23:59:22 Started by upstream project "Trigger" build number 137
23:59:22 originally caused by:
23:59:22 Started by timer
23:59:22 Running as SYSTEM
23:59:22 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
23:59:22 [OMERO-server] $ /bin/bash -xe /tmp/jenkins13690212610637537617.sh
23:59:23 + source /home/settings.env
23:59:23 ++ OMERO_DB_HOST=pg
23:59:23 ++ OMERO_DB_USER=postgres
23:59:23 ++ OMERO_DB_PASS=
23:59:23 ++ OMERO_ROOT_PASS=omero
23:59:23 ++ OMERO_DATA_DIR=/OMERO
23:59:23 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
23:59:23 + OMERO_DB_NAME=OMERO-server
23:59:23 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
23:59:23 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
23:59:23 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
23:59:23 + OMERO_DATA_DIR=/home/omero/omero-server-data
23:59:23 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
23:59:23 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
23:59:23 ++ deactivate nondestructive
23:59:23 ++ '[' -n '' ']'
23:59:23 ++ '[' -n '' ']'
23:59:23 ++ hash -r
23:59:23 ++ '[' -n '' ']'
23:59:23 ++ unset VIRTUAL_ENV
23:59:23 ++ unset VIRTUAL_ENV_PROMPT
23:59:23 ++ '[' '!' nondestructive = nondestructive ']'
23:59:23 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
23:59:23 ++ export VIRTUAL_ENV
23:59:23 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
23:59:23 ++ 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
23:59:23 ++ export PATH
23:59:23 ++ '[' -n '' ']'
23:59:23 ++ '[' -z '' ']'
23:59:23 ++ _OLD_VIRTUAL_PS1=
23:59:23 ++ PS1='(.venv3) '
23:59:23 ++ export PS1
23:59:23 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
23:59:23 ++ export VIRTUAL_ENV_PROMPT
23:59:23 ++ hash -r
23:59:23 + omero admin stop
00:00:01 Waiting on shutdown. Use CTRL-C to exit
00:00:01 .+ sleep 5
00:00:17 + deactivate
00:00:17 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:00:17 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:00:17 + export PATH
00:00:17 + unset _OLD_VIRTUAL_PATH
00:00:17 + '[' -n '' ']'
00:00:17 + hash -r
00:00:17 + '[' -n '' ']'
00:00:17 + unset VIRTUAL_ENV
00:00:17 + unset VIRTUAL_ENV_PROMPT
00:00:17 + '[' '!' '' = nondestructive ']'
00:00:17 + unset -f deactivate
00:00:17 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:04:02 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
00:04:22 + '[' false = true ']'
00:04:22 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:04:22 Skipping PURGE_DATA:CleanDbAndRepo
00:04:22 + 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
00:04:30 Copied 1 artifact from "OMERO-build" build number 117
00:04:31 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 107
00:04:31 Copied 2 artifacts from "OMERO-build-build" build number 119
00:04:31 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7706067039209190731.sh
00:04:31 + source /home/settings.env
00:04:31 ++ OMERO_DB_HOST=pg
00:04:31 ++ OMERO_DB_USER=postgres
00:04:31 ++ OMERO_DB_PASS=
00:04:31 ++ OMERO_ROOT_PASS=omero
00:04:31 ++ OMERO_DATA_DIR=/OMERO
00:04:31 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:04:31 + OMERO_DB_NAME=OMERO-server
00:04:31 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:04:31 + mkdir -p /home/omero/omero-server-data
00:04:31 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:04:31 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:04:31 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:04:31 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:04:31 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:04:31 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:04:31 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:04:31 ++ ls OMERO.server-5.6.3-689-429af68cc6-ice36-b117.zip
00:04:31 + ZIP=OMERO.server-5.6.3-689-429af68cc6-ice36-b117.zip
00:04:31 + '[' '!' -z '' ']'
00:04:31 + DIST=OMERO.server-5.6.3-689-429af68cc6-ice36-b117
00:04:31 + unzip OMERO.server-5.6.3-689-429af68cc6-ice36-b117.zip
00:04:31 Archive: OMERO.server-5.6.3-689-429af68cc6-ice36-b117.zip
00:04:31 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/
00:04:31 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/
00:04:31 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/blitz/
00:04:31 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/grid/
00:04:31 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/profiles/
00:04:31 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/error/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/grid/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/luts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/luts/janelia/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/luts/matplotlib/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/luts/ncsa_paledit/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/luts/seaborn/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/luts/wcif/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/analysis_scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/annotation_scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/export_scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/figure_scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/import_scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/scripts/omero/util_scripts/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/server/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/misc/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__1/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__10/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__11/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__2/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__3/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__4/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__5/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__6/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__7/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__8/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__9/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__4/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__5/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__6/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__7/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.1__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.2__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.2__0/t/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.3__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.4__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.0__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.1__1/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.2__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4DEV__1/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4DEV__2/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4DEV__3/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/var/
00:04:32 creating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/var/tmp/
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/LICENSE.txt
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/backup.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/blitz/mail-senders.example
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/blitz/mail-server.example
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/build.properties
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/env.bat
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/env.sh
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/hibernate.properties
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/ice.config
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/logback-cli.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/logback-indexing-cli.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/logback-indexing.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/logback.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/mime.types
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/node1.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/node2.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/omero.properties
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/profiles/psql
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/rollover.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/Windows.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/error/maintainance.html
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/grid/README
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/grid/default.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/grid/templates.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/grid/windefault.xml
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/ice.config
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/internal.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/master.cfg
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/templates/robot.template
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/etc/testdropbox.config
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/history.rst
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/accessors-smart.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/activation.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/aggdesigner-algorithm.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/aircompressor.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/annotations.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/antlr.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/aopalliance.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/apache-client.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/apiguardian-api.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/arns.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/asm.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/auth.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/avatica-core.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/avatica-metrics.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/aws-core.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/aws-query-protocol.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/aws-xml-protocol.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/base.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-anim.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-awt-util.jar
00:04:32 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-bridge.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-codec.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-constants.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-css.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-dom.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-ext.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-gvt.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-i18n.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-parser.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-script.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-shared-resources.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-svg-dom.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-svggen.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-transcoder.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-util.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/batik-xml.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/blosc-java.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/btm.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/caffeine.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/calcite-core.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/calcite-linq4j.jar
00:04:33 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/lib/client/cdm-core.jar
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00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/gtest.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/iconsweets_license.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/jamon.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/jmock.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/jquery.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/jtidy.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/lgpl-3.0.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/lgpl-v2.0.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/lgpl-v2.1.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/lgpl-v3.0.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/lgpl.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/matplotlib.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/mit.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/mpl-v1_0.htm
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/npl-1_1.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/path.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/pil.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/postgresql.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/psf-v2.0.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/psf-v2.5.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/scons.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/slf4j.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/tablelayout.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/which.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/zlib-libpng.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/share/licenses/zpl-v2.1.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/README.txt
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/misc/Makefile
00:04:49 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/misc/current.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/misc/enums.py
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__1/OMERO3__7.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__10/OMERO3A__9.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__11/OMERO3A__10.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__11/OMERO3A__5.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__2/OMERO3A__1.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__3/OMERO3A__2.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__3/OMERO3__5.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__4/OMERO3A__3.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__4/OMERO3__5.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__5/OMERO3A__4.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__6/OMERO3A__5.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__7/OMERO3A__6.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__8/OMERO3A__6.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3A__9/OMERO3A__8.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__4/OMERO3__1.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__5/OMERO3__4.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__6/OMERO3__5.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO3__7/OMERO3__6.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.1__0/OMERO4__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO4__0/OMERO3A__11.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/psql-footer.sql
00:04:50 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/psql-header.sql
00:04:51 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/schema.sql
00:04:51 inflating: OMERO.server-5.6.3-689-429af68cc6-ice36-b117/sql/psql/OMERO5.4__0/views.sql
00:04:51 + rm -f OMERO.server-5.6.3-689-429af68cc6-ice36-b117.zip
00:04:51 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-689-429af68cc6-ice36-b117 /home/omero/workspace/OMERO-server/OMERO.server
00:04:51 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:04:51 ++ deactivate nondestructive
00:04:51 ++ '[' -n '' ']'
00:04:51 ++ '[' -n '' ']'
00:04:51 ++ hash -r
00:04:51 ++ '[' -n '' ']'
00:04:51 ++ unset VIRTUAL_ENV
00:04:51 ++ unset VIRTUAL_ENV_PROMPT
00:04:51 ++ '[' '!' nondestructive = nondestructive ']'
00:04:51 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:04:51 ++ export VIRTUAL_ENV
00:04:51 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:04:51 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:04:51 ++ export PATH
00:04:51 ++ '[' -n '' ']'
00:04:51 ++ '[' -z '' ']'
00:04:51 ++ _OLD_VIRTUAL_PS1=
00:04:51 ++ PS1='(.venv3) '
00:04:51 ++ export PS1
00:04:51 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:04:51 ++ export VIRTUAL_ENV_PROMPT
00:04:51 ++ hash -r
00:04:51 + pip install -U pip
00:04:52 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
00:04:52 Collecting pip
00:04:52 Using cached pip-26.2.2-py3-none-any.whl (1.8 MB)
00:04:52 Installing collected packages: pip
00:04:52 Attempting uninstall: pip
00:04:52 Found existing installation: pip 22.3.1
00:04:53 Uninstalling pip-22.3.1:
00:04:53 Successfully uninstalled pip-22.3.1
00:05:08 Successfully installed pip-26.2.2
00:05:08 WARNING: There was an error checking the latest version of pip.
00:05:08 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
00:05:09 Collecting zeroc-ice==3.6.5
00:05:09 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
00:05:12 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 15.5 MB/s 0:00:02
00:05:12 Installing collected packages: zeroc-ice
00:05:15 Successfully installed zeroc-ice-3.6.5
00:05:15 + pip install markdown
00:05:16 Collecting markdown
00:05:16 Using cached markdown-3.11.2-py3-none-any.whl.metadata (5.1 kB)
00:05:16 Using cached markdown-3.11.2-py3-none-any.whl (114 kB)
00:05:16 Installing collected packages: markdown
00:05:17 Successfully installed markdown-3.11.2
00:05:17 + pip install reportlab
00:05:18 Collecting reportlab
00:05:18 Using cached reportlab-5.0.1-py3-none-any.whl.metadata (1.6 kB)
00:05:19 Collecting pillow>=9.0.0 (from reportlab)
00:05:19 Using cached pillow-13.0.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
00:05:19 Collecting charset-normalizer (from reportlab)
00:05:19 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)
00:05:19 Using cached reportlab-5.0.1-py3-none-any.whl (2.0 MB)
00:05:19 Using cached pillow-13.0.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.1 MB)
00:05:19 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)
00:05:19 Installing collected packages: pillow, charset-normalizer, reportlab
00:05:28
00:05:28 Successfully installed charset-normalizer-3.5.2 pillow-13.0.0 reportlab-5.0.1
00:05:28 + pip install pyarrow
00:05:29 Collecting pyarrow
00:05:29 Using cached pyarrow-26.0.0-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB)
00:05:29 Using cached pyarrow-26.0.0-cp311-cp311-manylinux_2_28_x86_64.whl (53.9 MB)
00:05:29 Installing collected packages: pyarrow
00:05:39 Successfully installed pyarrow-26.0.0
00:05:39 + pip install omego
00:05:40 Collecting omego
00:05:40 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
00:05:41 Collecting future (from omego)
00:05:41 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
00:05:41 Collecting yaclifw>=0.1.1 (from omego)
00:05:41 Using cached yaclifw-0.2.0-py3-none-any.whl
00:05:41 Collecting six (from yaclifw>=0.1.1->omego)
00:05:41 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:05:41 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
00:05:41 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:05:41 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:05:41 Installing collected packages: six, future, yaclifw, omego
00:05:47
00:05:47 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
00:05:47 + pip install tables
00:05:48 Collecting tables
00:05:48 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)
00:05:48 Collecting numpy>=1.20.0 (from tables)
00:05:48 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
00:05:48 Collecting numexpr>=2.6.2 (from tables)
00:05:48 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
00:05:48 Collecting packaging (from tables)
00:05:48 Using cached packaging-26.3-py3-none-any.whl.metadata (3.5 kB)
00:05:49 Collecting py-cpuinfo (from tables)
00:05:49 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:05:49 Collecting blosc2>=2.3.0 (from tables)
00:05:49 Using cached blosc2-4.14.1-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.0 kB)
00:05:49 Collecting ndindex (from blosc2>=2.3.0->tables)
00:05:49 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
00:05:49 Collecting msgpack (from blosc2>=2.3.0->tables)
00:05:49 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)
00:05:50 Collecting pydantic (from blosc2>=2.3.0->tables)
00:05:50 Using cached pydantic-2.14.1-py3-none-any.whl.metadata (133 kB)
00:05:50 Collecting httpx[http2] (from blosc2>=2.3.0->tables)
00:05:50 Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB)
00:05:50 Collecting rich (from blosc2>=2.3.0->tables)
00:05:50 Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
00:05:50 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
00:05:50 Using cached threadpoolctl-3.7.0-py3-none-any.whl.metadata (24 kB)
00:05:50 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables)
00:05:50 Using cached anyio-4.15.1-py3-none-any.whl.metadata (4.7 kB)
00:05:51 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables)
00:05:51 Using cached certifi-2026.10.19-py3-none-any.whl.metadata (2.5 kB)
00:05:51 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables)
00:05:51 Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB)
00:05:51 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables)
00:05:51 Using cached idna-3.20-py3-none-any.whl.metadata (7.2 kB)
00:05:51 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables)
00:05:51 Using cached h2-4.4.1-py3-none-any.whl.metadata (3.8 kB)
00:05:51 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
00:05:51 Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB)
00:05:51 Collecting hpack<5,>=4.2 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
00:05:52 Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB)
00:05:52 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables)
00:05:52 Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
00:05:52 Collecting typing_extensions>=4.16.0 (from anyio->httpx[http2]->blosc2>=2.3.0->tables)
00:05:52 Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
00:05:52 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
00:05:52 Using cached annotated_types-0.8.0-py3-none-any.whl.metadata (15 kB)
00:05:53 Collecting pydantic-core==2.50.1 (from pydantic->blosc2>=2.3.0->tables)
00:05:53 Using cached pydantic_core-2.50.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.5 kB)
00:05:53 Collecting typing-inspection>=0.4.4 (from pydantic->blosc2>=2.3.0->tables)
00:05:53 Using cached typing_inspection-0.4.4-py3-none-any.whl.metadata (2.6 kB)
00:05:53 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
00:05:53 Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
00:05:53 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
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00:05:54 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
00:05:54 Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
00:05:54 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)
00:05:54 Using cached blosc2-4.14.1-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.7 MB)
00:05:54 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB)
00:05:54 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
00:05:54 Using cached httpx-0.28.1-py3-none-any.whl (73 kB)
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00:05:55 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
00:05:55 Using cached certifi-2026.10.19-py3-none-any.whl (136 kB)
00:05:55 Using cached msgpack-1.2.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (477 kB)
00:05:55 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
00:05:55 Using cached packaging-26.3-py3-none-any.whl (129 kB)
00:05:55 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:05:55 Using cached pydantic-2.14.1-py3-none-any.whl (488 kB)
00:05:55 Using cached pydantic_core-2.50.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.2 MB)
00:05:55 Using cached annotated_types-0.8.0-py3-none-any.whl (13 kB)
00:05:55 Using cached typing_inspection-0.4.4-py3-none-any.whl (14 kB)
00:05:55 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
00:05:55 Using cached pygments-2.21.0-py3-none-any.whl (1.3 MB)
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00:05:55 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
00:05:55 Using cached threadpoolctl-3.7.0-py3-none-any.whl (26 kB)
00:05:56 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
00:06:45
00:06:45 Successfully installed annotated-types-0.8.0 anyio-4.15.1 blosc2-4.14.1 certifi-2026.10.19 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
00:06:45 + pip install jinja2
00:06:46 Collecting jinja2
00:06:46 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
00:06:47 Collecting MarkupSafe>=2.0 (from jinja2)
00:06:47 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)
00:06:47 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
00:06:47 Using cached markupsafe-3.0.4-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
00:06:47 Installing collected packages: MarkupSafe, jinja2
00:06:48
00:06:48 Successfully installed MarkupSafe-3.0.4 jinja2-3.1.6
00:06:48 + pip install omero-py
00:06:49 Collecting omero-py
00:06:49 Using cached omero_py-5.23.0-py3-none-any.whl.metadata (6.5 kB)
00:06:49 Collecting appdirs (from omero-py)
00:06:49 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:06:49 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
00:06:49 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
00:06:49 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (13.0.0)
00:06:50 Collecting PyYAML (from omero-py)
00:06:50 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.4 kB)
00:06:50 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
00:06:50 Collecting requests (from omero-py)
00:06:50 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
00:06:50 Collecting portalocker (from omero-py)
00:06:50 Using cached portalocker-4.4.1-py3-none-any.whl.metadata (10 kB)
00:06:50 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.5.2)
00:06:50 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.20)
00:06:50 Collecting urllib3<3,>=1.26 (from requests->omero-py)
00:06:50 Using cached urllib3-2.8.0-py3-none-any.whl.metadata (7.4 kB)
00:06:50 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.10.19)
00:06:50 Using cached omero_py-5.23.0-py3-none-any.whl (2.8 MB)
00:06:50 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:06:50 Using cached portalocker-4.4.1-py3-none-any.whl (129 kB)
00:06:50 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
00:06:51 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
00:06:51 Using cached urllib3-2.8.0-py3-none-any.whl (135 kB)
00:06:51 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
00:07:11
00:07:11 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.23.0 portalocker-4.4.1 requests-2.34.2 urllib3-2.8.0
00:07:11 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:07:12 Collecting omero-metadata
00:07:12 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-udoocdgk/omero-metadata_254979a32f464b2ea28cebae69c6be22
00:07:12 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-udoocdgk/omero-metadata_254979a32f464b2ea28cebae69c6be22
00:07:13 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit afa82f08dd4b373d3db5d4736dd7d4fa45c6b3e7
00:07:13 Installing build dependencies: started
00:07:14 Installing build dependencies: finished with status 'done'
00:07:14 Getting requirements to build wheel: started
00:07:15 Getting requirements to build wheel: finished with status 'done'
00:07:15 Preparing metadata (pyproject.toml): started
00:07:15 Preparing metadata (pyproject.toml): finished with status 'done'
00:07:15 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.23.0)
00:07:15 Collecting pandas<3,>=2 (from omero-metadata)
00:07:15 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
00:07:15 Requirement already satisfied: numpy>=1.23.2 in ./.venv3/lib64/python3.11/site-packages (from pandas<3,>=2->omero-metadata) (2.4.6)
00:07:15 Collecting python-dateutil>=2.8.2 (from pandas<3,>=2->omero-metadata)
00:07:16 Downloading python_dateutil-3.0.0-py2.py3-none-any.whl.metadata (8.2 kB)
00:07:16 Collecting pytz>=2020.1 (from pandas<3,>=2->omero-metadata)
00:07:16 Using cached pytz-2026.5-py2.py3-none-any.whl.metadata (22 kB)
00:07:16 Collecting tzdata>=2022.7 (from pandas<3,>=2->omero-metadata)
00:07:16 Using cached tzdata-2026.5-py2.py3-none-any.whl.metadata (1.4 kB)
00:07:16 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:07:16 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:07:16 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (13.0.0)
00:07:16 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (6.0.3)
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00:07:16 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
00:07:16 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (4.4.1)
00:07:16 Requirement already satisfied: six>=1.6 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas<3,>=2->omero-metadata) (1.17.0)
00:07:16 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)
00:07:16 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)
00:07:16 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)
00:07:16 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.10.19)
00:07:16 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
00:07:16 Downloading python_dateutil-3.0.0-py2.py3-none-any.whl (94 kB)
00:07:16 Using cached pytz-2026.5-py2.py3-none-any.whl (506 kB)
00:07:16 Using cached tzdata-2026.5-py2.py3-none-any.whl (347 kB)
00:07:17 Building wheels for collected packages: omero-metadata
00:07:17 Building wheel for omero-metadata (pyproject.toml): started
00:07:17 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:07:17 Created wheel for omero-metadata: filename=omero_metadata-0.14.1.dev0-py3-none-any.whl size=39360 sha256=1fe4c29a80df2e414369f2fcde72a0c129e4faf3d0fbc6c571409675aa73b138
00:07:17 Stored in directory: /tmp/pip-ephem-wheel-cache-05f8pois/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
00:07:17 Successfully built omero-metadata
00:07:17 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:08:05
00:08:05 Successfully installed omero-metadata-0.14.1.dev0 pandas-2.3.3 python-dateutil-3.0.0 pytz-2026.5 tzdata-2026.5
00:08:05 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:08:06 Collecting omero-cli-render
00:08:06 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-t4km4uek/omero-cli-render_e7f37de39a8a4baf91d2e5d1999e11c8
00:08:06 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-t4km4uek/omero-cli-render_e7f37de39a8a4baf91d2e5d1999e11c8
00:08:07 Running command git checkout -b merge_ci --track origin/merge_ci
00:08:07 Switched to a new branch 'merge_ci'
00:08:07 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:08:07 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 2e7ba0b570ccd8178c42726985419fc1dc105e66
00:08:07 Installing build dependencies: started
00:08:08 Installing build dependencies: finished with status 'done'
00:08:08 Getting requirements to build wheel: started
00:08:09 Getting requirements to build wheel: finished with status 'done'
00:08:09 Preparing metadata (pyproject.toml): started
00:08:09 Preparing metadata (pyproject.toml): finished with status 'done'
00:08:09 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
00:08:09 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.23.0)
00:08:09 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:08:09 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:08:09 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)
00:08:09 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (13.0.0)
00:08:09 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:08:09 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
00:08:09 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (4.4.1)
00:08:09 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)
00:08:09 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)
00:08:09 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)
00:08:09 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.10.19)
00:08:09 Building wheels for collected packages: omero-cli-render
00:08:09 Building wheel for omero-cli-render (pyproject.toml): started
00:08:09 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:08:09 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=ab9e01187384dbafc6ff548e2872e17bab1b430d9f98493372070c6506aa0d5e
00:08:09 Stored in directory: /tmp/pip-ephem-wheel-cache-n5cd84fb/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
00:08:09 Successfully built omero-cli-render
00:08:09 Installing collected packages: omero-cli-render
00:08:10 Successfully installed omero-cli-render-0.8.2.dev0
00:08:10 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:08:10 Collecting omero-cli-duplicate
00:08:10 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-fels9_0x/omero-cli-duplicate_31a0e7fbabae4e58bbbf99ecb0c2f538
00:08:10 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-fels9_0x/omero-cli-duplicate_31a0e7fbabae4e58bbbf99ecb0c2f538
00:08:12 Running command git checkout -b merge_ci --track origin/merge_ci
00:08:12 Switched to a new branch 'merge_ci'
00:08:12 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:08:12 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit c7c1a0923c353507665745404ba9ee1130c3bf26
00:08:12 Installing build dependencies: started
00:08:13 Installing build dependencies: finished with status 'done'
00:08:13 Getting requirements to build wheel: started
00:08:13 Getting requirements to build wheel: finished with status 'done'
00:08:13 Preparing metadata (pyproject.toml): started
00:08:14 Preparing metadata (pyproject.toml): finished with status 'done'
00:08:14 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.23.0)
00:08:14 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:08:14 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:08:14 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
00:08:14 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (13.0.0)
00:08:14 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
00:08:14 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:08:14 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
00:08:14 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (4.4.1)
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00:08:14 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.10.19)
00:08:14 Building wheels for collected packages: omero-cli-duplicate
00:08:14 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:08:14 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:08:14 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11538 sha256=9fc05ce07420d567f8c8db26ab9eb4aca0ff05d86eaff6ec6dfc414556e802c1
00:08:14 Stored in directory: /tmp/pip-ephem-wheel-cache-1mv3u4q0/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
00:08:14 Successfully built omero-cli-duplicate
00:08:14 Installing collected packages: omero-cli-duplicate
00:08:14 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:08:14 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
00:08:15 Collecting omero-cli-zarr
00:08:15 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-jb2moojt/omero-cli-zarr_b3b31cc8751347d3a5fcaf896a6bf3a4
00:08:15 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-jb2moojt/omero-cli-zarr_b3b31cc8751347d3a5fcaf896a6bf3a4
00:08:16 Running command git checkout -b merge_ci --track origin/merge_ci
00:08:17 Switched to a new branch 'merge_ci'
00:08:17 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:08:17 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 2a089fa2e61b1ab2c3e6731f59f9abacbf5323cb
00:08:17 Installing build dependencies: started
00:08:18 Installing build dependencies: finished with status 'done'
00:08:18 Getting requirements to build wheel: started
00:08:18 Getting requirements to build wheel: finished with status 'done'
00:08:18 Installing backend dependencies: started
00:08:20 Installing backend dependencies: finished with status 'done'
00:08:20 Preparing metadata (pyproject.toml): started
00:08:20 Preparing metadata (pyproject.toml): finished with status 'done'
00:08:20 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.23.0)
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00:08:20 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6)
00:08:20 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
00:08:20 Using cached dask-2026.8.0-py3-none-any.whl.metadata (3.8 kB)
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00:08:21 Using cached fsspec-2026.9.0-py3-none-any.whl.metadata (10 kB)
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00:08:21 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)
00:08:22 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
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00:08:22 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
00:08:22 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
00:08:22 Using cached toolz-1.2.0-py3-none-any.whl.metadata (5.2 kB)
00:08:22 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
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00:08:22 Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB)
00:08:22 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
00:08:22 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
00:08:22 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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00:08:23 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
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00:08:23 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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00:08:23 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)
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00:08:23 Downloading zipp-4.1.2-py3-none-any.whl.metadata (3.6 kB)
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00:08:24 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)
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00:08:24 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
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00:08:24 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)
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00:08:27 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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00:08:31 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
00:08:31 Using cached imageio-2.38.1-py3-none-any.whl (328 kB)
00:08:31 Using cached lazy_loader-0.6-py3-none-any.whl (8.8 kB)
00:08:31 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
00:08:31 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
00:08:31 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
00:08:31 Using cached toolz-1.2.0-py3-none-any.whl (60 kB)
00:08:31 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
00:08:31 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
00:08:31 Using cached google_crc32c-1.9.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (36 kB)
00:08:31 Using cached numcodecs-0.16.6-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (9.3 MB)
00:08:32 Downloading zipp-4.1.2-py3-none-any.whl (10 kB)
00:08:32 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
00:08:32 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
00:08:32 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
00:08:32 Building wheels for collected packages: omero-cli-zarr
00:08:32 Building wheel for omero-cli-zarr (pyproject.toml): started
00:08:32 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
00:08:32 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev186+g2a089fa-py3-none-any.whl size=39539 sha256=3629dbda7db3456e20af8e2021829350d7f6800a2f1c55cc63a043add057ea34
00:08:32 Stored in directory: /tmp/pip-ephem-wheel-cache-c2defcgp/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
00:08:32 Successfully built omero-cli-zarr
00:08:33 Installing collected packages: rangehttpserver, zipp, wrapt, toolz, tifffile, scipy, python-dateutil, 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
00:09:08 Attempting uninstall: python-dateutil
00:09:08 Found existing installation: python-dateutil 3.0.0
00:09:08 Uninstalling python-dateutil-3.0.0:
00:09:08 Successfully uninstalled python-dateutil-3.0.0
00:09:08 Attempting uninstall: pydantic-core
00:09:09 Found existing installation: pydantic_core 2.50.1
00:09:09 Uninstalling pydantic_core-2.50.1:
00:09:09 Successfully uninstalled pydantic_core-2.50.1
00:09:42 Attempting uninstall: pydantic
00:09:42 Found existing installation: pydantic 2.14.1
00:09:42 Uninstalling pydantic-2.14.1:
00:09:42 Successfully uninstalled pydantic-2.14.1
00:10:22
00:10:22 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-0.16.6 ome-zarr-0.18.0 ome-zarr-models-1.7 omero-cli-zarr-0.5.5.dev186+g2a089fa partd-1.4.2 propcache-0.5.4 pydantic-2.12.5 pydantic-core-2.41.5 pydantic-zarr-0.9.2 python-dateutil-2.9.0.post0 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-4.1.2
00:10:22 + pip install omero-certificates
00:10:24 Collecting omero-certificates
00:10:24 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
00:10:24 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.23.0)
00:10:24 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:10:24 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:10:24 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
00:10:24 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (13.0.0)
00:10:24 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
00:10:24 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:10:24 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
00:10:24 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (4.4.1)
00:10:24 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)
00:10:24 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)
00:10:24 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)
00:10:24 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.10.19)
00:10:24 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
00:10:24 Installing collected packages: omero-certificates
00:10:24 Successfully installed omero-certificates-0.4.0
00:10:24 + for x in *.tar.gz
00:10:24 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:10:25 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:10:25 Installing build dependencies: started
00:10:26 Installing build dependencies: finished with status 'done'
00:10:26 Getting requirements to build wheel: started
00:10:27 Getting requirements to build wheel: finished with status 'done'
00:10:27 Preparing metadata (pyproject.toml): started
00:10:27 Preparing metadata (pyproject.toml): finished with status 'done'
00:10:27 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.23.0)
00:10:27 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:10:27 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:10:27 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)
00:10:27 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (13.0.0)
00:10:27 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
00:10:27 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
00:10:27 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
00:10:27 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (4.4.1)
00:10:27 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)
00:10:27 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)
00:10:27 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)
00:10:27 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.10.19)
00:10:27 Building wheels for collected packages: omero-dropbox
00:10:27 Building wheel for omero-dropbox (pyproject.toml): started
00:10:27 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:10:27 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49154 sha256=a10c1d9fb8e25514a8d5fcba1e4a50fc4c09a0fd91e34e512bf2684e2bbb5c91
00:10:27 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
00:10:27 Successfully built omero-dropbox
00:10:28 Installing collected packages: omero-dropbox
00:10:28 Successfully installed omero-dropbox-5.7.1.dev0
00:10:28 + for x in *.tar.gz
00:10:28 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
00:10:29 Processing ./omero_marshal-0.9.2.dev0.tar.gz
00:10:29 Installing build dependencies: started
00:10:30 Installing build dependencies: finished with status 'done'
00:10:30 Getting requirements to build wheel: started
00:10:31 Getting requirements to build wheel: finished with status 'done'
00:10:31 Preparing metadata (pyproject.toml): started
00:10:31 Preparing metadata (pyproject.toml): finished with status 'done'
00:10:31 Building wheels for collected packages: omero_marshal
00:10:31 Building wheel for omero_marshal (pyproject.toml): started
00:10:31 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:10:31 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88121 sha256=220557c5151ee710fa1386073108dc3768d62f7501f5fb18511560a242720325
00:10:31 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
00:10:31 Successfully built omero_marshal
00:10:32 Installing collected packages: omero_marshal
00:10:34 Successfully installed omero_marshal-0.9.2.dev0
00:10:34 + for x in *.tar.gz
00:10:34 + pip install -U omero_py-5.23.1.dev0.tar.gz
00:10:35 Processing ./omero_py-5.23.1.dev0.tar.gz
00:10:35 Installing build dependencies: started
00:10:36 Installing build dependencies: finished with status 'done'
00:10:36 Getting requirements to build wheel: started
00:10:37 Getting requirements to build wheel: finished with status 'done'
00:10:37 Preparing metadata (pyproject.toml): started
00:10:37 Preparing metadata (pyproject.toml): finished with status 'done'
00:10:37 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.4.4)
00:10:37 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.0.0)
00:10:37 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.4.6)
00:10:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (13.0.0)
00:10:37 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (6.0.3)
00:10:37 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)
00:10:37 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.34.2)
00:10:37 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (4.4.1)
00:10:37 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)
00:10:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.20)
00:10:37 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)
00:10:37 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2026.10.19)
00:10:37 Building wheels for collected packages: omero-py
00:10:37 Building wheel for omero-py (pyproject.toml): started
00:10:38 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:10:38 Created wheel for omero-py: filename=omero_py-5.23.1.dev0-py3-none-any.whl size=2787196 sha256=10bcb36e4671a2b1975eedc3cae55ff4c8207725c1ab32ad097f027c205bab17
00:10:38 Stored in directory: /home/omero/.cache/pip/wheels/99/0a/38/75d301c3c2feff37b61c572a590c9d07ab2e52df205857b74d
00:10:38 Successfully built omero-py
00:10:38 Installing collected packages: omero-py
00:10:38 Attempting uninstall: omero-py
00:10:38 Found existing installation: omero-py 5.23.0
00:10:39 Uninstalling omero-py-5.23.0:
00:10:49 Successfully uninstalled omero-py-5.23.0
00:11:06 Successfully installed omero-py-5.23.1.dev0
00:11:06 + for x in *.tar.gz
00:11:06 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
00:11:07 Processing ./omero_scripts-5.10.1.dev0.tar.gz
00:11:07 Installing build dependencies: started
00:11:08 Installing build dependencies: finished with status 'done'
00:11:08 Getting requirements to build wheel: started
00:11:08 Getting requirements to build wheel: finished with status 'done'
00:11:08 Preparing metadata (pyproject.toml): started
00:11:09 Preparing metadata (pyproject.toml): finished with status 'done'
00:11:09 Building wheels for collected packages: omero-scripts
00:11:09 Building wheel for omero-scripts (pyproject.toml): started
00:11:09 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:11:09 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137639 sha256=0bce53fa2a79385e449f702f6a4b95051115e6a5e072d09e5a5187565f7f6651
00:11:09 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
00:11:09 Successfully built omero-scripts
00:11:09 Installing collected packages: omero-scripts
00:11:10 Successfully installed omero-scripts-5.10.1.dev0
00:11:10 + for x in *.tar.gz
00:11:10 + pip install -U omero_web-5.33.3.dev0.tar.gz
00:11:11 Processing ./omero_web-5.33.3.dev0.tar.gz
00:11:11 Installing build dependencies: started
00:11:13 Installing build dependencies: finished with status 'done'
00:11:13 Getting requirements to build wheel: started
00:11:13 Getting requirements to build wheel: finished with status 'done'
00:11:13 Preparing metadata (pyproject.toml): started
00:11:13 Preparing metadata (pyproject.toml): finished with status 'done'
00:11:13 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)
00:11:14 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.33.3.dev0)
00:11:14 Downloading concurrent_log_handler-0.9.31-py3-none-any.whl.metadata (30 kB)
00:11:14 Collecting Django<5.3,>=5.2.9 (from omero-web==5.33.3.dev0)
00:11:14 Using cached django-5.2.18-py3-none-any.whl.metadata (4.1 kB)
00:11:14 Collecting django-pipeline>=4.1.0 (from omero-web==5.33.3.dev0)
00:11:14 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
00:11:14 Collecting django-cors-headers==3.7.0 (from omero-web==5.33.3.dev0)
00:11:14 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:11:14 Collecting whitenoise>=5.3.0 (from omero-web==5.33.3.dev0)
00:11:14 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
00:11:15 Collecting gunicorn>=19.3 (from omero-web==5.33.3.dev0)
00:11:15 Using cached gunicorn-26.2.0-py3-none-any.whl.metadata (5.5 kB)
00:11:15 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)
00:11:15 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (13.0.0)
00:11:15 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (2026.5)
00:11:15 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (4.4.1)
00:11:15 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.3.dev0) (26.3)
00:11:15 Collecting importlib-resources (from omero-web==5.33.3.dev0)
00:11:15 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
00:11:15 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.33.3.dev0)
00:11:15 Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
00:11:15 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.33.3.dev0)
00:11:15 Using cached sqlparse-0.6.0-py3-none-any.whl.metadata (6.0 kB)
00:11:15 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)
00:11:15 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.33.3.dev0)
00:11:15 Using cached wheel-0.48.0-py3-none-any.whl.metadata (2.3 kB)
00:11:15 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)
00:11:15 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)
00:11:15 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)
00:11:15 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)
00:11:15 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.6.5)
00:11:15 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)
00:11:15 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.5.2)
00:11:15 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.3.dev0) (3.20)
00:11:15 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)
00:11:15 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) (2026.10.19)
00:11:15 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:11:15 Using cached django-5.2.18-py3-none-any.whl (8.3 MB)
00:11:16 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
00:11:16 Downloading concurrent_log_handler-0.9.31-py3-none-any.whl (36 kB)
00:11:16 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
00:11:16 Using cached gunicorn-26.2.0-py3-none-any.whl (228 kB)
00:11:16 Using cached sqlparse-0.6.0-py3-none-any.whl (50 kB)
00:11:16 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
00:11:16 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
00:11:16 Using cached wheel-0.48.0-py3-none-any.whl (33 kB)
00:11:16 Building wheels for collected packages: omero-web
00:11:16 Building wheel for omero-web (pyproject.toml): started
00:11:17 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:11:17 Created wheel for omero-web: filename=omero_web-5.33.3.dev0-py3-none-any.whl size=2820993 sha256=1da72508c323383f12599559fdf16c4d170d20efeeb1e40808d15631b443ad39
00:11:17 Stored in directory: /home/omero/.cache/pip/wheels/f9/cc/88/86aa2065a36d21a568dcadc16454372077670d9ca1a7b14a82
00:11:17 Successfully built omero-web
00:11:18 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
00:12:18
00:12:18 Successfully installed Django-5.2.18 asgiref-3.12.1 concurrent-log-handler-0.9.31 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
00:12:18 + omero config set omero.db.name OMERO-server
00:12:26 + omero config set omero.db.host pg
00:12:31 + omero config set omero.db.user postgres
00:12:35 + omero config set omero.data.dir /home/omero/omero-server-data
00:12:40 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:12:45 + omero config set omero.db.poolsize 25
00:12:50 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:12:54 + omero config set omero.security.trustStorePassword changeit
00:12:59 + omero config set omero.mail.config true
00:13:04 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:13:08 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
00:13:13 + omero certificates
00:13:18 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
00:13:18 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:13:18 + '[' false = true ']'
00:13:18 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:13:18 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:13:18 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:13:18 2026-10-22 00:13:18,753 [ omego.db] DEBUG dbcommand => upgrade
00:13:18 2026-10-22 00:13:18,753 [ omego.db] DEBUG dbhost => localhost
00:13:18 2026-10-22 00:13:18,753 [ omego.db] DEBUG dbname => OMERO-server
00:13:18 2026-10-22 00:13:18,753 [ omego.db] DEBUG dbpass => omero
00:13:18 2026-10-22 00:13:18,753 [ omego.db] DEBUG dbuser => omero
00:13:18 2026-10-22 00:13:18,753 [ omego.db] DEBUG rootpass => omero
00:13:18 2026-10-22 00:13:18,754 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:13:18 2026-10-22 00:13:18,754 [omego.extern] INFO Executing : omero version
00:13:22 OMERO.py version:
00:13:23 OMERO.server version:
00:13:23 5.6.3-689-429af68cc6-ice36-b117
00:13:23 5.23.1.dev0
00:13:23 2026-10-22 00:13:23,438 [omego.extern] INFO Completed [4.683 s]
00:13:23 2026-10-22 00:13:23,438 [omego.extern] DEBUG Using omero CLI from omero
00:13:23 2026-10-22 00:13:23,438 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:13:23 2026-10-22 00:13:23,438 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:13:23 2026-10-22 00:13:23,438 [omego.extern] INFO Executing : omero config get --show-password
00:13:28 2026-10-22 00:13:28,014 [omego.extern] INFO Completed [4.576 s]
00:13:28 2026-10-22 00:13:28,014 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:13:28 2026-10-22 00:13:28,014 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:13:28 2026-10-22 00:13:28,184 [omego.extern] INFO Completed [0.170 s]
00:13:28 2026-10-22 00:13:28,184 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
00:13:28 2026-10-22 00:13:28,184 [ omego.db] INFO psql version: psql (PostgreSQL) 16.14
00:13:28
00:13:28 2026-10-22 00:13:28,184 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:13:28 2026-10-22 00:13:28,184 [omego.extern] INFO Executing : omero config get --show-password
00:13:33 2026-10-22 00:13:33,063 [omego.extern] INFO Completed [4.878 s]
00:13:33 2026-10-22 00:13:33,063 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:13:33 2026-10-22 00:13:33,063 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:13:33 2026-10-22 00:13:33,128 [omego.extern] INFO Completed [0.065 s]
00:13:33 2026-10-22 00:13:33,128 [ 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'
00:13:33 2026-10-22 00:13:33,128 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:13:33 2026-10-22 00:13:33,128 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:13:33 2026-10-22 00:13:33,128 [omego.extern] INFO Executing : omero config get --show-password
00:13:37 2026-10-22 00:13:37,790 [omego.extern] INFO Completed [4.661 s]
00:13:37 2026-10-22 00:13:37,790 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:13:37 2026-10-22 00:13:37,790 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:13:37 2026-10-22 00:13:37,859 [omego.extern] INFO Completed [0.069 s]
00:13:37 2026-10-22 00:13:37,859 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:13:37 2026-10-22 00:13:37,859 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:13:37 2026-10-22 00:13:37,895 [ omego.db] INFO Database is already at OMERO5.4__0
00:13:37 + export LANG=en_US.UTF-8
00:13:37 + LANG=en_US.UTF-8
00:13:37 + export LANGUAGE=en_US:en
00:13:37 + LANGUAGE=en_US:en
00:13:37 + export LC_ALL=en_US.UTF-8
00:13:37 + LC_ALL=en_US.UTF-8
00:13:37 + BUILD_ID=DONT_KILL_ME
00:13:37 + omero admin start
00:13:50 No descriptor given. Using etc/grid/default.xml
00:14:02 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:14:02 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:14:02 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:14:02 Waiting on startup. Use CTRL-C to exit
00:14:02 + omero admin waitup
00:14:08 Waiting on startup. Use CTRL-C to exit
00:14:08 + omero admin diagnostics
00:14:13
00:14:13 ================================================================================
00:14:13 OMERO Diagnostics (admin)
00:14:13 ================================================================================
00:14:13
00:14:13 Commands: java -version 21.0.12 (/usr/bin/java)
00:14:13 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:14:13 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:14:13 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:14:13 Commands: psql --version 16.14 (/usr/bin/psql)
00:14:13 Commands: openssl version 3.5.527 (/usr/bin/openssl)
00:14:13
00:14:13 Component: OMERO.py 5.23.1.dev0
00:14:13 Component: OMERO.server 5.6.3-689-429af68cc6-ice36-b117
00:14:13
00:14:13 Server: icegridnode running
00:14:13 Server: Blitz-0 active (pid = 11159, enabled)
00:14:13 Server: Indexer-0 active (pid = 11177, enabled)
00:14:13 Server: OMERO.Glacier2 active (pid = 11200, enabled)
00:14:13 Server: OMERO.IceStorm active (pid = 11210, enabled)
00:14:13 Server: Processor-0 activating (enabled)
00:14:13 Server: Tables-0 activating (enabled)
00:14:13
00:14:13 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:14:13 Log files: Blitz-0.log 22.8 KB errors=0 warnings=1
00:14:13 Log files: DropBox.log n/a
00:14:13 Log files: FileServer.log n/a
00:14:13 Log files: Indexer-0.log 2.6 KB
00:14:13 Log files: MonitorServer.log n/a
00:14:13 Log files: Processor-0.log 592 B
00:14:13 Log files: Tables-0.log 841 B
00:14:13 Log files: TestDropBox.log n/a
00:14:13 Log files: master.err empty
00:14:13 Log files: master.out 30.7 KB
00:14:13 Log files: Total size 0.06 MB
00:14:13
00:14:13
00:14:13 Environment:OMERO_HOME=(unset)
00:14:13 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:14:13 Environment:OMERO_NODE=(unset)
00:14:13 Environment:OMERO_MASTER=(unset)
00:14:13 Environment:OMERO_USERDIR=(unset)
00:14:13 Environment:OMERO_TMPDIR=(unset)
00:14:13 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:14:13 Environment:PYTHONPATH=(unset)
00:14:13 Environment:ICE_HOME=/opt/ice-3.6.5
00:14:13 Environment:LD_LIBRARY_PATH=(unset)
00:14:13 Environment:DYLD_LIBRARY_PATH=(unset)
00:14:13
00:14:13 OMERO SSL port:4064
00:14:13 OMERO TCP port:4063
00:14:13 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:14:13 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:14:13
00:14:13 JVM settings: Blitz-${index} -Xmx5007m
00:14:13 JVM settings: Indexer-${index} -Xmx3338m
00:14:13 JVM settings: PixelData-${index} -Xmx5007m
00:14:13 JVM settings: Repository-${index} -Xmx3338m
00:14:14
00:14:14 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
00:14:14 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
00:14:14 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
00:14:14 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3 26 February 2026 70fd9b72a9834f1af4852c1e5b5676c57a2c360e
00:14:14 Jar: lib/server/ome-common.jar OME Common Java 6.2.1 27 February 2026 a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
00:14:14 Jar: lib/server/ome-jai.jar OME JAI 0.1.5 30 June 2025 257a1c1410c0103485248d05752a5174262a38b6
00:14:14 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4 25 June 2025 57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
00:14:14 Jar: lib/server/ome-poi.jar OME POI 5.3.11 11 November 2025 a2f3944ac71db9e7e51a6f64ec46beeb60613afb
00:14:14 Jar: lib/server/ome-xml.jar OME XML library 6.5.3 22 January 2026 21d1362abd9ce26e13888d2b2d028753d21ac96e
00:14:14 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT
00:14:14 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
00:14:14 Jar: lib/server/omero-gateway.jar jar 5.11.1-SNAPSHOT
00:14:14 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
00:14:14 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
00:14:14 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
00:14:14 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT
00:14:14 Jar: lib/server/omero-zarr-pixel-buffer.jar OMERO Zarr Pixel Buffer 0.7.2-SNAPSHOT 870640c5716d00c9ce57e369a570a2aa2eab97d6
00:14:14 + deactivate
00:14:14 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:14:14 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:14:14 + export PATH
00:14:14 + unset _OLD_VIRTUAL_PATH
00:14:14 + '[' -n '' ']'
00:14:14 + hash -r
00:14:14 + '[' -n '' ']'
00:14:14 + unset VIRTUAL_ENV
00:14:14 + unset VIRTUAL_ENV_PROMPT
00:14:14 + '[' '!' '' = nondestructive ']'
00:14:14 + unset -f deactivate
00:14:14 Finished: SUCCESS
