
09:50:40 + source /home/settings.env
09:50:40 ++ OMERO_DB_HOST=pg
09:50:40 ++ OMERO_DB_USER=postgres
09:50:40 ++ OMERO_DB_PASS=
09:50:40 ++ OMERO_ROOT_PASS=omero
09:50:40 ++ OMERO_DATA_DIR=/OMERO
09:50:40 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:50:40 + OMERO_DB_NAME=OMERO-server
09:50:40 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:50:40 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:50:40 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:50:40 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:50:40 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
09:50:40 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:50:41 ++ deactivate nondestructive
09:50:41 ++ '[' -n '' ']'
09:50:41 ++ '[' -n '' ']'
09:50:41 ++ hash -r
09:50:41 ++ '[' -n '' ']'
09:50:41 ++ unset VIRTUAL_ENV
09:50:41 ++ unset VIRTUAL_ENV_PROMPT
09:50:41 ++ '[' '!' nondestructive = nondestructive ']'
09:50:41 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:50:41 ++ export VIRTUAL_ENV
09:50:41 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:50:41 ++ 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
09:50:41 ++ export PATH
09:50:41 ++ '[' -n '' ']'
09:50:41 ++ '[' -z '' ']'
09:50:41 ++ _OLD_VIRTUAL_PS1=
09:50:41 ++ PS1='(.venv3) '
09:50:41 ++ export PS1
09:50:41 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
09:50:41 ++ export VIRTUAL_ENV_PROMPT
09:50:41 ++ hash -r
09:50:41 + omero admin stop
09:51:01 Server not running
09:51:01 + echo not running
09:51:01 not running
09:51:01 + sleep 5
09:51:06 + deactivate
09:51:06 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:51:06 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:51:06 + export PATH
09:51:06 + unset _OLD_VIRTUAL_PATH
09:51:06 + '[' -n '' ']'
09:51:06 + hash -r
09:51:06 + '[' -n '' ']'
09:51:06 + unset VIRTUAL_ENV
09:51:06 + unset VIRTUAL_ENV_PROMPT
09:51:06 + '[' '!' '' = nondestructive ']'
09:51:06 + unset -f deactivate
09:51:06 + rm -rf /home/omero/workspace/OMERO-server/.venv3
09:51:07 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
09:51:12 + '[' false = true ']'
09:51:12 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
09:51:12 Skipping PURGE_DATA:CleanDbAndRepo
09:51:12 + 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
09:51:14 Copied 1 artifact from "OMERO-build" build number 25
09:51:14 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 25
09:51:15 Copied 2 artifacts from "OMERO-build-build" build number 29
09:51:15 Copied 1 artifact from "OMERO-zarr-pixel-buffer-build" build number 22
09:51:15 [OMERO-server] $ /bin/bash -xe /tmp/jenkins6832669452977694346.sh
09:51:15 + source /home/settings.env
09:51:15 ++ OMERO_DB_HOST=pg
09:51:15 ++ OMERO_DB_USER=postgres
09:51:15 ++ OMERO_DB_PASS=
09:51:15 ++ OMERO_ROOT_PASS=omero
09:51:15 ++ OMERO_DATA_DIR=/OMERO
09:51:15 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:51:15 + OMERO_DB_NAME=OMERO-server
09:51:15 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:51:15 + mkdir -p /home/omero/omero-server-data
09:51:15 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:51:15 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:51:15 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:51:15 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:51:15 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:51:15 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:51:15 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:51:15 ++ ls OMERO.server-5.6.3-583-5417758d80-ice36-b25.zip
09:51:15 + ZIP=OMERO.server-5.6.3-583-5417758d80-ice36-b25.zip
09:51:15 + '[' '!' -z '' ']'
09:51:15 + DIST=OMERO.server-5.6.3-583-5417758d80-ice36-b25
09:51:15 + unzip OMERO.server-5.6.3-583-5417758d80-ice36-b25.zip
09:51:15 Archive: OMERO.server-5.6.3-583-5417758d80-ice36-b25.zip
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/blitz/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/grid/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/profiles/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/error/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/grid/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/luts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/luts/janelia/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/luts/matplotlib/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/luts/ncsa_paledit/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/luts/seaborn/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/luts/wcif/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/analysis_scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/annotation_scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/export_scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/figure_scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/import_scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/scripts/omero/util_scripts/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/server/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/share/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/share/licenses/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/misc/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__1/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__10/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__11/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__2/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__3/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__4/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__5/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__6/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__7/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__8/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3A__9/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3__4/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3__5/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3__6/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO3__7/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO4.1__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO4.2__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO4.2__0/t/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO4.3__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO4.4__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO4__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.0__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.1__1/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.2__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.3__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4DEV__1/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4DEV__2/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4DEV__3/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/var/
09:51:15 creating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/var/tmp/
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/LICENSE.txt
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/backup.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/blitz/mail-senders.example
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/blitz/mail-server.example
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/build.properties
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/env.bat
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/env.sh
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/hibernate.properties
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/ice.config
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/logback-cli.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/logback-indexing-cli.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/logback-indexing.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/logback.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/mime.types
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/node1.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/node2.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/omero.properties
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/profiles/psql
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/rollover.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/Windows.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/error/maintainance.html
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/grid/README
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/grid/default.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/grid/templates.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/grid/windefault.xml
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/ice.config
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/internal.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/master.cfg
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/templates/robot.template
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/etc/testdropbox.config
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/history.rst
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/OMEZarrReader.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/accessors-smart.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/activation.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/aggdesigner-algorithm.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/aircompressor.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/antlr.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/aopalliance.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/apiguardian-api.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/asm.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/avatica-core.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/avatica-metrics.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/aws-java-sdk-core.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/aws-java-sdk-kms.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/aws-java-sdk-s3.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/base.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-anim.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-awt-util.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-bridge.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-codec.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-constants.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-css.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-dom.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-ext.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-gvt.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-i18n.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-parser.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-script.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-shared-resources.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-svg-dom.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-svggen.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-transcoder.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-util.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/batik-xml.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/btm.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/calcite-core.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/calcite-linq4j.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/cdm-core.jar
09:51:15 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/lib/client/checker-qual.jar
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09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/psql-footer.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/psql-header.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/schema.sql
09:51:17 inflating: OMERO.server-5.6.3-583-5417758d80-ice36-b25/sql/psql/OMERO5.4__0/views.sql
09:51:17 + rm -f OMERO.server-5.6.3-583-5417758d80-ice36-b25.zip
09:51:17 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-583-5417758d80-ice36-b25 /home/omero/workspace/OMERO-server/OMERO.server
09:51:17 + 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
09:51:18 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:51:18 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:51:18 --2026-01-21 09:51:18-- https://repo.maven.apache.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar
09:51:18 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.18.12, 104.18.19.12, 2606:4700::6812:130c, ...
09:51:18 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.18.12|:443... connected.
09:51:18 HTTP request sent, awaiting response... 200 OK
09:51:18 Length: 889211 (868K) [application/java-archive]
09:51:18 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’
09:51:18
09:51:18 0K .......... .......... .......... .......... .......... 5% 31.8M 0s
09:51:18 50K .......... .......... .......... .......... .......... 11% 3.53M 0s
09:51:18 100K .......... .......... .......... .......... .......... 17% 4.03M 0s
09:51:18 150K .......... .......... .......... .......... .......... 23% 33.9M 0s
09:51:18 200K .......... .......... .......... .......... .......... 28% 288M 0s
09:51:18 250K .......... .......... .......... .......... .......... 34% 50.0M 0s
09:51:18 300K .......... .......... .......... .......... .......... 40% 55.4M 0s
09:51:18 350K .......... .......... .......... .......... .......... 46% 4.85M 0s
09:51:18 400K .......... .......... .......... .......... .......... 51% 27.7M 0s
09:51:18 450K .......... .......... .......... .......... .......... 57% 99.7M 0s
09:51:18 500K .......... .......... .......... .......... .......... 63% 105M 0s
09:51:18 550K .......... .......... .......... .......... .......... 69% 54.6M 0s
09:51:18 600K .......... .......... .......... .......... .......... 74% 4.80M 0s
09:51:18 650K .......... .......... .......... .......... .......... 80% 20.9M 0s
09:51:18 700K .......... .......... .......... .......... .......... 86% 154M 0s
09:51:18 750K .......... .......... .......... .......... .......... 92% 57.2M 0s
09:51:18 800K .......... .......... .......... .......... .......... 97% 155M 0s
09:51:18 850K .......... ........ 100% 272M=0.06s
09:51:18
09:51:18 2026-01-21 09:51:18 (14.5 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’ saved [889211/889211]
09:51:18
09:51:18 + 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
09:51:18 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:51:18 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:51:18 --2026-01-21 09:51:18-- https://repo.maven.apache.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar
09:51:19 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.19.12, 104.18.18.12, 2606:4700::6812:120c, ...
09:51:19 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.19.12|:443... connected.
09:51:19 HTTP request sent, awaiting response... 200 OK
09:51:19 Length: 73309 (72K) [application/java-archive]
09:51:19 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’
09:51:19
09:51:19 0K .......... .......... .......... .......... .......... 69% 31.3M 0s
09:51:19 50K .......... .......... . 100% 1.69M=0.01s
09:51:19
09:51:19 2026-01-21 09:51:19 (4.98 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’ saved [73309/73309]
09:51:19
09:51:19 + 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
09:51:19 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:51:19 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:51:19 --2026-01-21 09:51:19-- https://repo.maven.apache.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar
09:51:19 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.19.12, 104.18.18.12, 2606:4700::6812:130c, ...
09:51:19 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.19.12|:443... connected.
09:51:19 HTTP request sent, awaiting response... 200 OK
09:51:19 Length: 63303 (62K) [application/java-archive]
09:51:19 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’
09:51:19
09:51:19 0K .......... .......... .......... .......... .......... 80% 3.50M 0s
09:51:19 50K .......... . 100% 13.0M=0.01s
09:51:19
09:51:19 2026-01-21 09:51:19 (4.07 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’ saved [63303/63303]
09:51:19
09:51:19 + 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
09:51:19 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:51:19 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:51:19 --2026-01-21 09:51:19-- https://repo.maven.apache.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar
09:51:19 Resolving repo.maven.apache.org (repo.maven.apache.org)... 104.18.19.12, 104.18.18.12, 2606:4700::6812:120c, ...
09:51:19 Connecting to repo.maven.apache.org (repo.maven.apache.org)|104.18.19.12|:443... connected.
09:51:19 HTTP request sent, awaiting response... 200 OK
09:51:19 Length: 1271272 (1.2M) [application/java-archive]
09:51:19 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’
09:51:19
09:51:19 0K .......... .......... .......... .......... .......... 4% 27.2M 0s
09:51:19 50K .......... .......... .......... .......... .......... 8% 3.57M 0s
09:51:19 100K .......... .......... .......... .......... .......... 12% 3.95M 0s
09:51:19 150K .......... .......... .......... .......... .......... 16% 38.7M 0s
09:51:19 200K .......... .......... .......... .......... .......... 20% 130M 0s
09:51:19 250K .......... .......... .......... .......... .......... 24% 56.4M 0s
09:51:19 300K .......... .......... .......... .......... .......... 28% 58.2M 0s
09:51:19 350K .......... .......... .......... .......... .......... 32% 4.69M 0s
09:51:19 400K .......... .......... .......... .......... .......... 36% 32.9M 0s
09:51:19 450K .......... .......... .......... .......... .......... 40% 51.0M 0s
09:51:19 500K .......... .......... .......... .......... .......... 44% 68.9M 0s
09:51:19 550K .......... .......... .......... .......... .......... 48% 324M 0s
09:51:19 600K .......... .......... .......... .......... .......... 52% 4.70M 0s
09:51:19 650K .......... .......... .......... .......... .......... 56% 20.3M 0s
09:51:19 700K .......... .......... .......... .......... .......... 60% 84.6M 0s
09:51:19 750K .......... .......... .......... .......... .......... 64% 242M 0s
09:51:19 800K .......... .......... .......... .......... .......... 68% 89.6M 0s
09:51:19 850K .......... .......... .......... .......... .......... 72% 4.93M 0s
09:51:19 900K .......... .......... .......... .......... .......... 76% 20.5M 0s
09:51:19 950K .......... .......... .......... .......... .......... 80% 223M 0s
09:51:19 1000K .......... .......... .......... .......... .......... 84% 76.9M 0s
09:51:19 1050K .......... .......... .......... .......... .......... 88% 78.0M 0s
09:51:19 1100K .......... .......... .......... .......... .......... 92% 4.96M 0s
09:51:19 1150K .......... .......... .......... .......... .......... 96% 20.8M 0s
09:51:19 1200K .......... .......... .......... .......... . 100% 264M=0.09s
09:51:19
09:51:19 2026-01-21 09:51:19 (14.2 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’ saved [1271272/1271272]
09:51:19
09:51:19 + 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
09:51:19 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:51:19 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:51:19 --2026-01-21 09:51:19-- https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-core/1.12.659/aws-java-sdk-core-1.12.659.jar
09:51:19 Resolving repo1.maven.org (repo1.maven.org)... 104.18.18.12, 104.18.19.12, 2606:4700::6812:130c, ...
09:51:20 Connecting to repo1.maven.org (repo1.maven.org)|104.18.18.12|:443... connected.
09:51:20 HTTP request sent, awaiting response... 200 OK
09:51:20 Length: 1036468 (1012K) [application/java-archive]
09:51:20 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-core-1.12.659.jar’
09:51:20
09:51:20 0K .......... .......... .......... .......... .......... 4% 3.30M 0s
09:51:20 50K .......... .......... .......... .......... .......... 9% 8.75M 0s
09:51:20 100K .......... .......... .......... .......... .......... 14% 4.60M 0s
09:51:20 150K .......... .......... .......... .......... .......... 19% 10.4M 0s
09:51:20 200K .......... .......... .......... .......... .......... 24% 10.7M 0s
09:51:20 250K .......... .......... .......... .......... .......... 29% 11.0M 0s
09:51:20 300K .......... .......... .......... .......... .......... 34% 17.7M 0s
09:51:20 350K .......... .......... .......... .......... .......... 39% 24.4M 0s
09:51:20 400K .......... .......... .......... .......... .......... 44% 15.4M 0s
09:51:20 450K .......... .......... .......... .......... .......... 49% 27.0M 0s
09:51:20 500K .......... .......... .......... .......... .......... 54% 15.7M 0s
09:51:20 550K .......... .......... .......... .......... .......... 59% 13.4M 0s
09:51:20 600K .......... .......... .......... .......... .......... 64% 25.0M 0s
09:51:20 650K .......... .......... .......... .......... .......... 69% 14.7M 0s
09:51:20 700K .......... .......... .......... .......... .......... 74% 25.1M 0s
09:51:20 750K .......... .......... .......... .......... .......... 79% 17.7M 0s
09:51:20 800K .......... .......... .......... .......... .......... 83% 11.9M 0s
09:51:20 850K .......... .......... .......... .......... .......... 88% 30.8M 0s
09:51:20 900K .......... .......... .......... .......... .......... 93% 14.0M 0s
09:51:20 950K .......... .......... .......... .......... .......... 98% 24.3M 0s
09:51:20 1000K .......... .. 100% 121M=0.08s
09:51:20
09:51:20 2026-01-21 09:51:20 (12.0 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-core-1.12.659.jar’ saved [1036468/1036468]
09:51:20
09:51:20 + for x in *.jar
09:51:20 + mv omero-zarr-pixel-buffer-0.6.2-SNAPSHOT.jar /home/omero/workspace/OMERO-server/OMERO.server/lib/server
09:51:20 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:51:20 ++ deactivate nondestructive
09:51:20 ++ '[' -n '' ']'
09:51:20 ++ '[' -n '' ']'
09:51:20 ++ hash -r
09:51:20 ++ '[' -n '' ']'
09:51:20 ++ unset VIRTUAL_ENV
09:51:20 ++ unset VIRTUAL_ENV_PROMPT
09:51:20 ++ '[' '!' nondestructive = nondestructive ']'
09:51:20 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:51:20 ++ export VIRTUAL_ENV
09:51:20 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:51:20 ++ 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
09:51:20 ++ export PATH
09:51:20 ++ '[' -n '' ']'
09:51:20 ++ '[' -z '' ']'
09:51:20 ++ _OLD_VIRTUAL_PS1=
09:51:20 ++ PS1='(.venv3) '
09:51:20 ++ export PS1
09:51:20 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
09:51:20 ++ export VIRTUAL_ENV_PROMPT
09:51:20 ++ hash -r
09:51:20 + pip install -U pip
09:51:20 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
09:51:20 Collecting pip
09:51:20 Using cached pip-25.3-py3-none-any.whl (1.8 MB)
09:51:20 Installing collected packages: pip
09:51:20 Attempting uninstall: pip
09:51:20 Found existing installation: pip 22.3.1
09:51:21 Uninstalling pip-22.3.1:
09:51:21 Successfully uninstalled pip-22.3.1
09:51:21 Successfully installed pip-25.3
09:51:22 + 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
09:51:22 Collecting zeroc-ice==3.6.5
09:51:22 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)
09:51:24 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 20.5 MB/s 0:00:01
09:51:24 Installing collected packages: zeroc-ice
09:51:25 Successfully installed zeroc-ice-3.6.5
09:51:25 + pip install markdown
09:51:26 Collecting markdown
09:51:26 Using cached markdown-3.10-py3-none-any.whl.metadata (5.1 kB)
09:51:26 Using cached markdown-3.10-py3-none-any.whl (107 kB)
09:51:26 Installing collected packages: markdown
09:51:26 Successfully installed markdown-3.10
09:51:26 + pip install reportlab
09:51:27 Collecting reportlab
09:51:27 Using cached reportlab-4.4.9-py3-none-any.whl.metadata (1.7 kB)
09:51:27 Collecting pillow>=9.0.0 (from reportlab)
09:51:27 Using cached pillow-12.1.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.8 kB)
09:51:27 Collecting charset-normalizer (from reportlab)
09:51:27 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)
09:51:27 Using cached reportlab-4.4.9-py3-none-any.whl (2.0 MB)
09:51:27 Using cached pillow-12.1.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.0 MB)
09:51:27 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)
09:51:27 Installing collected packages: pillow, charset-normalizer, reportlab
09:51:28
09:51:28 Successfully installed charset-normalizer-3.4.4 pillow-12.1.0 reportlab-4.4.9
09:51:28 + pip install omego
09:51:29 Collecting omego
09:51:29 Using cached omego-0.7.0-py3-none-any.whl
09:51:29 Collecting future (from omego)
09:51:29 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
09:51:29 Collecting yaclifw>=0.1.1 (from omego)
09:51:29 Using cached yaclifw-0.2.0-py3-none-any.whl
09:51:29 Collecting six (from yaclifw>=0.1.1->omego)
09:51:29 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
09:51:29 Using cached future-1.0.0-py3-none-any.whl (491 kB)
09:51:29 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
09:51:30 Installing collected packages: six, future, yaclifw, omego
09:51:30
09:51:30 Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0
09:51:30 + pip install tables
09:51:30 Collecting tables
09:51:30 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB)
09:51:31 Collecting numpy>=1.20.0 (from tables)
09:51:31 Using cached numpy-2.4.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
09:51:31 Collecting numexpr>=2.6.2 (from tables)
09:51:31 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
09:51:31 Collecting packaging (from tables)
09:51:31 Using cached packaging-25.0-py3-none-any.whl.metadata (3.3 kB)
09:51:31 Collecting py-cpuinfo (from tables)
09:51:31 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
09:51:31 Collecting blosc2>=2.3.0 (from tables)
09:51:31 Using cached blosc2-3.12.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (7.1 kB)
09:51:31 Collecting typing-extensions>=4.4.0 (from tables)
09:51:31 Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
09:51:31 Collecting ndindex (from blosc2>=2.3.0->tables)
09:51:31 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
09:51:31 Collecting msgpack (from blosc2>=2.3.0->tables)
09:51:31 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)
09:51:31 Collecting platformdirs (from blosc2>=2.3.0->tables)
09:51:31 Using cached platformdirs-4.5.1-py3-none-any.whl.metadata (12 kB)
09:51:31 Collecting requests (from blosc2>=2.3.0->tables)
09:51:31 Using cached requests-2.32.5-py3-none-any.whl.metadata (4.9 kB)
09:51:31 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.4)
09:51:31 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
09:51:31 Using cached idna-3.11-py3-none-any.whl.metadata (8.4 kB)
09:51:31 Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables)
09:51:31 Using cached urllib3-2.6.3-py3-none-any.whl.metadata (6.9 kB)
09:51:32 Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables)
09:51:32 Using cached certifi-2026.1.4-py3-none-any.whl.metadata (2.5 kB)
09:51:32 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
09:51:32 Using cached blosc2-3.12.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (4.5 MB)
09:51:32 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
09:51:32 Using cached numpy-2.4.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.7 MB)
09:51:32 Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
09:51:32 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (426 kB)
09:51:32 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
09:51:32 Using cached packaging-25.0-py3-none-any.whl (66 kB)
09:51:32 Using cached platformdirs-4.5.1-py3-none-any.whl (18 kB)
09:51:32 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
09:51:32 Using cached requests-2.32.5-py3-none-any.whl (64 kB)
09:51:32 Using cached idna-3.11-py3-none-any.whl (71 kB)
09:51:32 Using cached urllib3-2.6.3-py3-none-any.whl (131 kB)
09:51:32 Using cached certifi-2026.1.4-py3-none-any.whl (152 kB)
09:51:32 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, certifi, requests, numexpr, blosc2, tables
09:51:36
09:51:36 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
09:51:36 + pip install jinja2
09:51:36 Collecting jinja2
09:51:36 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
09:51:36 Collecting MarkupSafe>=2.0 (from jinja2)
09:51:36 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)
09:51:36 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
09:51:36 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
09:51:36 Installing collected packages: MarkupSafe, jinja2
09:51:36
09:51:36 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
09:51:36 + pip install omero-py
09:51:37 Collecting omero-py
09:51:37 Using cached omero_py-5.21.3-py3-none-any.whl.metadata (6.5 kB)
09:51:37 Collecting appdirs (from omero-py)
09:51:37 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
09:51:37 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
09:51:37 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.1)
09:51:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.1.0)
09:51:37 Collecting PyYAML (from omero-py)
09:51:37 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)
09:51:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
09:51:37 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.5)
09:51:37 Collecting portalocker (from omero-py)
09:51:37 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
09:51:37 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.4)
09:51:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.11)
09:51:37 Requirement already satisfied: urllib3<3,>=1.21.1 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.6.3)
09:51:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.1.4)
09:51:37 Using cached omero_py-5.21.3-py3-none-any.whl (2.8 MB)
09:51:37 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
09:51:37 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
09:51:37 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
09:51:38 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
09:51:39
09:51:39 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.21.3 portalocker-3.2.0
09:51:39 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
09:51:40 Collecting omero-metadata
09:51:40 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-qj95plce/omero-metadata_e2facfff30584413ac8c1e513fec312f
09:51:40 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-qj95plce/omero-metadata_e2facfff30584413ac8c1e513fec312f
09:51:41 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit e4489f8f2ae2e4c02c22bedde80025e2f2d416fb
09:51:41 Installing build dependencies: started
09:51:42 Installing build dependencies: finished with status 'done'
09:51:42 Getting requirements to build wheel: started
09:51:42 Getting requirements to build wheel: finished with status 'done'
09:51:42 Preparing metadata (pyproject.toml): started
09:51:42 Preparing metadata (pyproject.toml): finished with status 'done'
09:51:42 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.21.3)
09:51:42 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
09:51:42 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
09:51:43 Collecting pandas (from omero-metadata)
09:51:43 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
09:51:43 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
09:51:43 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
09:51:43 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.1)
09:51:43 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)
09:51:43 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)
09:51:43 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.5)
09:51:43 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
09:51:43 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
09:51:43 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
09:51:43 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
09:51:43 Collecting pytz>=2020.1 (from pandas->omero-metadata)
09:51:43 Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
09:51:43 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
09:51:43 Using cached tzdata-2025.3-py2.py3-none-any.whl.metadata (1.4 kB)
09:51:43 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)
09:51:43 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)
09:51:43 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)
09:51:43 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)
09:51:43 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)
09:51:43 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
09:51:43 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
09:51:43 Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
09:51:43 Using cached tzdata-2025.3-py2.py3-none-any.whl (348 kB)
09:51:43 Building wheels for collected packages: omero-metadata
09:51:43 Building wheel for omero-metadata (pyproject.toml): started
09:51:44 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
09:51:44 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=8e8b17e08e91ce794d93c3f9d782863d0b8471ecfe78a5dd584733961c06853c
09:51:44 Stored in directory: /tmp/pip-ephem-wheel-cache-9ghupp5c/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
09:51:44 Successfully built omero-metadata
09:51:44 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
09:51:50
09:51:50 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2025.2 tzdata-2025.3
09:51:50 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
09:51:51 Collecting omero-cli-render
09:51:51 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-ls1u_162/omero-cli-render_e69e9805b5c648f89290db977fffc5f5
09:51:51 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-ls1u_162/omero-cli-render_e69e9805b5c648f89290db977fffc5f5
09:51:51 Running command git checkout -b merge_ci --track origin/merge_ci
09:51:52 Switched to a new branch 'merge_ci'
09:51:52 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:51:52 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 435dce49a7bcd24bdc43f64feafaf9d8d4794c3f
09:51:52 Installing build dependencies: started
09:51:52 Installing build dependencies: finished with status 'done'
09:51:52 Getting requirements to build wheel: started
09:51:53 Getting requirements to build wheel: finished with status 'done'
09:51:53 Preparing metadata (pyproject.toml): started
09:51:53 Preparing metadata (pyproject.toml): finished with status 'done'
09:51:53 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
09:51:53 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.21.3)
09:51:53 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
09:51:53 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
09:51:53 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.1)
09:51:53 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)
09:51:53 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
09:51:53 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.5)
09:51:53 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
09:51:53 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)
09:51:53 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)
09:51:53 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)
09:51:53 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)
09:51:53 Building wheels for collected packages: omero-cli-render
09:51:53 Building wheel for omero-cli-render (pyproject.toml): started
09:51:53 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
09:51:53 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=35dab021c50fcb6a2d52bee93c383c9c1015a75072fe3226c33306ce2b3fb8a2
09:51:53 Stored in directory: /tmp/pip-ephem-wheel-cache-l6s6buh2/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
09:51:53 Successfully built omero-cli-render
09:51:53 Installing collected packages: omero-cli-render
09:51:53 Successfully installed omero-cli-render-0.8.2.dev0
09:51:53 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
09:51:54 Collecting omero-cli-duplicate
09:51:54 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-cgv22b1j/omero-cli-duplicate_1007c2c64ba5464888f87ee1fbca61dc
09:51:54 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-cgv22b1j/omero-cli-duplicate_1007c2c64ba5464888f87ee1fbca61dc
09:51:54 Running command git checkout -b merge_ci --track origin/merge_ci
09:51:55 Switched to a new branch 'merge_ci'
09:51:55 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:51:55 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 1744c0e497e6f74c4d29ea4656ed753a3dd89098
09:51:55 Installing build dependencies: started
09:51:55 Installing build dependencies: finished with status 'done'
09:51:55 Getting requirements to build wheel: started
09:51:56 Getting requirements to build wheel: finished with status 'done'
09:51:56 Preparing metadata (pyproject.toml): started
09:51:56 Preparing metadata (pyproject.toml): finished with status 'done'
09:51:56 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.21.3)
09:51:56 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
09:51:56 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
09:51:56 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.1)
09:51:56 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)
09:51:56 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
09:51:56 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)
09:51:56 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.5)
09:51:56 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
09:51:56 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)
09:51:56 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)
09:51:56 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)
09:51:56 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)
09:51:56 Building wheels for collected packages: omero-cli-duplicate
09:51:56 Building wheel for omero-cli-duplicate (pyproject.toml): started
09:51:56 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
09:51:56 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11538 sha256=ab2da048b8457341c720161f03f64543d7b1f251ba6932bedbe11effcb1d5958
09:51:56 Stored in directory: /tmp/pip-ephem-wheel-cache-e2r8juv4/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
09:51:56 Successfully built omero-cli-duplicate
09:51:56 Installing collected packages: omero-cli-duplicate
09:51:56 Successfully installed omero-cli-duplicate-0.4.1.dev0
09:51:56 + pip install omero-certificates
09:51:57 Collecting omero-certificates
09:51:57 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
09:51:57 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.21.3)
09:51:57 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
09:51:57 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
09:51:57 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.1)
09:51:57 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)
09:51:57 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
09:51:57 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)
09:51:57 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.5)
09:51:57 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
09:51:57 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)
09:51:57 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)
09:51:57 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)
09:51:57 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)
09:51:57 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
09:51:57 Installing collected packages: omero-certificates
09:51:57 Successfully installed omero-certificates-0.4.0
09:51:57 + for x in *.tar.gz
09:51:57 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
09:51:57 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
09:51:57 Installing build dependencies: started
09:51:58 Installing build dependencies: finished with status 'done'
09:51:58 Getting requirements to build wheel: started
09:51:58 Getting requirements to build wheel: finished with status 'done'
09:51:58 Preparing metadata (pyproject.toml): started
09:51:59 Preparing metadata (pyproject.toml): finished with status 'done'
09:51:59 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.21.3)
09:51:59 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
09:51:59 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
09:51:59 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.1)
09:51:59 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)
09:51:59 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
09:51:59 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)
09:51:59 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.5)
09:51:59 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
09:51:59 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)
09:51:59 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)
09:51:59 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)
09:51:59 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)
09:51:59 Building wheels for collected packages: omero-dropbox
09:51:59 Building wheel for omero-dropbox (pyproject.toml): started
09:51:59 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
09:51:59 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=8ea414879fa874ebfac97acf54963f74855c3c0a40ea99c48a0eaa155bc1e19d
09:51:59 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
09:51:59 Successfully built omero-dropbox
09:51:59 Installing collected packages: omero-dropbox
09:51:59 Successfully installed omero-dropbox-5.7.1.dev0
09:51:59 + for x in *.tar.gz
09:51:59 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
09:51:59 Processing ./omero_marshal-0.9.2.dev0.tar.gz
09:51:59 Installing build dependencies: started
09:52:00 Installing build dependencies: finished with status 'done'
09:52:00 Getting requirements to build wheel: started
09:52:01 Getting requirements to build wheel: finished with status 'done'
09:52:01 Preparing metadata (pyproject.toml): started
09:52:01 Preparing metadata (pyproject.toml): finished with status 'done'
09:52:01 Building wheels for collected packages: omero_marshal
09:52:01 Building wheel for omero_marshal (pyproject.toml): started
09:52:01 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
09:52:01 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88128 sha256=1e3fa5396d262d31bdc84d80691bd80ea362db3adfcebc67b073a329086eafc5
09:52:01 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
09:52:01 Successfully built omero_marshal
09:52:01 Installing collected packages: omero_marshal
09:52:01 Successfully installed omero_marshal-0.9.2.dev0
09:52:01 + for x in *.tar.gz
09:52:01 + pip install -U omero_py-5.22.0.dev0.tar.gz
09:52:02 Processing ./omero_py-5.22.0.dev0.tar.gz
09:52:02 Installing build dependencies: started
09:52:03 Installing build dependencies: finished with status 'done'
09:52:03 Getting requirements to build wheel: started
09:52:03 Getting requirements to build wheel: finished with status 'done'
09:52:03 Preparing metadata (pyproject.toml): started
09:52:03 Preparing metadata (pyproject.toml): finished with status 'done'
09:52:03 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (1.4.4)
09:52:03 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (1.0.0)
09:52:03 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (2.4.1)
09:52:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (12.1.0)
09:52:03 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (6.0.3)
09:52:03 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)
09:52:03 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (2.32.5)
09:52:03 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.0.dev0) (3.2.0)
09:52:03 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)
09:52:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.0.dev0) (3.11)
09:52:03 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)
09:52:03 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)
09:52:03 Building wheels for collected packages: omero-py
09:52:03 Building wheel for omero-py (pyproject.toml): started
09:52:04 Building wheel for omero-py (pyproject.toml): finished with status 'done'
09:52:04 Created wheel for omero-py: filename=omero_py-5.22.0.dev0-py3-none-any.whl size=2785929 sha256=f2c8ffff7ad67e203955b9396f4b01b00bcba04ea38f21603e9827f75855aa05
09:52:04 Stored in directory: /home/omero/.cache/pip/wheels/b2/dd/fb/0f3c8a08eddbfe6a2bff7fe7d61ee876973c474d282bc441e3
09:52:04 Successfully built omero-py
09:52:04 Installing collected packages: omero-py
09:52:04 Attempting uninstall: omero-py
09:52:04 Found existing installation: omero-py 5.21.3
09:52:04 Uninstalling omero-py-5.21.3:
09:52:05 Successfully uninstalled omero-py-5.21.3
09:52:07 Successfully installed omero-py-5.22.0.dev0
09:52:07 + for x in *.tar.gz
09:52:07 + pip install -U omero_scripts-5.9.2.dev0.tar.gz
09:52:07 Processing ./omero_scripts-5.9.2.dev0.tar.gz
09:52:07 Installing build dependencies: started
09:52:08 Installing build dependencies: finished with status 'done'
09:52:08 Getting requirements to build wheel: started
09:52:08 Getting requirements to build wheel: finished with status 'done'
09:52:08 Preparing metadata (pyproject.toml): started
09:52:08 Preparing metadata (pyproject.toml): finished with status 'done'
09:52:08 Building wheels for collected packages: omero-scripts
09:52:08 Building wheel for omero-scripts (pyproject.toml): started
09:52:08 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
09:52:08 Created wheel for omero-scripts: filename=omero_scripts-5.9.2.dev0-py3-none-any.whl size=136991 sha256=3c9df0495baaf308751303a2af2bd4a433059a75f0bcf613ff25fa6d23a3c7a2
09:52:08 Stored in directory: /home/omero/.cache/pip/wheels/e3/db/94/c7ed73401c8459f3935212f514ee953d11b520ca8c20333850
09:52:09 Successfully built omero-scripts
09:52:09 Installing collected packages: omero-scripts
09:52:09 Successfully installed omero-scripts-5.9.2.dev0
09:52:09 + for x in *.tar.gz
09:52:09 + pip install -U omero_web-5.30.2.dev0.tar.gz
09:52:09 Processing ./omero_web-5.30.2.dev0.tar.gz
09:52:09 Installing build dependencies: started
09:52:10 Installing build dependencies: finished with status 'done'
09:52:10 Getting requirements to build wheel: started
09:52:10 Getting requirements to build wheel: finished with status 'done'
09:52:10 Preparing metadata (pyproject.toml): started
09:52:11 Preparing metadata (pyproject.toml): finished with status 'done'
09:52:11 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)
09:52:11 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.30.2.dev0)
09:52:11 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl.metadata (23 kB)
09:52:11 Collecting Django<5.3,>=5.2.9 (from omero-web==5.30.2.dev0)
09:52:11 Using cached django-5.2.10-py3-none-any.whl.metadata (4.1 kB)
09:52:11 Collecting django-pipeline (from omero-web==5.30.2.dev0)
09:52:11 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
09:52:11 Collecting django-cors-headers==3.7.0 (from omero-web==5.30.2.dev0)
09:52:11 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
09:52:11 Collecting whitenoise>=5.3.0 (from omero-web==5.30.2.dev0)
09:52:11 Using cached whitenoise-6.11.0-py3-none-any.whl.metadata (3.7 kB)
09:52:11 Collecting gunicorn>=19.3 (from omero-web==5.30.2.dev0)
09:52:11 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
09:52:11 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)
09:52:11 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (12.1.0)
09:52:11 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (2025.2)
09:52:11 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (3.2.0)
09:52:11 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.30.2.dev0) (25.0)
09:52:11 Collecting importlib-resources (from omero-web==5.30.2.dev0)
09:52:11 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
09:52:11 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.30.2.dev0)
09:52:11 Using cached asgiref-3.11.0-py3-none-any.whl.metadata (9.3 kB)
09:52:11 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.30.2.dev0)
09:52:11 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
09:52:11 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)
09:52:11 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)
09:52:11 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)
09:52:11 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)
09:52:11 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)
09:52:11 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)
09:52:11 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.30.2.dev0) (65.5.1)
09:52:11 Collecting wheel (from django-pipeline->omero-web==5.30.2.dev0)
09:52:11 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
09:52:11 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)
09:52:11 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)
09:52:11 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)
09:52:11 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)
09:52:11 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
09:52:11 Using cached django-5.2.10-py3-none-any.whl (8.3 MB)
09:52:11 Using cached asgiref-3.11.0-py3-none-any.whl (24 kB)
09:52:11 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl (28 kB)
09:52:11 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
09:52:11 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
09:52:12 Using cached whitenoise-6.11.0-py3-none-any.whl (20 kB)
09:52:12 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
09:52:12 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
09:52:12 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
09:52:12 Building wheels for collected packages: omero-web
09:52:12 Building wheel for omero-web (pyproject.toml): started
09:52:13 Building wheel for omero-web (pyproject.toml): finished with status 'done'
09:52:13 Created wheel for omero-web: filename=omero_web-5.30.2.dev0-py3-none-any.whl size=2818599 sha256=0f5fb6a56d55ef6dd443ff5430e310be55ded0f7a668f0944e9e2ea0dd0e72a8
09:52:13 Stored in directory: /home/omero/.cache/pip/wheels/22/8a/f9/2aa2b64b8351936989ad8693ee70db658c8360167f1ee574e7
09:52:13 Successfully built omero-web
09:52:13 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
09:52:15
09:52:15 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
09:52:15 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:52:15 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:52:15 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:52:15 --2026-01-21 09:52:15-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:52:15 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.109.133, 185.199.110.133, ...
09:52:15 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
09:52:16 HTTP request sent, awaiting response... 200 OK
09:52:16 Length: 129238 (126K) [text/plain]
09:52:16 Saving to: ‘Figure_To_Pdf.py’
09:52:16
09:52:16 0K .......... .......... .......... .......... .......... 39% 4.09M 0s
09:52:16 50K .......... .......... .......... .......... .......... 79% 5.46M 0s
09:52:16 100K .......... .......... ...... 100% 52.5M=0.02s
09:52:16
09:52:16 2026-01-21 09:52:16 (5.77 MB/s) - ‘Figure_To_Pdf.py’ saved [129238/129238]
09:52:16
09:52:16 + chmod 755 Figure_To_Pdf.py
09:52:16 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
09:52:16 + omero config set omero.db.name OMERO-server
09:52:17 + omero config set omero.db.host pg
09:52:18 + omero config set omero.db.user postgres
09:52:19 + omero config set omero.data.dir /home/omero/omero-server-data
09:52:20 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
09:52:21 + omero config set omero.db.poolsize 25
09:52:23 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
09:52:24 + omero config set omero.security.trustStorePassword changeit
09:52:25 + omero config set omero.mail.config true
09:52:26 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
09:52:27 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
09:52:28 + omero certificates
09:52:30 OpenSSL 3.5.1 1 Jul 2025 (Library: OpenSSL 3.5.1 1 Jul 2025)
09:52:30 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
09:52:30 + '[' false = true ']'
09:52:30 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
09:52:30 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
09:52:30 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG dbcommand => upgrade
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG dbhost => localhost
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG dbname => OMERO-server
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG dbpass => omero
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG dbuser => omero
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG rootpass => omero
09:52:30 2026-01-21 09:52:30,509 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
09:52:30 2026-01-21 09:52:30,509 [omego.extern] INFO Executing : omero version
09:52:31 OMERO.py version:
09:52:31 OMERO.server version:
09:52:31 5.6.3-583-5417758d80-ice36-b25
09:52:31 5.22.0.dev0
09:52:31 2026-01-21 09:52:31,714 [omego.extern] INFO Completed [1.205 s]
09:52:31 2026-01-21 09:52:31,714 [omego.extern] DEBUG Using omero CLI from omero
09:52:31 2026-01-21 09:52:31,714 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
09:52:31 2026-01-21 09:52:31,714 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:52:31 2026-01-21 09:52:31,714 [omego.extern] INFO Executing : omero config get --show-password
09:52:32 2026-01-21 09:52:32,870 [omego.extern] INFO Completed [1.155 s]
09:52:32 2026-01-21 09:52:32,870 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:52:32 2026-01-21 09:52:32,870 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
09:52:33 2026-01-21 09:52:33,350 [omego.extern] INFO Completed [0.480 s]
09:52:33 2026-01-21 09:52:33,350 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.11\n'
09:52:33 2026-01-21 09:52:33,350 [ omego.db] INFO psql version: psql (PostgreSQL) 16.11
09:52:33
09:52:33 2026-01-21 09:52:33,350 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:52:33 2026-01-21 09:52:33,350 [omego.extern] INFO Executing : omero config get --show-password
09:52:34 2026-01-21 09:52:34,471 [omego.extern] INFO Completed [1.121 s]
09:52:34 2026-01-21 09:52:34,471 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:52:34 2026-01-21 09:52:34,471 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
09:52:34 2026-01-21 09:52:34,767 [omego.extern] INFO Completed [0.296 s]
09:52:34 2026-01-21 09:52:34,767 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.7") at port "5432".\n'
09:52:34 2026-01-21 09:52:34,767 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
09:52:34 2026-01-21 09:52:34,767 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:52:34 2026-01-21 09:52:34,767 [omego.extern] INFO Executing : omero config get --show-password
09:52:35 2026-01-21 09:52:35,922 [omego.extern] INFO Completed [1.155 s]
09:52:35 2026-01-21 09:52:35,922 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:52:35 2026-01-21 09:52:35,922 [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
09:52:36 2026-01-21 09:52:36,646 [omego.extern] INFO Completed [0.724 s]
09:52:36 2026-01-21 09:52:36,647 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
09:52:36 2026-01-21 09:52:36,647 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
09:52:36 2026-01-21 09:52:36,648 [ omego.db] INFO Database is already at OMERO5.4__0
09:52:36 + export LANG=en_US.UTF-8
09:52:36 + LANG=en_US.UTF-8
09:52:36 + export LANGUAGE=en_US:en
09:52:36 + LANGUAGE=en_US:en
09:52:36 + export LC_ALL=en_US.UTF-8
09:52:36 + LC_ALL=en_US.UTF-8
09:52:36 + BUILD_ID=DONT_KILL_ME
09:52:36 + omero admin start
09:52:41 No descriptor given. Using etc/grid/default.xml
09:52:51 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
09:52:51 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
09:52:51 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
09:52:51 Waiting on startup. Use CTRL-C to exit
09:52:51 + omero admin waitup
09:52:53 Waiting on startup. Use CTRL-C to exit
09:52:53 + omero admin diagnostics
09:52:54
09:52:54 ================================================================================
09:52:54 OMERO Diagnostics (admin)
09:52:54 ================================================================================
09:52:54
09:52:54 Commands: java -version 17.0.17 (/usr/bin/java)
09:52:54 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
09:52:54 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
09:52:54 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
09:52:54 Commands: psql --version 16.11 (/usr/bin/psql)
09:52:54 Commands: openssl version 3.5.11 (/usr/bin/openssl)
09:52:54
09:52:54 Component: OMERO.py 5.22.0.dev0
09:52:54 Component: OMERO.server 5.6.3-583-5417758d80-ice36-b25
09:52:54
09:52:54 Server: icegridnode running
09:52:54 Server: Blitz-0 active (pid = 2142, enabled)
09:52:54 Server: Indexer-0 activating (enabled)
09:52:54 Server: OMERO.Glacier2 active (pid = 2177, enabled)
09:52:54 Server: OMERO.IceStorm active (pid = 2207, enabled)
09:52:54 Server: Processor-0 active (pid = 2200, enabled)
09:52:54 Server: Tables-0 active (pid = 2209, enabled)
09:52:54
09:52:54 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
09:52:54 Log files: Blitz-0.log 33.1 KB errors=0 warnings=1
09:52:54 Log files: DropBox.log n/a
09:52:54 Log files: FileServer.log n/a
09:52:54 Log files: Indexer-0.log 598 B
09:52:54 Log files: MonitorServer.log n/a
09:52:54 Log files: Processor-0.log 735 B
09:52:54 Log files: Tables-0.log 961 B
09:52:54 Log files: TestDropBox.log n/a
09:52:54 Log files: master.err empty
09:52:54 Log files: master.out 30.5 KB
09:52:54 Log files: Total size 0.07 MB
09:52:54
09:52:54
09:52:54 Environment:OMERO_HOME=(unset)
09:52:54 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:52:54 Environment:OMERO_NODE=(unset)
09:52:54 Environment:OMERO_MASTER=(unset)
09:52:54 Environment:OMERO_USERDIR=(unset)
09:52:54 Environment:OMERO_TMPDIR=(unset)
09:52:54 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
09:52:54 Environment:PYTHONPATH=(unset)
09:52:54 Environment:ICE_HOME=/opt/ice-3.6.5
09:52:54 Environment:LD_LIBRARY_PATH=(unset)
09:52:54 Environment:DYLD_LIBRARY_PATH=(unset)
09:52:54
09:52:54 OMERO SSL port:4064
09:52:54 OMERO TCP port:4063
09:52:54 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
09:52:54 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
09:52:54
09:52:54 JVM settings: Blitz-${index} -Xmx7200m
09:52:54 JVM settings: Indexer-${index} -Xmx4800m
09:52:54 JVM settings: PixelData-${index} -Xmx7200m
09:52:54 JVM settings: Repository-${index} -Xmx4800m
09:52:54
09:52:54 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0-SNAPSHOT 21 January 2026 e35e577bdc9972c5357f22e05912f28affa6fcb7
09:52:54 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0-SNAPSHOT 21 January 2026 e35e577bdc9972c5357f22e05912f28affa6fcb7
09:52:54 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0-SNAPSHOT 21 January 2026 e35e577bdc9972c5357f22e05912f28affa6fcb7
09:52:54 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3-SNAPSHOT 21 January 2026 d7c2af0a61969b6a867846a79d7bd5261667cdb5
09:52:54 Jar: lib/server/ome-common.jar OME Common Java 6.1.3-SNAPSHOT 21 January 2026 d7c2af0a61969b6a867846a79d7bd5261667cdb5
09:52:54 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 21 January 2026 d7c2af0a61969b6a867846a79d7bd5261667cdb5
09:52:54 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 21 January 2026 d7c2af0a61969b6a867846a79d7bd5261667cdb5
09:52:54 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 21 January 2026 d7c2af0a61969b6a867846a79d7bd5261667cdb5
09:52:54 Jar: lib/server/ome-xml.jar OME XML library 6.5.3-SNAPSHOT 21 January 2026 d7c2af0a61969b6a867846a79d7bd5261667cdb5
09:52:54 Jar: lib/server/omero-blitz.jar jar 5.8.4-SNAPSHOT
09:52:54 Jar: lib/server/omero-common.jar jar 5.7.4-SNAPSHOT
09:52:54 Jar: lib/server/omero-gateway.jar jar 5.10.5-SNAPSHOT
09:52:54 Jar: lib/server/omero-model.jar jar 5.7.4-SNAPSHOT
09:52:54 Jar: lib/server/omero-renderer.jar jar 5.6.4-SNAPSHOT
09:52:54 Jar: lib/server/omero-romio.jar jar 5.8.4-SNAPSHOT
09:52:54 Jar: lib/server/omero-server.jar jar 5.7.4-SNAPSHOT
09:52:54 Jar: lib/server/omero-zarr-pixel-buffer-0.6.2-SNAPSHOT.jar OMERO Zarr Pixel Buffer 0.6.2-SNAPSHOT 3a0c0bb2af36dc4d57cc969253b9eb66583f1c08
09:52:55 + deactivate
09:52:55 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:52:55 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:52:55 + export PATH
09:52:55 + unset _OLD_VIRTUAL_PATH
09:52:55 + '[' -n '' ']'
09:52:55 + hash -r
09:52:55 + '[' -n '' ']'
09:52:55 + unset VIRTUAL_ENV
09:52:55 + unset VIRTUAL_ENV_PROMPT
09:52:55 + '[' '!' '' = nondestructive ']'
09:52:55 + unset -f deactivate
09:52:55 Finished: SUCCESS
