08:38:09 Started by upstream project "Trigger" build number 129
08:38:09 originally caused by:
08:38:09 Started by user devspace
08:38:09 Running as SYSTEM
08:38:09 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
08:38:09 [OMERO-server] $ /bin/bash -xe /tmp/jenkins3836375352581019647.sh
08:38:09 + source /home/settings.env
08:38:09 ++ OMERO_DB_HOST=pg
08:38:09 ++ OMERO_DB_USER=postgres
08:38:09 ++ OMERO_DB_PASS=
08:38:09 ++ OMERO_ROOT_PASS=omero
08:38:09 ++ OMERO_DATA_DIR=/OMERO
08:38:09 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
08:38:09 + OMERO_DB_NAME=OMERO-server
08:38:09 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
08:38:09 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:38:09 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:38:09 + OMERO_DATA_DIR=/home/omero/omero-server-data
08:38:09 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
08:38:09 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
08:38:09 ++ deactivate nondestructive
08:38:09 ++ '[' -n '' ']'
08:38:09 ++ '[' -n '' ']'
08:38:09 ++ hash -r
08:38:09 ++ '[' -n '' ']'
08:38:09 ++ unset VIRTUAL_ENV
08:38:09 ++ unset VIRTUAL_ENV_PROMPT
08:38:09 ++ '[' '!' nondestructive = nondestructive ']'
08:38:09 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
08:38:09 ++ export VIRTUAL_ENV
08:38:09 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:38:09 ++ 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
08:38:09 ++ export PATH
08:38:09 ++ '[' -n '' ']'
08:38:09 ++ '[' -z '' ']'
08:38:09 ++ _OLD_VIRTUAL_PS1=
08:38:09 ++ PS1='(.venv3) '
08:38:09 ++ export PS1
08:38:09 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
08:38:09 ++ export VIRTUAL_ENV_PROMPT
08:38:09 ++ hash -r
08:38:09 + omero admin stop
08:38:34 Waiting on shutdown. Use CTRL-C to exit
08:38:34 .+ sleep 5
08:38:49 + deactivate
08:38:49 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
08:38:49 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:38:49 + export PATH
08:38:49 + unset _OLD_VIRTUAL_PATH
08:38:49 + '[' -n '' ']'
08:38:49 + hash -r
08:38:49 + '[' -n '' ']'
08:38:49 + unset VIRTUAL_ENV
08:38:49 + unset VIRTUAL_ENV_PROMPT
08:38:49 + '[' '!' '' = nondestructive ']'
08:38:49 + unset -f deactivate
08:38:49 + rm -rf /home/omero/workspace/OMERO-server/.venv3
08:41:39 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
08:42:00 + '[' false = true ']'
08:42:00 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
08:42:00 Skipping PURGE_DATA:CleanDbAndRepo
08:42:00 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.6-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-5.23.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.10.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.33.3.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
08:42:09 Copied 1 artifact from "OMERO-build" build number 109
08:42:10 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 99
08:42:10 Copied 2 artifacts from "OMERO-build-build" build number 111
08:42:11 [OMERO-server] $ /bin/bash -xe /tmp/jenkins13217206163274278325.sh
08:42:11 + source /home/settings.env
08:42:11 ++ OMERO_DB_HOST=pg
08:42:11 ++ OMERO_DB_USER=postgres
08:42:11 ++ OMERO_DB_PASS=
08:42:11 ++ OMERO_ROOT_PASS=omero
08:42:11 ++ OMERO_DATA_DIR=/OMERO
08:42:11 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
08:42:11 + OMERO_DB_NAME=OMERO-server
08:42:11 + OMERO_DATA_DIR=/home/omero/omero-server-data
08:42:11 + mkdir -p /home/omero/omero-server-data
08:42:11 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
08:42:11 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:42:11 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:42:11 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
08:42:11 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
08:42:11 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
08:42:11 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
08:42:11 ++ ls OMERO.server-5.6.3-689-547cc34433-ice36-b109.zip
08:42:11 + ZIP=OMERO.server-5.6.3-689-547cc34433-ice36-b109.zip
08:42:11 + '[' '!' -z '' ']'
08:42:11 + DIST=OMERO.server-5.6.3-689-547cc34433-ice36-b109
08:42:11 + unzip OMERO.server-5.6.3-689-547cc34433-ice36-b109.zip
08:42:11 Archive: OMERO.server-5.6.3-689-547cc34433-ice36-b109.zip
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/blitz/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/grid/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/profiles/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/error/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/grid/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/luts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/luts/janelia/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/luts/matplotlib/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/luts/ncsa_paledit/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/luts/seaborn/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/luts/wcif/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/analysis_scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/annotation_scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/export_scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/figure_scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/import_scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/scripts/omero/util_scripts/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/server/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/misc/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__1/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__10/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__11/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__2/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__3/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__4/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__5/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__6/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__7/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__8/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__9/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__4/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__5/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__6/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__7/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.1__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.2__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.2__0/t/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.3__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.4__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.0__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.1__1/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.2__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4DEV__1/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4DEV__2/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4DEV__3/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/var/
08:42:11 creating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/var/tmp/
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/LICENSE.txt
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/backup.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/blitz/mail-senders.example
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/blitz/mail-server.example
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/build.properties
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/env.bat
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/env.sh
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/hibernate.properties
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/ice.config
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/logback-cli.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/logback-indexing-cli.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/logback-indexing.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/logback.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/mime.types
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/node1.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/node2.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/omero.properties
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/profiles/psql
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/rollover.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/Windows.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/error/maintainance.html
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/grid/README
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/grid/default.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/grid/templates.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/grid/windefault.xml
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/ice.config
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/internal.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/master.cfg
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/templates/robot.template
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/etc/testdropbox.config
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/history.rst
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/accessors-smart.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/activation.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/aggdesigner-algorithm.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/aircompressor.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/annotations.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/antlr.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/aopalliance.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/apache-client.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/apiguardian-api.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/arns.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/asm.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/auth.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/avatica-core.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/avatica-metrics.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/aws-core.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/aws-query-protocol.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/aws-xml-protocol.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/base.jar
08:42:11 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-anim.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-awt-util.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-bridge.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-codec.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-constants.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-css.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-dom.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-ext.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-gvt.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-i18n.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-parser.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-script.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-shared-resources.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-svg-dom.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-svggen.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-transcoder.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-util.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/batik-xml.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/blosc-java.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/btm.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/caffeine.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/calcite-core.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/calcite-linq4j.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/cdm-core.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/checker-qual.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/checksums-spi.jar
08:42:12 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/lib/client/checksums.jar
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08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/npl-1_1.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/path.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/pil.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/postgresql.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/psf-v2.0.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/psf-v2.5.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/scons.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/slf4j.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/tablelayout.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/which.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/zlib-libpng.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/share/licenses/zpl-v2.1.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/README.txt
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/misc/Makefile
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/misc/current.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/misc/enums.py
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__1/OMERO3__7.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__10/OMERO3A__9.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__11/OMERO3A__10.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__11/OMERO3A__5.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__2/OMERO3A__1.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__3/OMERO3A__2.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__3/OMERO3__5.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__4/OMERO3A__3.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__4/OMERO3__5.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__5/OMERO3A__4.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__6/OMERO3A__5.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__7/OMERO3A__6.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__8/OMERO3A__6.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3A__9/OMERO3A__8.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__4/OMERO3__1.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__5/OMERO3__4.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__6/OMERO3__5.sql
08:42:27 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO3__7/OMERO3__6.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.1__0/OMERO4__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO4__0/OMERO3A__11.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/psql-footer.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/psql-header.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/schema.sql
08:42:28 inflating: OMERO.server-5.6.3-689-547cc34433-ice36-b109/sql/psql/OMERO5.4__0/views.sql
08:42:28 + rm -f OMERO.server-5.6.3-689-547cc34433-ice36-b109.zip
08:42:28 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-689-547cc34433-ice36-b109 /home/omero/workspace/OMERO-server/OMERO.server
08:42:28 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
08:42:28 ++ deactivate nondestructive
08:42:28 ++ '[' -n '' ']'
08:42:28 ++ '[' -n '' ']'
08:42:28 ++ hash -r
08:42:28 ++ '[' -n '' ']'
08:42:28 ++ unset VIRTUAL_ENV
08:42:28 ++ unset VIRTUAL_ENV_PROMPT
08:42:28 ++ '[' '!' nondestructive = nondestructive ']'
08:42:28 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
08:42:28 ++ export VIRTUAL_ENV
08:42:28 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:42:28 ++ 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
08:42:28 ++ export PATH
08:42:28 ++ '[' -n '' ']'
08:42:28 ++ '[' -z '' ']'
08:42:28 ++ _OLD_VIRTUAL_PS1=
08:42:28 ++ PS1='(.venv3) '
08:42:28 ++ export PS1
08:42:28 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
08:42:28 ++ export VIRTUAL_ENV_PROMPT
08:42:28 ++ hash -r
08:42:28 + pip install -U pip
08:42:29 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
08:42:30 Collecting pip
08:42:30 Using cached pip-26.2.1-py3-none-any.whl (1.8 MB)
08:42:30 Installing collected packages: pip
08:42:30 Attempting uninstall: pip
08:42:30 Found existing installation: pip 22.3.1
08:42:30 Uninstalling pip-22.3.1:
08:42:31 Successfully uninstalled pip-22.3.1
08:42:44 Successfully installed pip-26.2.1
08:42:44 WARNING: There was an error checking the latest version of pip.
08:42:44 + 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
08:42:45 Collecting zeroc-ice==3.6.5
08:42:46 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
08:42:48 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 15.5 MB/s 0:00:02
08:42:48 Installing collected packages: zeroc-ice
08:42:52 Successfully installed zeroc-ice-3.6.5
08:42:52 + pip install markdown
08:42:53 Collecting markdown
08:42:53 Downloading markdown-3.11.1-py3-none-any.whl.metadata (5.1 kB)
08:42:53 Downloading markdown-3.11.1-py3-none-any.whl (116 kB)
08:42:53 Installing collected packages: markdown
08:42:54 Successfully installed markdown-3.11.1
08:42:54 + pip install reportlab
08:42:55 Collecting reportlab
08:42:55 Using cached reportlab-5.0.1-py3-none-any.whl.metadata (1.6 kB)
08:42:55 Collecting pillow>=9.0.0 (from reportlab)
08:42:55 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
08:42:56 Collecting charset-normalizer (from reportlab)
08:42:56 Using cached charset_normalizer-3.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (46 kB)
08:42:56 Using cached reportlab-5.0.1-py3-none-any.whl (2.0 MB)
08:42:56 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
08:42:56 Using cached charset_normalizer-3.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (269 kB)
08:42:56 Installing collected packages: pillow, charset-normalizer, reportlab
08:43:04
08:43:04 Successfully installed charset-normalizer-3.5.2 pillow-12.3.0 reportlab-5.0.1
08:43:04 + pip install pyarrow
08:43:05 Collecting pyarrow
08:43:05 Using cached pyarrow-26.0.0-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB)
08:43:05 Using cached pyarrow-26.0.0-cp311-cp311-manylinux_2_28_x86_64.whl (53.9 MB)
08:43:06 Installing collected packages: pyarrow
08:43:16 Successfully installed pyarrow-26.0.0
08:43:16 + pip install omego
08:43:17 Collecting omego
08:43:17 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
08:43:17 Collecting future (from omego)
08:43:17 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
08:43:18 Collecting yaclifw>=0.1.1 (from omego)
08:43:18 Using cached yaclifw-0.2.0-py3-none-any.whl
08:43:18 Collecting six (from yaclifw>=0.1.1->omego)
08:43:18 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
08:43:18 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
08:43:18 Using cached future-1.0.0-py3-none-any.whl (491 kB)
08:43:18 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
08:43:18 Installing collected packages: six, future, yaclifw, omego
08:43:23
08:43:23 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
08:43:23 + pip install tables
08:43:24 Collecting tables
08:43:24 Using cached tables-3.11.1-cp311-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.1 kB)
08:43:25 Collecting numpy>=1.20.0 (from tables)
08:43:25 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
08:43:25 Collecting numexpr>=2.6.2 (from tables)
08:43:25 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
08:43:25 Collecting packaging (from tables)
08:43:25 Using cached packaging-26.3-py3-none-any.whl.metadata (3.5 kB)
08:43:25 Collecting py-cpuinfo (from tables)
08:43:25 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
08:43:26 Collecting blosc2>=2.3.0 (from tables)
08:43:26 Using cached blosc2-4.14.1-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.0 kB)
08:43:26 Collecting ndindex (from blosc2>=2.3.0->tables)
08:43:26 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
08:43:26 Collecting msgpack (from blosc2>=2.3.0->tables)
08:43:26 Using cached msgpack-1.2.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
08:43:26 Collecting pydantic (from blosc2>=2.3.0->tables)
08:43:26 Using cached pydantic-2.14.1-py3-none-any.whl.metadata (133 kB)
08:43:26 Collecting httpx[http2] (from blosc2>=2.3.0->tables)
08:43:27 Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB)
08:43:27 Collecting rich (from blosc2>=2.3.0->tables)
08:43:27 Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
08:43:27 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
08:43:27 Using cached threadpoolctl-3.7.0-py3-none-any.whl.metadata (24 kB)
08:43:27 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables)
08:43:27 Using cached anyio-4.15.1-py3-none-any.whl.metadata (4.7 kB)
08:43:27 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables)
08:43:27 Using cached certifi-2026.7.22-py3-none-any.whl.metadata (2.5 kB)
08:43:27 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables)
08:43:27 Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB)
08:43:27 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables)
08:43:27 Using cached idna-3.20-py3-none-any.whl.metadata (7.2 kB)
08:43:28 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables)
08:43:28 Using cached h2-4.4.1-py3-none-any.whl.metadata (3.8 kB)
08:43:28 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
08:43:28 Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB)
08:43:28 Collecting hpack<5,>=4.2 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
08:43:28 Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB)
08:43:28 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables)
08:43:28 Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
08:43:28 Collecting typing_extensions>=4.16.0 (from anyio->httpx[http2]->blosc2>=2.3.0->tables)
08:43:28 Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
08:43:28 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
08:43:28 Using cached annotated_types-0.8.0-py3-none-any.whl.metadata (15 kB)
08:43:29 Collecting pydantic-core==2.50.1 (from pydantic->blosc2>=2.3.0->tables)
08:43:29 Using cached pydantic_core-2.50.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.5 kB)
08:43:29 Collecting typing-inspection>=0.4.4 (from pydantic->blosc2>=2.3.0->tables)
08:43:29 Using cached typing_inspection-0.4.4-py3-none-any.whl.metadata (2.6 kB)
08:43:29 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
08:43:29 Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
08:43:29 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
08:43:29 Using cached pygments-2.21.0-py3-none-any.whl.metadata (2.5 kB)
08:43:30 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
08:43:30 Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
08:43:30 Using cached tables-3.11.1-cp311-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (7.2 MB)
08:43:30 Using cached blosc2-4.14.1-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.7 MB)
08:43:30 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB)
08:43:30 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
08:43:30 Using cached httpx-0.28.1-py3-none-any.whl (73 kB)
08:43:30 Using cached h2-4.4.1-py3-none-any.whl (62 kB)
08:43:30 Using cached hpack-4.2.0-py3-none-any.whl (34 kB)
08:43:30 Using cached httpcore-1.0.9-py3-none-any.whl (78 kB)
08:43:30 Using cached hyperframe-6.1.0-py3-none-any.whl (13 kB)
08:43:30 Using cached h11-0.16.0-py3-none-any.whl (37 kB)
08:43:30 Using cached anyio-4.15.1-py3-none-any.whl (132 kB)
08:43:30 Using cached idna-3.20-py3-none-any.whl (69 kB)
08:43:30 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
08:43:30 Using cached certifi-2026.7.22-py3-none-any.whl (136 kB)
08:43:31 Using cached msgpack-1.2.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (477 kB)
08:43:31 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
08:43:31 Using cached packaging-26.3-py3-none-any.whl (129 kB)
08:43:31 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
08:43:31 Using cached pydantic-2.14.1-py3-none-any.whl (488 kB)
08:43:31 Using cached pydantic_core-2.50.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.2 MB)
08:43:31 Using cached annotated_types-0.8.0-py3-none-any.whl (13 kB)
08:43:31 Using cached typing_inspection-0.4.4-py3-none-any.whl (14 kB)
08:43:31 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
08:43:31 Using cached pygments-2.21.0-py3-none-any.whl (1.3 MB)
08:43:31 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB)
08:43:31 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
08:43:31 Using cached threadpoolctl-3.7.0-py3-none-any.whl (26 kB)
08:43:31 Installing collected packages: py-cpuinfo, typing_extensions, threadpoolctl, pygments, packaging, numpy, ndindex, msgpack, mdurl, idna, hyperframe, hpack, h11, certifi, annotated-types, typing-inspection, pydantic-core, numexpr, markdown-it-py, httpcore, h2, anyio, rich, pydantic, httpx, blosc2, tables
08:44:20
08:44:20 Successfully installed annotated-types-0.8.0 anyio-4.15.1 blosc2-4.14.1 certifi-2026.7.22 h11-0.16.0 h2-4.4.1 hpack-4.2.0 httpcore-1.0.9 httpx-0.28.1 hyperframe-6.1.0 idna-3.20 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.3 ndindex-1.10.1 numexpr-2.14.2 numpy-2.4.6 packaging-26.3 py-cpuinfo-9.0.0 pydantic-2.14.1 pydantic-core-2.50.1 pygments-2.21.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.7.0 typing-inspection-0.4.4 typing_extensions-4.16.0
08:44:20 + pip install jinja2
08:44:21 Collecting jinja2
08:44:21 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
08:44:21 Collecting MarkupSafe>=2.0 (from jinja2)
08:44:21 Using cached markupsafe-3.0.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.7 kB)
08:44:21 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
08:44:22 Using cached markupsafe-3.0.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
08:44:22 Installing collected packages: MarkupSafe, jinja2
08:44:23
08:44:23 Successfully installed MarkupSafe-3.0.4 jinja2-3.1.6
08:44:23 + pip install omero-py
08:44:24 Collecting omero-py
08:44:24 Using cached omero_py-5.23.0-py3-none-any.whl.metadata (6.5 kB)
08:44:24 Collecting appdirs (from omero-py)
08:44:24 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
08:44:24 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
08:44:24 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
08:44:24 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
08:44:24 Collecting PyYAML (from omero-py)
08:44:24 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)
08:44:24 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
08:44:24 Collecting requests (from omero-py)
08:44:24 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
08:44:24 Collecting portalocker (from omero-py)
08:44:24 Using cached portalocker-4.4.0-py3-none-any.whl.metadata (10 kB)
08:44:24 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.5.2)
08:44:24 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.20)
08:44:24 Collecting urllib3<3,>=1.26 (from requests->omero-py)
08:44:24 Using cached urllib3-2.8.0-py3-none-any.whl.metadata (7.4 kB)
08:44:24 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.7.22)
08:44:24 Using cached omero_py-5.23.0-py3-none-any.whl (2.8 MB)
08:44:25 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
08:44:25 Using cached portalocker-4.4.0-py3-none-any.whl (129 kB)
08:44:25 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
08:44:25 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
08:44:25 Using cached urllib3-2.8.0-py3-none-any.whl (135 kB)
08:44:25 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
08:44:42
08:44:42 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.23.0 portalocker-4.4.0 requests-2.34.2 urllib3-2.8.0
08:44:42 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
08:44:43 Collecting omero-metadata
08:44:43 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-5a8mxsui/omero-metadata_06df17500dfb46c68854ad8e08241c4b
08:44:43 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-5a8mxsui/omero-metadata_06df17500dfb46c68854ad8e08241c4b
08:44:45 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 608d2c10e79bf736dfc3fe3a1b2b7a3cdcbc19d9
08:44:45 Installing build dependencies: started
08:44:46 Installing build dependencies: finished with status 'done'
08:44:46 Getting requirements to build wheel: started
08:44:46 Getting requirements to build wheel: finished with status 'done'
08:44:46 Preparing metadata (pyproject.toml): started
08:44:46 Preparing metadata (pyproject.toml): finished with status 'done'
08:44:46 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.23.0)
08:44:47 Collecting pandas<3,>=2 (from omero-metadata)
08:44:47 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
08:44:47 Requirement already satisfied: numpy>=1.23.2 in ./.venv3/lib64/python3.11/site-packages (from pandas<3,>=2->omero-metadata) (2.4.6)
08:44:47 Collecting python-dateutil>=2.8.2 (from pandas<3,>=2->omero-metadata)
08:44:47 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
08:44:47 Collecting pytz>=2020.1 (from pandas<3,>=2->omero-metadata)
08:44:47 Using cached pytz-2026.5-py2.py3-none-any.whl.metadata (22 kB)
08:44:47 Collecting tzdata>=2022.7 (from pandas<3,>=2->omero-metadata)
08:44:47 Using cached tzdata-2026.5-py2.py3-none-any.whl.metadata (1.4 kB)
08:44:47 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
08:44:47 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
08:44:47 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (12.3.0)
08:44:47 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (6.0.3)
08:44:47 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)
08:44:47 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
08:44:47 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (4.4.0)
08:44:47 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas<3,>=2->omero-metadata) (1.17.0)
08:44:47 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.5.2)
08:44:47 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.20)
08:44:47 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.8.0)
08:44:47 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.7.22)
08:44:47 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
08:44:47 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
08:44:48 Using cached pytz-2026.5-py2.py3-none-any.whl (506 kB)
08:44:48 Using cached tzdata-2026.5-py2.py3-none-any.whl (347 kB)
08:44:48 Building wheels for collected packages: omero-metadata
08:44:48 Building wheel for omero-metadata (pyproject.toml): started
08:44:48 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
08:44:48 Created wheel for omero-metadata: filename=omero_metadata-0.14.1.dev0-py3-none-any.whl size=39360 sha256=43cf4d62bfdf60ec018d8b803c66beca835fcfdf7703a012ae114f8cf4ea661c
08:44:48 Stored in directory: /tmp/pip-ephem-wheel-cache-_eh10f8h/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
08:44:48 Successfully built omero-metadata
08:44:48 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
08:45:38
08:45:38 Successfully installed omero-metadata-0.14.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2026.5 tzdata-2026.5
08:45:38 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
08:45:39 Collecting omero-cli-render
08:45:39 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-13kuk2hy/omero-cli-render_5e853f769e534def8f5209186ea7bb15
08:45:39 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-13kuk2hy/omero-cli-render_5e853f769e534def8f5209186ea7bb15
08:45:40 Running command git checkout -b merge_ci --track origin/merge_ci
08:45:41 Switched to a new branch 'merge_ci'
08:45:41 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:45:41 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit c824049b2e2a47ed086ec811f3e90654216df800
08:45:41 Installing build dependencies: started
08:45:42 Installing build dependencies: finished with status 'done'
08:45:42 Getting requirements to build wheel: started
08:45:42 Getting requirements to build wheel: finished with status 'done'
08:45:42 Preparing metadata (pyproject.toml): started
08:45:42 Preparing metadata (pyproject.toml): finished with status 'done'
08:45:42 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
08:45:42 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.23.0)
08:45:42 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
08:45:42 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
08:45:42 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.6)
08:45:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (12.3.0)
08:45:42 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
08:45:42 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
08:45:42 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (4.4.0)
08:45:42 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.5.2)
08:45:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.20)
08:45:42 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.8.0)
08:45:42 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.7.22)
08:45:42 Building wheels for collected packages: omero-cli-render
08:45:42 Building wheel for omero-cli-render (pyproject.toml): started
08:45:43 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
08:45:43 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=8f881178d0b01187ee9884ae7b4c6712d5814879c8512e80383853212bda6b0e
08:45:43 Stored in directory: /tmp/pip-ephem-wheel-cache-j4q5mwpm/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
08:45:43 Successfully built omero-cli-render
08:45:43 Installing collected packages: omero-cli-render
08:45:43 Successfully installed omero-cli-render-0.8.2.dev0
08:45:43 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
08:45:44 Collecting omero-cli-duplicate
08:45:44 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-x0t0eto9/omero-cli-duplicate_1ce292c392c84a4fa5c6d48a6a939f5c
08:45:44 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-x0t0eto9/omero-cli-duplicate_1ce292c392c84a4fa5c6d48a6a939f5c
08:45:45 Running command git checkout -b merge_ci --track origin/merge_ci
08:45:45 Switched to a new branch 'merge_ci'
08:45:45 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:45:45 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 30f5463ea9a1c28d50cd9f4f0cc523c6e794ec38
08:45:45 Installing build dependencies: started
08:45:46 Installing build dependencies: finished with status 'done'
08:45:46 Getting requirements to build wheel: started
08:45:47 Getting requirements to build wheel: finished with status 'done'
08:45:47 Preparing metadata (pyproject.toml): started
08:45:47 Preparing metadata (pyproject.toml): finished with status 'done'
08:45:47 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.23.0)
08:45:47 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
08:45:47 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
08:45:47 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
08:45:47 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (12.3.0)
08:45:47 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
08:45:47 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)
08:45:47 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
08:45:47 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (4.4.0)
08:45:47 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.5.2)
08:45:47 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.20)
08:45:47 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.8.0)
08:45:47 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.7.22)
08:45:47 Building wheels for collected packages: omero-cli-duplicate
08:45:47 Building wheel for omero-cli-duplicate (pyproject.toml): started
08:45:47 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
08:45:47 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=ef57b7fba5e71ebd9b0922edd55b86c59c6c7c6bd21ae81c2a3143bc28509aa3
08:45:47 Stored in directory: /tmp/pip-ephem-wheel-cache-dhtbtgl6/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
08:45:47 Successfully built omero-cli-duplicate
08:45:47 Installing collected packages: omero-cli-duplicate
08:45:48 Successfully installed omero-cli-duplicate-0.4.1.dev0
08:45:48 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
08:45:48 Collecting omero-cli-zarr
08:45:48 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-lm2zitkh/omero-cli-zarr_5bb311809d184fa4bc8716009c9bfe18
08:45:48 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-lm2zitkh/omero-cli-zarr_5bb311809d184fa4bc8716009c9bfe18
08:45:50 Running command git checkout -b merge_ci --track origin/merge_ci
08:45:50 Switched to a new branch 'merge_ci'
08:45:50 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:45:50 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit c66640b69ccc467a0e3a94c4fe0027111c69397f
08:45:50 Installing build dependencies: started
08:45:51 Installing build dependencies: finished with status 'done'
08:45:51 Getting requirements to build wheel: started
08:45:52 Getting requirements to build wheel: finished with status 'done'
08:45:52 Installing backend dependencies: started
08:45:53 Installing backend dependencies: finished with status 'done'
08:45:53 Preparing metadata (pyproject.toml): started
08:45:54 Preparing metadata (pyproject.toml): finished with status 'done'
08:45:54 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.23.0)
08:45:54 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
08:45:54 Using cached ome_zarr-0.18.0-py3-none-any.whl.metadata (2.9 kB)
08:45:54 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6)
08:45:54 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:54 Using cached dask-2026.8.0-py3-none-any.whl.metadata (3.8 kB)
08:45:54 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:54 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
08:45:54 Collecting fsspec!=2021.07.0,!=2023.9.0,>=0.8 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:54 Using cached fsspec-2026.9.0-py3-none-any.whl.metadata (10 kB)
08:45:55 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:55 Using cached aiohttp-3.14.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
08:45:55 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
08:45:55 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:55 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
08:45:56 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:56 Using cached toolz-1.2.0-py3-none-any.whl.metadata (5.2 kB)
08:45:56 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:56 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
08:45:56 Collecting ome-zarr-models>=1.6 (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:56 Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB)
08:45:56 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
08:45:56 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
08:45:56 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:56 Using cached click-8.5.0-py3-none-any.whl.metadata (2.6 kB)
08:45:56 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:56 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
08:45:56 Requirement already satisfied: packaging>=20.0 in ./.venv3/lib64/python3.11/site-packages (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr) (26.3)
08:45:57 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:57 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
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08:45:57 Collecting importlib_metadata>=4.13.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:57 Using cached importlib_metadata-9.0.1-py3-none-any.whl.metadata (4.5 kB)
08:45:57 Collecting s3fs>=2026.6.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:57 Using cached s3fs-2026.9.0-py3-none-any.whl.metadata (1.2 kB)
08:45:57 Collecting zipp>=3.20 (from importlib_metadata>=4.13.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:57 Using cached zipp-4.1.1-py3-none-any.whl.metadata (3.6 kB)
08:45:57 Collecting pydantic-zarr>=0.8.2 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:57 Using cached pydantic_zarr-0.9.2-py3-none-any.whl.metadata (4.0 kB)
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08:45:58 Collecting pydantic-core==2.41.5 (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:58 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.3 kB)
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08:45:58 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
08:45:58 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
08:45:58 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (12.3.0)
08:45:58 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.6.5)
08:45:58 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (4.4.0)
08:45:58 Collecting locket (from partd>=1.4.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:58 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
08:45:58 Collecting aiobotocore<4.0.0,>=2.19.0 (from s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:58 Using cached aiobotocore-3.9.2-py3-none-any.whl.metadata (32 kB)
08:45:58 Collecting aioitertools<1.0.0,>=0.5.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
08:45:58 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
08:45:59 Collecting botocore<1.43.107,>=1.43.101 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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08:45:59 Using cached multidict-6.9.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (5.3 kB)
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08:46:00 Collecting wrapt<3.0.0,>=1.10.10 (from aiobotocore<4.0.0,>=2.19.0->s3fs>=2026.6.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
08:46:00 Downloading wrapt-2.5.1-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.6 kB)
08:46:00 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
08:46:00 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl.metadata (5.9 kB)
08:46:00 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
08:46:00 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
08:46:00 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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08:46:00 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
08:46:01 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (20 kB)
08:46:01 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
08:46:01 Using cached propcache-0.5.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (25 kB)
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08:46:05 Building wheels for collected packages: omero-cli-zarr
08:46:05 Building wheel for omero-cli-zarr (pyproject.toml): started
08:46:05 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
08:46:05 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev186+gc66640b-py3-none-any.whl size=39540 sha256=3e6430d5ac5bbd3e5fd314fb678f09daaf0d950441e2d40f1cc164b0257bd44c
08:46:05 Stored in directory: /tmp/pip-ephem-wheel-cache-t8mg_gpc/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
08:46:05 Successfully built omero-cli-zarr
08:46:06 Installing collected packages: rangehttpserver, zipp, wrapt, toolz, tifffile, scipy, pydantic-core, propcache, numcodecs, networkx, multidict, locket, lazy-loader, jmespath, imageio, google-crc32c, fsspec, frozenlist, donfig, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, zarr, yarl, scikit-image, pydantic, partd, importlib_metadata, Deprecated, botocore, aiosignal, pydantic-zarr, dask, aiohttp, ome-zarr-models, aiobotocore, s3fs, ome-zarr, omero-cli-zarr
08:46:41 Attempting uninstall: pydantic-core
08:46:42 Found existing installation: pydantic_core 2.50.1
08:46:42 Uninstalling pydantic_core-2.50.1:
08:46:42 Successfully uninstalled pydantic_core-2.50.1
08:47:16 Attempting uninstall: pydantic
08:47:16 Found existing installation: pydantic 2.14.1
08:47:16 Uninstalling pydantic-2.14.1:
08:47:17 Successfully uninstalled pydantic-2.14.1
08:47:57
08:47:57 Successfully installed Deprecated-1.3.1 aiobotocore-3.9.2 aiohappyeyeballs-2.7.1 aiohttp-3.14.5 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.106 click-8.5.0 cloudpickle-3.1.2 dask-2026.8.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.9.0 google-crc32c-1.9.0 imageio-2.38.1 importlib_metadata-9.0.1 jmespath-1.1.0 lazy-loader-0.6 locket-1.0.0 multidict-6.9.1 networkx-3.6.1 numcodecs-0.16.5 ome-zarr-0.18.0 ome-zarr-models-1.7 omero-cli-zarr-0.5.5.dev186+gc66640b partd-1.4.2 propcache-0.5.4 pydantic-2.12.5 pydantic-core-2.41.5 pydantic-zarr-0.9.2 rangehttpserver-1.4.0 s3fs-2026.9.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.2.0 wrapt-2.5.1 yarl-1.25.1 zarr-3.1.6 zipp-4.1.1
08:47:57 + pip install omero-certificates
08:47:58 Collecting omero-certificates
08:47:58 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
08:47:58 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.23.0)
08:47:58 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
08:47:58 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
08:47:58 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
08:47:58 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (12.3.0)
08:47:58 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
08:47:58 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)
08:47:58 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
08:47:58 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (4.4.0)
08:47:58 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.5.2)
08:47:58 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.20)
08:47:58 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.8.0)
08:47:58 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.7.22)
08:47:58 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
08:47:59 Installing collected packages: omero-certificates
08:47:59 Successfully installed omero-certificates-0.4.0
08:47:59 + for x in *.tar.gz
08:47:59 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
08:48:00 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
08:48:00 Installing build dependencies: started
08:48:01 Installing build dependencies: finished with status 'done'
08:48:01 Getting requirements to build wheel: started
08:48:02 Getting requirements to build wheel: finished with status 'done'
08:48:02 Preparing metadata (pyproject.toml): started
08:48:02 Preparing metadata (pyproject.toml): finished with status 'done'
08:48:02 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.23.0)
08:48:02 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
08:48:02 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
08:48:02 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.6)
08:48:02 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (12.3.0)
08:48:02 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
08:48:02 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)
08:48:02 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
08:48:02 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (4.4.0)
08:48:02 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.5.2)
08:48:02 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.20)
08:48:02 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.8.0)
08:48:02 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.7.22)
08:48:02 Building wheels for collected packages: omero-dropbox
08:48:02 Building wheel for omero-dropbox (pyproject.toml): started
08:48:02 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
08:48:02 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49155 sha256=e9c224b0498f08c5b03dd9e72c8e6c54f1fa62dfa460d147ca1419d279a07fdc
08:48:02 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
08:48:02 Successfully built omero-dropbox
08:48:02 Installing collected packages: omero-dropbox
08:48:03 Successfully installed omero-dropbox-5.7.1.dev0
08:48:03 + for x in *.tar.gz
08:48:03 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
08:48:04 Processing ./omero_marshal-0.9.2.dev0.tar.gz
08:48:04 Installing build dependencies: started
08:48:05 Installing build dependencies: finished with status 'done'
08:48:05 Getting requirements to build wheel: started
08:48:06 Getting requirements to build wheel: finished with status 'done'
08:48:06 Preparing metadata (pyproject.toml): started
08:48:06 Preparing metadata (pyproject.toml): finished with status 'done'
08:48:06 Building wheels for collected packages: omero_marshal
08:48:06 Building wheel for omero_marshal (pyproject.toml): started
08:48:06 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
08:48:06 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88121 sha256=c7260eabc710af9d854413e015c459646d5fae8271a0dd3cbbe95f936698a993
08:48:06 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
08:48:06 Successfully built omero_marshal
08:48:06 Installing collected packages: omero_marshal
08:48:09 Successfully installed omero_marshal-0.9.2.dev0
08:48:09 + for x in *.tar.gz
08:48:09 + pip install -U omero_py-5.23.1.dev0.tar.gz
08:48:09 Processing ./omero_py-5.23.1.dev0.tar.gz
08:48:10 Installing build dependencies: started
08:48:11 Installing build dependencies: finished with status 'done'
08:48:11 Getting requirements to build wheel: started
08:48:11 Getting requirements to build wheel: finished with status 'done'
08:48:11 Preparing metadata (pyproject.toml): started
08:48:12 Preparing metadata (pyproject.toml): finished with status 'done'
08:48:12 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.4.4)
08:48:12 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.0.0)
08:48:12 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.4.6)
08:48:12 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (12.3.0)
08:48:12 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (6.0.3)
08:48:12 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (3.6.5)
08:48:12 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.34.2)
08:48:12 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (4.4.0)
08:48:12 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.5.2)
08:48:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.20)
08:48:12 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2.8.0)
08:48:12 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2026.7.22)
08:48:12 Building wheels for collected packages: omero-py
08:48:12 Building wheel for omero-py (pyproject.toml): started
08:48:13 Building wheel for omero-py (pyproject.toml): finished with status 'done'
08:48:13 Created wheel for omero-py: filename=omero_py-5.23.1.dev0-py3-none-any.whl size=2787194 sha256=77c0c0b9698f5ef68cecd46f940ce7c91f59c33d78c72298bc2816e254107f7f
08:48:13 Stored in directory: /home/omero/.cache/pip/wheels/99/0a/38/75d301c3c2feff37b61c572a590c9d07ab2e52df205857b74d
08:48:13 Successfully built omero-py
08:48:13 Installing collected packages: omero-py
08:48:13 Attempting uninstall: omero-py
08:48:13 Found existing installation: omero-py 5.23.0
08:48:14 Uninstalling omero-py-5.23.0:
08:48:25 Successfully uninstalled omero-py-5.23.0
08:48:41 Successfully installed omero-py-5.23.1.dev0
08:48:41 + for x in *.tar.gz
08:48:41 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
08:48:42 Processing ./omero_scripts-5.10.1.dev0.tar.gz
08:48:42 Installing build dependencies: started
08:48:43 Installing build dependencies: finished with status 'done'
08:48:43 Getting requirements to build wheel: started
08:48:44 Getting requirements to build wheel: finished with status 'done'
08:48:44 Preparing metadata (pyproject.toml): started
08:48:44 Preparing metadata (pyproject.toml): finished with status 'done'
08:48:44 Building wheels for collected packages: omero-scripts
08:48:44 Building wheel for omero-scripts (pyproject.toml): started
08:48:44 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
08:48:44 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137639 sha256=d1daa665129112ac857ce315553d350b22d535086b3ced3170e77fb285e726a0
08:48:44 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
08:48:44 Successfully built omero-scripts
08:48:45 Installing collected packages: omero-scripts
08:48:46 Successfully installed omero-scripts-5.10.1.dev0
08:48:46 + for x in *.tar.gz
08:48:46 + pip install -U omero_web-5.33.3.dev0.tar.gz
08:48:46 Processing ./omero_web-5.33.3.dev0.tar.gz
08:48:47 Installing build dependencies: started
08:48:48 Installing build dependencies: finished with status 'done'
08:48:48 Getting requirements to build wheel: started
08:48:48 Getting requirements to build wheel: finished with status 'done'
08:48:48 Preparing metadata (pyproject.toml): started
08:48:49 Preparing metadata (pyproject.toml): finished with status 'done'
08:48:49 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (5.23.1.dev0)
08:48:49 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.33.3.dev0)
08:48:49 Using cached concurrent_log_handler-0.9.30-py3-none-any.whl.metadata (29 kB)
08:48:49 Collecting Django<5.3,>=5.2.9 (from omero-web==5.33.3.dev0)
08:48:49 Using cached django-5.2.18-py3-none-any.whl.metadata (4.1 kB)
08:48:49 Collecting django-pipeline>=4.1.0 (from omero-web==5.33.3.dev0)
08:48:49 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
08:48:49 Collecting django-cors-headers==3.7.0 (from omero-web==5.33.3.dev0)
08:48:49 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
08:48:49 Collecting whitenoise>=5.3.0 (from omero-web==5.33.3.dev0)
08:48:49 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
08:48:50 Collecting gunicorn>=19.3 (from omero-web==5.33.3.dev0)
08:48:50 Using cached gunicorn-26.2.0-py3-none-any.whl.metadata (5.5 kB)
08:48:50 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (0.9.2.dev0)
08:48:50 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (12.3.0)
08:48:50 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (2026.5)
08:48:50 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (4.4.0)
08:48:50 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (26.3)
08:48:50 Collecting importlib-resources (from omero-web==5.33.3.dev0)
08:48:50 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
08:48:50 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.33.3.dev0)
08:48:50 Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
08:48:50 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.33.3.dev0)
08:48:50 Using cached sqlparse-0.6.0-py3-none-any.whl.metadata (6.0 kB)
08:48:50 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.33.3.dev0) (65.5.1)
08:48:50 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.33.3.dev0)
08:48:50 Using cached wheel-0.48.0-py3-none-any.whl.metadata (2.3 kB)
08:48:50 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (1.4.4)
08:48:50 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (1.0.0)
08:48:50 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (2.4.6)
08:48:50 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (6.0.3)
08:48:50 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==5.33.3.dev0) (3.6.5)
08:48:50 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (2.34.2)
08:48:50 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.5.2)
08:48:50 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.20)
08:48:50 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (2.8.0)
08:48:50 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (2026.7.22)
08:48:50 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
08:48:50 Using cached django-5.2.18-py3-none-any.whl (8.3 MB)
08:48:50 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
08:48:50 Using cached concurrent_log_handler-0.9.30-py3-none-any.whl (35 kB)
08:48:50 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
08:48:50 Using cached gunicorn-26.2.0-py3-none-any.whl (228 kB)
08:48:50 Using cached sqlparse-0.6.0-py3-none-any.whl (50 kB)
08:48:50 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
08:48:51 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
08:48:51 Using cached wheel-0.48.0-py3-none-any.whl (33 kB)
08:48:51 Building wheels for collected packages: omero-web
08:48:51 Building wheel for omero-web (pyproject.toml): started
08:48:52 Building wheel for omero-web (pyproject.toml): finished with status 'done'
08:48:52 Created wheel for omero-web: filename=omero_web-5.33.3.dev0-py3-none-any.whl size=2821710 sha256=d5a540165e991487ec3edd731ebcc0ca9928fe7e8bdcad1854ea9b864811df86
08:48:52 Stored in directory: /home/omero/.cache/pip/wheels/f9/cc/88/86aa2065a36d21a568dcadc16454372077670d9ca1a7b14a82
08:48:52 Successfully built omero-web
08:48:52 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
08:49:59
08:49:59 Successfully installed Django-5.2.18 asgiref-3.12.1 concurrent-log-handler-0.9.30 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.2.0 importlib-resources-7.1.0 omero-web-5.33.3.dev0 sqlparse-0.6.0 wheel-0.48.0 whitenoise-6.12.0
08:49:59 + omero config set omero.db.name OMERO-server
08:50:07 + omero config set omero.db.host pg
08:50:12 + omero config set omero.db.user postgres
08:50:17 + omero config set omero.data.dir /home/omero/omero-server-data
08:50:23 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
08:50:27 + omero config set omero.db.poolsize 25
08:50:33 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
08:50:38 + omero config set omero.security.trustStorePassword changeit
08:50:42 + omero config set omero.mail.config true
08:50:48 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
08:50:53 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
08:50:57 + omero certificates
08:51:02 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
08:51:02 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
08:51:02 + '[' false = true ']'
08:51:02 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
08:51:02 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
08:51:02 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
08:51:03 2026-10-14 08:51:03,032 [ omego.db] DEBUG dbcommand => upgrade
08:51:03 2026-10-14 08:51:03,032 [ omego.db] DEBUG dbhost => localhost
08:51:03 2026-10-14 08:51:03,032 [ omego.db] DEBUG dbname => OMERO-server
08:51:03 2026-10-14 08:51:03,032 [ omego.db] DEBUG dbpass => omero
08:51:03 2026-10-14 08:51:03,032 [ omego.db] DEBUG dbuser => omero
08:51:03 2026-10-14 08:51:03,032 [ omego.db] DEBUG rootpass => omero
08:51:03 2026-10-14 08:51:03,033 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
08:51:03 2026-10-14 08:51:03,033 [omego.extern] INFO Executing : omero version
08:51:07 OMERO.py version:
08:51:07 OMERO.server version:
08:51:07 5.6.3-689-547cc34433-ice36-b109
08:51:07 5.23.1.dev0
08:51:07 2026-10-14 08:51:07,993 [omego.extern] INFO Completed [4.960 s]
08:51:07 2026-10-14 08:51:07,993 [omego.extern] DEBUG Using omero CLI from omero
08:51:07 2026-10-14 08:51:07,993 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
08:51:07 2026-10-14 08:51:07,993 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:51:07 2026-10-14 08:51:07,993 [omego.extern] INFO Executing : omero config get --show-password
08:51:12 2026-10-14 08:51:12,974 [omego.extern] INFO Completed [4.981 s]
08:51:12 2026-10-14 08:51:12,974 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:51:12 2026-10-14 08:51:12,975 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
08:51:13 2026-10-14 08:51:13,067 [omego.extern] INFO Completed [0.093 s]
08:51:13 2026-10-14 08:51:13,067 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
08:51:13 2026-10-14 08:51:13,067 [ omego.db] INFO psql version: psql (PostgreSQL) 16.14
08:51:13
08:51:13 2026-10-14 08:51:13,067 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:51:13 2026-10-14 08:51:13,067 [omego.extern] INFO Executing : omero config get --show-password
08:51:18 2026-10-14 08:51:18,054 [omego.extern] INFO Completed [4.986 s]
08:51:18 2026-10-14 08:51:18,054 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:51:18 2026-10-14 08:51:18,054 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
08:51:18 2026-10-14 08:51:18,092 [omego.extern] INFO Completed [0.038 s]
08:51:18 2026-10-14 08:51:18,092 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.5") at port "5432".\n'
08:51:18 2026-10-14 08:51:18,092 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
08:51:18 2026-10-14 08:51:18,092 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:51:18 2026-10-14 08:51:18,092 [omego.extern] INFO Executing : omero config get --show-password
08:51:23 2026-10-14 08:51:23,443 [omego.extern] INFO Completed [5.351 s]
08:51:23 2026-10-14 08:51:23,443 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:51:23 2026-10-14 08:51:23,443 [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
08:51:23 2026-10-14 08:51:23,465 [omego.extern] INFO Completed [0.022 s]
08:51:23 2026-10-14 08:51:23,465 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
08:51:23 2026-10-14 08:51:23,465 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
08:51:23 2026-10-14 08:51:23,523 [ omego.db] INFO Database is already at OMERO5.4__0
08:51:23 + export LANG=en_US.UTF-8
08:51:23 + LANG=en_US.UTF-8
08:51:23 + export LANGUAGE=en_US:en
08:51:23 + LANGUAGE=en_US:en
08:51:23 + export LC_ALL=en_US.UTF-8
08:51:23 + LC_ALL=en_US.UTF-8
08:51:23 + BUILD_ID=DONT_KILL_ME
08:51:23 + omero admin start
08:51:35 No descriptor given. Using etc/grid/default.xml
08:51:46 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
08:51:46 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
08:51:46 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
08:51:46 Waiting on startup. Use CTRL-C to exit
08:51:47 + omero admin waitup
08:51:53 Waiting on startup. Use CTRL-C to exit
08:51:54 + omero admin diagnostics
08:51:59
08:51:59 ================================================================================
08:51:59 OMERO Diagnostics (admin)
08:51:59 ================================================================================
08:51:59
08:51:59 Commands: java -version 21.0.12 (/usr/bin/java)
08:51:59 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
08:51:59 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
08:51:59 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
08:51:59 Commands: psql --version 16.14 (/usr/bin/psql)
08:51:59 Commands: openssl version 3.5.527 (/usr/bin/openssl)
08:51:59
08:51:59 Component: OMERO.py 5.23.1.dev0
08:51:59 Component: OMERO.server 5.6.3-689-547cc34433-ice36-b109
08:51:59
08:51:59 Server: icegridnode running
08:51:59 Server: Blitz-0 active (pid = 5203, enabled)
08:51:59 Server: Indexer-0 active (pid = 5234, enabled)
08:51:59 Server: OMERO.Glacier2 active (pid = 5222, enabled)
08:51:59 Server: OMERO.IceStorm active (pid = 5251, enabled)
08:51:59 Server: Processor-0 active (pid = 5235, enabled)
08:51:59 Server: Tables-0 active (pid = 5227, enabled)
08:51:59
08:51:59 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
08:51:59 Log files: Blitz-0.log 32.7 KB errors=0 warnings=1
08:51:59 Log files: DropBox.log n/a
08:51:59 Log files: FileServer.log n/a
08:51:59 Log files: Indexer-0.log 2.6 KB
08:51:59 Log files: MonitorServer.log n/a
08:51:59 Log files: Processor-0.log 735 B
08:51:59 Log files: Tables-0.log 961 B
08:51:59 Log files: TestDropBox.log n/a
08:51:59 Log files: master.err empty
08:51:59 Log files: master.out 30.7 KB
08:51:59 Log files: Total size 0.07 MB
08:51:59
08:51:59
08:51:59 Environment:OMERO_HOME=(unset)
08:51:59 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:51:59 Environment:OMERO_NODE=(unset)
08:51:59 Environment:OMERO_MASTER=(unset)
08:51:59 Environment:OMERO_USERDIR=(unset)
08:51:59 Environment:OMERO_TMPDIR=(unset)
08:51:59 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
08:51:59 Environment:PYTHONPATH=(unset)
08:51:59 Environment:ICE_HOME=/opt/ice-3.6.5
08:51:59 Environment:LD_LIBRARY_PATH=(unset)
08:51:59 Environment:DYLD_LIBRARY_PATH=(unset)
08:51:59
08:51:59 OMERO SSL port:4064
08:51:59 OMERO TCP port:4063
08:51:59 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
08:51:59 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
08:51:59
08:51:59 JVM settings: Blitz-${index} -Xmx5007m
08:51:59 JVM settings: Indexer-${index} -Xmx3338m
08:51:59 JVM settings: PixelData-${index} -Xmx5007m
08:51:59 JVM settings: Repository-${index} -Xmx3338m
08:51:59
08:51:59 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
08:51:59 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
08:51:59 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
08:51:59 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3 26 February 2026 70fd9b72a9834f1af4852c1e5b5676c57a2c360e
08:51:59 Jar: lib/server/ome-common.jar OME Common Java 6.2.1 27 February 2026 a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
08:51:59 Jar: lib/server/ome-jai.jar OME JAI 0.1.5 30 June 2025 257a1c1410c0103485248d05752a5174262a38b6
08:51:59 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4 25 June 2025 57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
08:51:59 Jar: lib/server/ome-poi.jar OME POI 5.3.11 11 November 2025 a2f3944ac71db9e7e51a6f64ec46beeb60613afb
08:51:59 Jar: lib/server/ome-xml.jar OME XML library 6.5.3 22 January 2026 21d1362abd9ce26e13888d2b2d028753d21ac96e
08:51:59 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT
08:51:59 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
08:51:59 Jar: lib/server/omero-gateway.jar jar 5.11.1-SNAPSHOT
08:51:59 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
08:51:59 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
08:51:59 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
08:51:59 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT
08:51:59 Jar: lib/server/omero-zarr-pixel-buffer.jar OMERO Zarr Pixel Buffer 0.7.2-SNAPSHOT b6d1a37b17d0ee0011fe852f2cf6fa1ff5a44ec2
08:52:00 + deactivate
08:52:00 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
08:52:00 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:52:00 + export PATH
08:52:00 + unset _OLD_VIRTUAL_PATH
08:52:00 + '[' -n '' ']'
08:52:00 + hash -r
08:52:00 + '[' -n '' ']'
08:52:00 + unset VIRTUAL_ENV
08:52:00 + unset VIRTUAL_ENV_PROMPT
08:52:00 + '[' '!' '' = nondestructive ']'
08:52:00 + unset -f deactivate
08:52:00 Finished: SUCCESS
