12:05:37 Started by user devspace
12:05:37 Running as SYSTEM
12:05:37 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
12:05:37 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7313589313087584137.sh
12:05:37 + source /home/settings.env
12:05:37 ++ OMERO_DB_HOST=pg
12:05:37 ++ OMERO_DB_USER=postgres
12:05:37 ++ OMERO_DB_PASS=
12:05:37 ++ OMERO_ROOT_PASS=omero
12:05:37 ++ OMERO_DATA_DIR=/OMERO
12:05:37 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
12:05:37 + OMERO_DB_NAME=OMERO-server
12:05:37 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
12:05:37 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:05:37 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:05:37 + OMERO_DATA_DIR=/home/omero/omero-server-data
12:05:37 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
12:05:37 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
12:05:37 ++ deactivate nondestructive
12:05:37 ++ '[' -n '' ']'
12:05:37 ++ '[' -n '' ']'
12:05:37 ++ hash -r
12:05:37 ++ '[' -n '' ']'
12:05:37 ++ unset VIRTUAL_ENV
12:05:37 ++ unset VIRTUAL_ENV_PROMPT
12:05:37 ++ '[' '!' nondestructive = nondestructive ']'
12:05:37 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
12:05:37 ++ export VIRTUAL_ENV
12:05:37 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:05:37 ++ 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
12:05:37 ++ export PATH
12:05:37 ++ '[' -n '' ']'
12:05:37 ++ '[' -z '' ']'
12:05:37 ++ _OLD_VIRTUAL_PS1=
12:05:37 ++ PS1='(.venv3) '
12:05:37 ++ export PS1
12:05:37 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
12:05:37 ++ export VIRTUAL_ENV_PROMPT
12:05:37 ++ hash -r
12:05:37 + omero admin stop
12:05:46 Waiting on shutdown. Use CTRL-C to exit
12:05:46 .+ sleep 5
12:06:01 + deactivate
12:06:01 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
12:06:01 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:06:01 + export PATH
12:06:01 + unset _OLD_VIRTUAL_PATH
12:06:01 + '[' -n '' ']'
12:06:01 + hash -r
12:06:01 + '[' -n '' ']'
12:06:01 + unset VIRTUAL_ENV
12:06:01 + unset VIRTUAL_ENV_PROMPT
12:06:01 + '[' '!' '' = nondestructive ']'
12:06:01 + unset -f deactivate
12:06:01 + rm -rf /home/omero/workspace/OMERO-server/.venv3
12:07:51 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
12:08:12 + '[' false = true ']'
12:08:12 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
12:08:12 Skipping PURGE_DATA:CleanDbAndRepo
12:08:12 + 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-5.33.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
12:08:20 Copied 1 artifact from "OMERO-build" build number 71
12:08:20 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 62
12:08:20 Copied 2 artifacts from "OMERO-build-build" build number 73
12:08:20 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12539774665046869919.sh
12:08:20 + source /home/settings.env
12:08:20 ++ OMERO_DB_HOST=pg
12:08:20 ++ OMERO_DB_USER=postgres
12:08:20 ++ OMERO_DB_PASS=
12:08:20 ++ OMERO_ROOT_PASS=omero
12:08:20 ++ OMERO_DATA_DIR=/OMERO
12:08:20 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
12:08:20 + OMERO_DB_NAME=OMERO-server
12:08:20 + OMERO_DATA_DIR=/home/omero/omero-server-data
12:08:20 + mkdir -p /home/omero/omero-server-data
12:08:20 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
12:08:20 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:08:20 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:08:20 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
12:08:20 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
12:08:20 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
12:08:20 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
12:08:20 ++ ls OMERO.server-5.6.3-677-151707f7e0-ice36-b71.zip
12:08:20 + ZIP=OMERO.server-5.6.3-677-151707f7e0-ice36-b71.zip
12:08:20 + '[' '!' -z '' ']'
12:08:20 + DIST=OMERO.server-5.6.3-677-151707f7e0-ice36-b71
12:08:20 + unzip OMERO.server-5.6.3-677-151707f7e0-ice36-b71.zip
12:08:20 Archive: OMERO.server-5.6.3-677-151707f7e0-ice36-b71.zip
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/blitz/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/grid/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/profiles/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/error/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/grid/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/luts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/luts/janelia/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/luts/matplotlib/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/luts/ncsa_paledit/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/luts/seaborn/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/luts/wcif/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/analysis_scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/annotation_scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/export_scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/figure_scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/import_scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/scripts/omero/util_scripts/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/misc/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__1/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__10/
12:08:20 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__11/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__2/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__3/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__4/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__5/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__6/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__7/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__8/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__9/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__4/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__5/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__6/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__7/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.1__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.2__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.2__0/t/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.3__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.4__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.0__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.1__1/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.2__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4DEV__1/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4DEV__2/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4DEV__3/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/var/
12:08:21 creating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/var/tmp/
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/LICENSE.txt
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/backup.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/blitz/mail-senders.example
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/blitz/mail-server.example
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/build.properties
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/env.bat
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/env.sh
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/hibernate.properties
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/ice.config
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/logback-cli.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/logback-indexing-cli.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/logback-indexing.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/logback.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/mime.types
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/node1.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/node2.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/omero.properties
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/profiles/psql
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/rollover.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/Windows.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/error/maintainance.html
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/grid/README
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/grid/default.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/grid/templates.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/grid/windefault.xml
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/ice.config
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/internal.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/master.cfg
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/templates/robot.template
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/etc/testdropbox.config
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/history.rst
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/OMEZarrReader.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/accessors-smart.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/activation.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aggdesigner-algorithm.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aircompressor.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/annotations.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/antlr.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aopalliance.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/apache-client.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/apiguardian-api.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/arns.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/asm.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/auth.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/avatica-core.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/avatica-metrics.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aws-core.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aws-java-sdk-core.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aws-java-sdk-kms.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aws-java-sdk-s3.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aws-query-protocol.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/aws-xml-protocol.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/base.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-anim.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-awt-util.jar
12:08:21 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-bridge.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-codec.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-constants.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-css.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-dom.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-ext.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-gvt.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-i18n.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-parser.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-script.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-shared-resources.jar
12:08:22 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/client/batik-svg-dom.jar
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12:08:38 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/solr-solrj.jar
12:08:38 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/specification.jar
12:08:38 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-aop.jar
12:08:38 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-beans.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-context-support.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-context.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-core.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-expression.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-jdbc.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-jms.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-ldap-core.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-messaging.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-orm.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-security-core.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-security-ldap.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/spring-tx.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/sqlite-jdbc.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/subethasmtp.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/third-party-jackson-core.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/turbojpeg.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/udunits.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/url-connection-client.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/utils-lite.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/utils.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/uzaygezen-core.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xalan.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xercesImpl.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xml-apis-ext.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xml-apis.jar
12:08:39 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xmlgraphics-commons.jar
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xmpcore.jar
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/xpp3.jar
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/zarr-java.jar
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/lib/server/zstd-jni.jar
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/README
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/agpl.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/antlr.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/apache-v1.1.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/apache-v2.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/asm.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/bouncy_castle_license.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/bsd.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/cddl-v1.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/cpl-v10.html
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/crystalclear.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/django.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/dom4j.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/epl-v1.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/fbsd.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/freemarker.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/gpl-v2.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/gpl.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/gtest.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/iconsweets_license.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/jamon.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/jmock.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/jquery.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/jtidy.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/lgpl-3.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/lgpl-v2.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/lgpl-v2.1.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/lgpl-v3.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/lgpl.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/matplotlib.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/mit.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/mpl-v1_0.htm
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/npl-1_1.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/path.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/pil.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/postgresql.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/psf-v2.0.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/psf-v2.5.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/scons.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/slf4j.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/tablelayout.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/which.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/zlib-libpng.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/share/licenses/zpl-v2.1.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/README.txt
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/misc/Makefile
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/misc/current.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/misc/enums.py
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__1/OMERO3__7.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__10/OMERO3A__9.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__11/OMERO3A__10.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__11/OMERO3A__5.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__2/OMERO3A__1.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__3/OMERO3A__2.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__3/OMERO3__5.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__4/OMERO3A__3.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__4/OMERO3__5.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__5/OMERO3A__4.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__6/OMERO3A__5.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__7/OMERO3A__6.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__8/OMERO3A__6.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3A__9/OMERO3A__8.sql
12:08:40 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__4/OMERO3__1.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__5/OMERO3__4.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__6/OMERO3__5.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO3__7/OMERO3__6.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.1__0/OMERO4__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO4__0/OMERO3A__11.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/psql-footer.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/psql-header.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/schema.sql
12:08:41 inflating: OMERO.server-5.6.3-677-151707f7e0-ice36-b71/sql/psql/OMERO5.4__0/views.sql
12:08:41 + rm -f OMERO.server-5.6.3-677-151707f7e0-ice36-b71.zip
12:08:41 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-677-151707f7e0-ice36-b71 /home/omero/workspace/OMERO-server/OMERO.server
12:08:41 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
12:08:41 ++ deactivate nondestructive
12:08:41 ++ '[' -n '' ']'
12:08:41 ++ '[' -n '' ']'
12:08:41 ++ hash -r
12:08:41 ++ '[' -n '' ']'
12:08:41 ++ unset VIRTUAL_ENV
12:08:41 ++ unset VIRTUAL_ENV_PROMPT
12:08:41 ++ '[' '!' nondestructive = nondestructive ']'
12:08:41 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
12:08:41 ++ export VIRTUAL_ENV
12:08:41 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:08:41 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:08:41 ++ export PATH
12:08:41 ++ '[' -n '' ']'
12:08:41 ++ '[' -z '' ']'
12:08:41 ++ _OLD_VIRTUAL_PS1=
12:08:41 ++ PS1='(.venv3) '
12:08:41 ++ export PS1
12:08:41 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
12:08:41 ++ export VIRTUAL_ENV_PROMPT
12:08:41 ++ hash -r
12:08:41 + pip install -U pip
12:08:42 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
12:08:43 Collecting pip
12:08:43 Using cached pip-26.2.1-py3-none-any.whl (1.8 MB)
12:08:43 Installing collected packages: pip
12:08:43 Attempting uninstall: pip
12:08:43 Found existing installation: pip 22.3.1
12:08:43 Uninstalling pip-22.3.1:
12:08:44 Successfully uninstalled pip-22.3.1
12:08:57 Successfully installed pip-26.2.1
12:08:57 + 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
12:08:58 Collecting zeroc-ice==3.6.5
12:08:58 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
12:09:01 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 13.8 MB/s 0:00:02
12:09:01 Installing collected packages: zeroc-ice
12:09:05 Successfully installed zeroc-ice-3.6.5
12:09:05 + pip install markdown
12:09:06 Collecting markdown
12:09:06 Using cached markdown-3.10.3-py3-none-any.whl.metadata (5.1 kB)
12:09:06 Using cached markdown-3.10.3-py3-none-any.whl (110 kB)
12:09:06 Installing collected packages: markdown
12:09:07 Successfully installed markdown-3.10.3
12:09:07 + pip install reportlab
12:09:08 Collecting reportlab
12:09:08 Using cached reportlab-5.0.1-py3-none-any.whl.metadata (1.6 kB)
12:09:09 Collecting pillow>=9.0.0 (from reportlab)
12:09:09 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
12:09:09 Collecting charset-normalizer (from reportlab)
12:09:09 Using cached charset_normalizer-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (45 kB)
12:09:09 Using cached reportlab-5.0.1-py3-none-any.whl (2.0 MB)
12:09:09 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
12:09:09 Using cached charset_normalizer-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (262 kB)
12:09:09 Installing collected packages: pillow, charset-normalizer, reportlab
12:09:17
12:09:17 Successfully installed charset-normalizer-3.5.1 pillow-12.3.0 reportlab-5.0.1
12:09:17 + pip install pyarrow
12:09:18 Collecting pyarrow
12:09:18 Downloading pyarrow-25.0.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB)
12:09:18 Downloading pyarrow-25.0.1-cp311-cp311-manylinux_2_28_x86_64.whl (50.1 MB)
12:09:22 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 50.1/50.1 MB 14.0 MB/s 0:00:03
12:09:22 Installing collected packages: pyarrow
12:09:33 Successfully installed pyarrow-25.0.1
12:09:33 + pip install omego
12:09:35 Collecting omego
12:09:35 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
12:09:35 Collecting future (from omego)
12:09:35 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
12:09:35 Collecting yaclifw>=0.1.1 (from omego)
12:09:35 Using cached yaclifw-0.2.0-py3-none-any.whl
12:09:35 Collecting six (from yaclifw>=0.1.1->omego)
12:09:35 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
12:09:35 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
12:09:35 Using cached future-1.0.0-py3-none-any.whl (491 kB)
12:09:35 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
12:09:35 Installing collected packages: six, future, yaclifw, omego
12:09:42
12:09:42 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
12:09:42 + pip install tables
12:09:43 Collecting tables
12:09:43 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)
12:09:43 Collecting numpy>=1.20.0 (from tables)
12:09:43 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
12:09:43 Collecting numexpr>=2.6.2 (from tables)
12:09:43 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
12:09:43 Collecting packaging (from tables)
12:09:43 Using cached packaging-26.3-py3-none-any.whl.metadata (3.5 kB)
12:09:44 Collecting py-cpuinfo (from tables)
12:09:44 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
12:09:44 Collecting blosc2>=2.3.0 (from tables)
12:09:44 Using cached blosc2-4.12.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (7.8 kB)
12:09:44 Collecting ndindex (from blosc2>=2.3.0->tables)
12:09:44 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
12:09:44 Collecting msgpack (from blosc2>=2.3.0->tables)
12:09:44 Using cached msgpack-1.2.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
12:09:44 Collecting pydantic (from blosc2>=2.3.0->tables)
12:09:44 Using cached pydantic-2.13.5-py3-none-any.whl.metadata (110 kB)
12:09:44 Collecting httpx[http2] (from blosc2>=2.3.0->tables)
12:09:44 Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB)
12:09:44 Collecting rich (from blosc2>=2.3.0->tables)
12:09:44 Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
12:09:44 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
12:09:44 Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
12:09:44 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables)
12:09:44 Using cached anyio-4.15.1-py3-none-any.whl.metadata (4.7 kB)
12:09:44 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables)
12:09:44 Using cached certifi-2026.7.22-py3-none-any.whl.metadata (2.5 kB)
12:09:44 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables)
12:09:44 Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB)
12:09:45 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables)
12:09:45 Using cached idna-3.19-py3-none-any.whl.metadata (9.2 kB)
12:09:45 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables)
12:09:45 Using cached h2-4.4.1-py3-none-any.whl.metadata (3.8 kB)
12:09:45 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
12:09:45 Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB)
12:09:45 Collecting hpack<5,>=4.2 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
12:09:45 Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB)
12:09:45 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables)
12:09:45 Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
12:09:45 Collecting typing_extensions>=4.16.0 (from anyio->httpx[http2]->blosc2>=2.3.0->tables)
12:09:45 Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
12:09:45 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
12:09:45 Using cached annotated_types-0.8.0-py3-none-any.whl.metadata (15 kB)
12:09:46 Collecting pydantic-core==2.46.5 (from pydantic->blosc2>=2.3.0->tables)
12:09:46 Using cached pydantic_core-2.46.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB)
12:09:46 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables)
12:09:46 Using cached typing_inspection-0.4.4-py3-none-any.whl.metadata (2.6 kB)
12:09:46 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
12:09:46 Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
12:09:46 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
12:09:46 Using cached pygments-2.21.0-py3-none-any.whl.metadata (2.5 kB)
12:09:46 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
12:09:46 Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
12:09:46 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)
12:09:46 Using cached blosc2-4.12.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.6 MB)
12:09:46 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB)
12:09:46 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
12:09:46 Using cached httpx-0.28.1-py3-none-any.whl (73 kB)
12:09:46 Using cached h2-4.4.1-py3-none-any.whl (62 kB)
12:09:46 Using cached hpack-4.2.0-py3-none-any.whl (34 kB)
12:09:46 Using cached httpcore-1.0.9-py3-none-any.whl (78 kB)
12:09:46 Using cached hyperframe-6.1.0-py3-none-any.whl (13 kB)
12:09:46 Using cached h11-0.16.0-py3-none-any.whl (37 kB)
12:09:46 Using cached anyio-4.15.1-py3-none-any.whl (132 kB)
12:09:46 Using cached idna-3.19-py3-none-any.whl (68 kB)
12:09:46 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
12:09:46 Using cached certifi-2026.7.22-py3-none-any.whl (136 kB)
12:09:46 Using cached msgpack-1.2.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (422 kB)
12:09:46 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
12:09:46 Using cached packaging-26.3-py3-none-any.whl (129 kB)
12:09:46 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
12:09:46 Using cached pydantic-2.13.5-py3-none-any.whl (472 kB)
12:09:46 Using cached pydantic_core-2.46.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
12:09:46 Using cached annotated_types-0.8.0-py3-none-any.whl (13 kB)
12:09:46 Using cached typing_inspection-0.4.4-py3-none-any.whl (14 kB)
12:09:46 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
12:09:46 Using cached pygments-2.21.0-py3-none-any.whl (1.3 MB)
12:09:46 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB)
12:09:46 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
12:09:46 Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
12:09:47 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
12:10:43
12:10:43 Successfully installed annotated-types-0.8.0 anyio-4.15.1 blosc2-4.12.0 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-3.19 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.2 ndindex-1.10.1 numexpr-2.14.2 numpy-2.4.6 packaging-26.3 py-cpuinfo-9.0.0 pydantic-2.13.5 pydantic-core-2.46.5 pygments-2.21.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.6.0 typing-inspection-0.4.4 typing_extensions-4.16.0
12:10:43 + pip install jinja2
12:10:44 Collecting jinja2
12:10:44 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
12:10:44 Collecting MarkupSafe>=2.0 (from jinja2)
12:10:44 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.7 kB)
12:10:44 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
12:10:44 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
12:10:45 Installing collected packages: MarkupSafe, jinja2
12:10:46
12:10:46 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
12:10:46 + pip install omero-py
12:10:47 Collecting omero-py
12:10:47 Using cached omero_py-5.23.0-py3-none-any.whl.metadata (6.5 kB)
12:10:47 Collecting appdirs (from omero-py)
12:10:47 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
12:10:47 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
12:10:47 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
12:10:47 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
12:10:47 Collecting PyYAML (from omero-py)
12:10:47 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)
12:10:47 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
12:10:47 Collecting requests (from omero-py)
12:10:47 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
12:10:48 Collecting portalocker (from omero-py)
12:10:48 Using cached portalocker-4.3.0-py3-none-any.whl.metadata (11 kB)
12:10:48 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.5.1)
12:10:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.19)
12:10:48 Collecting urllib3<3,>=1.26 (from requests->omero-py)
12:10:48 Using cached urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB)
12:10:48 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.7.22)
12:10:48 Using cached omero_py-5.23.0-py3-none-any.whl (2.8 MB)
12:10:48 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
12:10:48 Using cached portalocker-4.3.0-py3-none-any.whl (129 kB)
12:10:48 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
12:10:48 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
12:10:48 Using cached urllib3-2.7.0-py3-none-any.whl (131 kB)
12:10:48 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
12:11:12
12:11:12 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.23.0 portalocker-4.3.0 requests-2.34.2 urllib3-2.7.0
12:11:12 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
12:11:14 Collecting omero-metadata
12:11:14 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-o8o675ri/omero-metadata_bb5279ea725a4d7ebe10e15396568555
12:11:14 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-o8o675ri/omero-metadata_bb5279ea725a4d7ebe10e15396568555
12:11:15 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 3bc37ac56323d75b7079ecca96ab6777e28e0fb3
12:11:15 Installing build dependencies: started
12:11:16 Installing build dependencies: finished with status 'done'
12:11:16 Getting requirements to build wheel: started
12:11:17 Getting requirements to build wheel: finished with status 'done'
12:11:17 Preparing metadata (pyproject.toml): started
12:11:17 Preparing metadata (pyproject.toml): finished with status 'done'
12:11:17 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.23.0)
12:11:17 Collecting pandas<3,>=2 (from omero-metadata)
12:11:17 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
12:11:17 Requirement already satisfied: numpy>=1.23.2 in ./.venv3/lib64/python3.11/site-packages (from pandas<3,>=2->omero-metadata) (2.4.6)
12:11:17 Collecting python-dateutil>=2.8.2 (from pandas<3,>=2->omero-metadata)
12:11:17 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
12:11:17 Collecting pytz>=2020.1 (from pandas<3,>=2->omero-metadata)
12:11:17 Using cached pytz-2026.3.post1-py2.py3-none-any.whl.metadata (22 kB)
12:11:17 Collecting tzdata>=2022.7 (from pandas<3,>=2->omero-metadata)
12:11:17 Using cached tzdata-2026.3-py2.py3-none-any.whl.metadata (1.4 kB)
12:11:17 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
12:11:17 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
12:11:17 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)
12:11:17 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (6.0.3)
12:11:17 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)
12:11:17 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
12:11:17 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (4.3.0)
12:11:17 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)
12:11:17 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.5.1)
12:11:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.19)
12:11:17 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.7.0)
12:11:17 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)
12:11:17 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB)
12:11:18 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
12:11:18 Using cached pytz-2026.3.post1-py2.py3-none-any.whl (508 kB)
12:11:18 Using cached tzdata-2026.3-py2.py3-none-any.whl (348 kB)
12:11:18 Building wheels for collected packages: omero-metadata
12:11:18 Building wheel for omero-metadata (pyproject.toml): started
12:11:18 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
12:11:18 Created wheel for omero-metadata: filename=omero_metadata-0.14.1.dev0-py3-none-any.whl size=39360 sha256=025cac45112bbf11084e37f01b3f82bea3c98e793cc1a01bb6e903dadcd6cb61
12:11:18 Stored in directory: /tmp/pip-ephem-wheel-cache-1wnd3eab/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
12:11:18 Successfully built omero-metadata
12:11:18 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
12:12:21
12:12:21 Successfully installed omero-metadata-0.14.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2026.3.post1 tzdata-2026.3
12:12:21 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
12:12:23 Collecting omero-cli-render
12:12:23 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-u9_dzfuf/omero-cli-render_4cc9067e9bef4115a2298a2726300e3e
12:12:23 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-u9_dzfuf/omero-cli-render_4cc9067e9bef4115a2298a2726300e3e
12:12:25 Running command git checkout -b merge_ci --track origin/merge_ci
12:12:25 Switched to a new branch 'merge_ci'
12:12:25 branch 'merge_ci' set up to track 'origin/merge_ci'.
12:12:25 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 68716e3df77b6dec802e9aaec4de2491b31982f6
12:12:25 Installing build dependencies: started
12:12:27 Installing build dependencies: finished with status 'done'
12:12:27 Getting requirements to build wheel: started
12:12:27 Getting requirements to build wheel: finished with status 'done'
12:12:27 Preparing metadata (pyproject.toml): started
12:12:28 Preparing metadata (pyproject.toml): finished with status 'done'
12:12:28 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
12:12:28 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.23.0)
12:12:28 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
12:12:28 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
12:12:28 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)
12:12:28 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)
12:12:28 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)
12:12:28 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
12:12:28 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (4.3.0)
12:12:28 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.5.1)
12:12:28 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.19)
12:12:28 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.7.0)
12:12:28 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)
12:12:28 Building wheels for collected packages: omero-cli-render
12:12:28 Building wheel for omero-cli-render (pyproject.toml): started
12:12:28 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
12:12:28 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=ff10078ce80a639ea442b34c0a9f4e9e4df7ea37af7f5b9e35c84da3110751af
12:12:28 Stored in directory: /tmp/pip-ephem-wheel-cache-wg5wdlw3/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
12:12:28 Successfully built omero-cli-render
12:12:28 Installing collected packages: omero-cli-render
12:12:28 Successfully installed omero-cli-render-0.8.2.dev0
12:12:29 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
12:12:29 Collecting omero-cli-duplicate
12:12:29 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-aqonw6f3/omero-cli-duplicate_da391aa3bf514da2bf35c7321ba5ff8c
12:12:29 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-aqonw6f3/omero-cli-duplicate_da391aa3bf514da2bf35c7321ba5ff8c
12:12:31 Running command git checkout -b merge_ci --track origin/merge_ci
12:12:31 Switched to a new branch 'merge_ci'
12:12:31 branch 'merge_ci' set up to track 'origin/merge_ci'.
12:12:31 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 12884e6b04cf440894288359c5b3a3fdae0ca957
12:12:31 Installing build dependencies: started
12:12:33 Installing build dependencies: finished with status 'done'
12:12:33 Getting requirements to build wheel: started
12:12:33 Getting requirements to build wheel: finished with status 'done'
12:12:33 Preparing metadata (pyproject.toml): started
12:12:34 Preparing metadata (pyproject.toml): finished with status 'done'
12:12:34 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.23.0)
12:12:34 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
12:12:34 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
12:12:34 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
12:12:34 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)
12:12:34 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
12:12:34 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)
12:12:34 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
12:12:34 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (4.3.0)
12:12:34 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.5.1)
12:12:34 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.19)
12:12:34 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.7.0)
12:12:34 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)
12:12:34 Building wheels for collected packages: omero-cli-duplicate
12:12:34 Building wheel for omero-cli-duplicate (pyproject.toml): started
12:12:34 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
12:12:34 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=48d4d6b4618b9bde6cd3160585442b366eed5fec4a230d2bbd8c87d90697af74
12:12:34 Stored in directory: /tmp/pip-ephem-wheel-cache-qir1pvog/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
12:12:34 Successfully built omero-cli-duplicate
12:12:34 Installing collected packages: omero-cli-duplicate
12:12:34 Successfully installed omero-cli-duplicate-0.4.1.dev0
12:12:34 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
12:12:36 Collecting omero-cli-zarr
12:12:36 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-jj80jgz9/omero-cli-zarr_c9e746609af44c6b965edbb1d9dc949b
12:12:36 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-jj80jgz9/omero-cli-zarr_c9e746609af44c6b965edbb1d9dc949b
12:12:37 Running command git checkout -b merge_ci --track origin/merge_ci
12:12:37 Switched to a new branch 'merge_ci'
12:12:37 branch 'merge_ci' set up to track 'origin/merge_ci'.
12:12:37 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 381ea1b2f1ef97920fdf44b10afe5167eabe03f5
12:12:37 Installing build dependencies: started
12:12:39 Installing build dependencies: finished with status 'done'
12:12:39 Getting requirements to build wheel: started
12:12:39 Getting requirements to build wheel: finished with status 'done'
12:12:39 Installing backend dependencies: started
12:12:41 Installing backend dependencies: finished with status 'done'
12:12:41 Preparing metadata (pyproject.toml): started
12:12:42 Preparing metadata (pyproject.toml): finished with status 'done'
12:12:42 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.23.0)
12:12:42 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
12:12:42 Using cached ome_zarr-0.18.0-py3-none-any.whl.metadata (2.9 kB)
12:12:42 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6)
12:12:42 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:42 Using cached dask-2026.8.0-py3-none-any.whl.metadata (3.8 kB)
12:12:42 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:42 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
12:12:42 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)
12:12:42 Using cached fsspec-2026.7.0-py3-none-any.whl.metadata (10 kB)
12:12:43 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached aiohttp-3.14.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
12:12:43 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
12:12:43 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
12:12:43 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
12:12:43 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
12:12:43 Collecting ome-zarr-models>=1.6 (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB)
12:12:43 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
12:12:43 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached click-8.5.0-py3-none-any.whl.metadata (2.6 kB)
12:12:43 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:43 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
12:12:43 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)
12:12:44 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:44 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
12:12:44 Requirement already satisfied: pyyaml>=5.4.1 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) (6.0.3)
12:12:44 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)
12:12:44 Using cached importlib_metadata-9.0.1-py3-none-any.whl.metadata (4.5 kB)
12:12:44 Collecting s3fs>=2026.6.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:44 Using cached s3fs-2026.7.0-py3-none-any.whl.metadata (1.2 kB)
12:12:44 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)
12:12:44 Using cached zipp-4.1.0-py3-none-any.whl.metadata (3.6 kB)
12:12:44 Collecting pydantic-zarr>=0.8.2 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:44 Using cached pydantic_zarr-0.9.2-py3-none-any.whl.metadata (4.0 kB)
12:12:44 Collecting pydantic<2.13,>=2.11.5 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:44 Using cached pydantic-2.12.5-py3-none-any.whl.metadata (90 kB)
12:12:44 Requirement already satisfied: annotated-types>=0.6.0 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (0.8.0)
12:12:45 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)
12:12:45 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.3 kB)
12:12:45 Requirement already satisfied: typing-extensions>=4.14.1 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (4.16.0)
12:12:45 Requirement already satisfied: typing-inspection>=0.4.2 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (0.4.4)
12:12:45 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
12:12:45 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
12:12:45 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)
12:12:45 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)
12:12:45 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (4.3.0)
12:12:45 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)
12:12:45 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
12:12:45 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)
12:12:45 Using cached aiobotocore-3.9.1-py3-none-any.whl.metadata (31 kB)
12:12:45 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)
12:12:45 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
12:12:45 Collecting botocore<1.43.76,>=1.43.66 (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)
12:12:45 Using cached botocore-1.43.75-py3-none-any.whl.metadata (5.6 kB)
12:12:45 Collecting jmespath<2.0.0,>=0.7.1 (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)
12:12:45 Using cached jmespath-1.1.0-py3-none-any.whl.metadata (7.6 kB)
12:12:46 Collecting multidict<7.0.0,>=6.0.0 (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)
12:12:46 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (5.3 kB)
12:12:46 Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in ./.venv3/lib64/python3.11/site-packages (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) (2.9.0.post0)
12:12:46 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)
12:12:46 Using cached wrapt-2.4.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
12:12:46 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:46 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl.metadata (5.9 kB)
12:12:46 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:46 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
12:12:46 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:46 Using cached attrs-26.1.0-py3-none-any.whl.metadata (8.8 kB)
12:12:46 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:46 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)
12:12:47 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:47 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (16 kB)
12:12:47 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:47 Using cached yarl-1.24.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (103 kB)
12:12:47 Requirement already satisfied: urllib3!=2.2.0,<3,>=1.25.4 in ./.venv3/lib64/python3.11/site-packages (from botocore<1.43.76,>=1.43.66->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) (2.7.0)
12:12:47 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil<3.0.0,>=2.1->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) (1.17.0)
12:12:47 Requirement already satisfied: idna>=2.0 in ./.venv3/lib64/python3.11/site-packages (from yarl<2.0,>=1.17.0->aiohttp->ome-zarr>=0.13.0->omero-cli-zarr) (3.19)
12:12:47 Collecting scipy>=1.11.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:47 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (62 kB)
12:12:47 Collecting networkx>=3.0 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:47 Using cached networkx-3.6.1-py3-none-any.whl.metadata (6.8 kB)
12:12:47 Collecting imageio!=2.35.0,>=2.33 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:47 Using cached imageio-2.37.4-py3-none-any.whl.metadata (9.6 kB)
12:12:47 Collecting tifffile>=2022.8.12 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:47 Using cached tifffile-2026.3.3-py3-none-any.whl.metadata (31 kB)
12:12:48 Collecting lazy-loader>=0.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:48 Using cached lazy_loader-0.5-py3-none-any.whl.metadata (5.9 kB)
12:12:48 Collecting donfig>=0.8 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:48 Using cached donfig-0.8.1.post1-py3-none-any.whl.metadata (5.0 kB)
12:12:48 Collecting google-crc32c>=1.5 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:48 Using cached google_crc32c-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_5_x86_64.whl.metadata (1.7 kB)
12:12:48 Collecting numcodecs>=0.14 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
12:12:48 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (3.4 kB)
12:12:48 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (3.5.1)
12:12:48 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (2026.7.22)
12:12:48 Using cached ome_zarr-0.18.0-py3-none-any.whl (57 kB)
12:12:48 Using cached dask-2026.8.0-py3-none-any.whl (1.5 MB)
12:12:48 Using cached click-8.5.0-py3-none-any.whl (125 kB)
12:12:48 Using cached cloudpickle-3.1.2-py3-none-any.whl (22 kB)
12:12:48 Using cached fsspec-2026.7.0-py3-none-any.whl (206 kB)
12:12:48 Using cached importlib_metadata-9.0.1-py3-none-any.whl (27 kB)
12:12:48 Using cached ome_zarr_models-1.7-py3-none-any.whl (64 kB)
12:12:48 Using cached pydantic-2.12.5-py3-none-any.whl (463 kB)
12:12:48 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
12:12:48 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
12:12:48 Using cached pydantic_zarr-0.9.2-py3-none-any.whl (52 kB)
12:12:48 Using cached s3fs-2026.7.0-py3-none-any.whl (32 kB)
12:12:48 Using cached aiobotocore-3.9.1-py3-none-any.whl (102 kB)
12:12:48 Using cached aiohttp-3.14.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB)
12:12:48 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
12:12:48 Using cached botocore-1.43.75-py3-none-any.whl (15.7 MB)
12:12:48 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
12:12:48 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (246 kB)
12:12:48 Using cached wrapt-2.4.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (217 kB)
12:12:48 Using cached yarl-1.24.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (111 kB)
12:12:48 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl (15 kB)
12:12:48 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
12:12:48 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
12:12:48 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
12:12:48 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (58 kB)
12:12:48 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
12:12:48 Using cached imageio-2.37.4-py3-none-any.whl (318 kB)
12:12:48 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB)
12:12:48 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
12:12:48 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
12:12:48 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
12:12:48 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
12:12:48 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
12:12:48 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
12:12:48 Using cached google_crc32c-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_5_x86_64.whl (33 kB)
12:12:48 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (9.1 MB)
12:12:48 Using cached zipp-4.1.0-py3-none-any.whl (10 kB)
12:12:48 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
12:12:48 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
12:12:49 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
12:12:49 Building wheels for collected packages: omero-cli-zarr
12:12:49 Building wheel for omero-cli-zarr (pyproject.toml): started
12:12:49 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
12:12:49 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev186+g381ea1b-py3-none-any.whl size=39538 sha256=c98f1b77effb3ec599b99331f3d57565b8781b9cc2d27241bbdc4a267b42a4c2
12:12:49 Stored in directory: /tmp/pip-ephem-wheel-cache-mxtcw7c8/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
12:12:49 Successfully built omero-cli-zarr
12:12:50 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
12:13:35 Attempting uninstall: pydantic-core
12:13:35 Found existing installation: pydantic_core 2.46.5
12:13:35 Uninstalling pydantic_core-2.46.5:
12:13:35 Successfully uninstalled pydantic_core-2.46.5
12:14:19 Attempting uninstall: pydantic
12:14:19 Found existing installation: pydantic 2.13.5
12:14:20 Uninstalling pydantic-2.13.5:
12:14:20 Successfully uninstalled pydantic-2.13.5
12:15:10
12:15:10 Successfully installed Deprecated-1.3.1 aiobotocore-3.9.1 aiohappyeyeballs-2.7.1 aiohttp-3.14.3 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.75 click-8.5.0 cloudpickle-3.1.2 dask-2026.8.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.7.0 google-crc32c-1.8.0 imageio-2.37.4 importlib_metadata-9.0.1 jmespath-1.1.0 lazy-loader-0.5 locket-1.0.0 multidict-6.7.1 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+g381ea1b partd-1.4.2 propcache-0.5.2 pydantic-2.12.5 pydantic-core-2.41.5 pydantic-zarr-0.9.2 rangehttpserver-1.4.0 s3fs-2026.7.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.4.0 yarl-1.24.5 zarr-3.1.6 zipp-4.1.0
12:15:11 + pip install omero-certificates
12:15:12 Collecting omero-certificates
12:15:12 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
12:15:12 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.23.0)
12:15:12 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
12:15:12 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
12:15:12 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
12:15:12 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)
12:15:12 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
12:15:12 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)
12:15:12 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
12:15:12 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (4.3.0)
12:15:12 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.5.1)
12:15:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.19)
12:15:12 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.7.0)
12:15:12 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)
12:15:12 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
12:15:13 Installing collected packages: omero-certificates
12:15:13 Successfully installed omero-certificates-0.4.0
12:15:13 + for x in *.tar.gz
12:15:13 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
12:15:15 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
12:15:15 Installing build dependencies: started
12:15:17 Installing build dependencies: finished with status 'done'
12:15:17 Getting requirements to build wheel: started
12:15:18 Getting requirements to build wheel: finished with status 'done'
12:15:18 Preparing metadata (pyproject.toml): started
12:15:18 Preparing metadata (pyproject.toml): finished with status 'done'
12:15:18 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.23.0)
12:15:18 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
12:15:18 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
12:15:18 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)
12:15:18 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)
12:15:18 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
12:15:18 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)
12:15:18 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
12:15:18 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (4.3.0)
12:15:18 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.5.1)
12:15:18 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.19)
12:15:18 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.7.0)
12:15:18 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)
12:15:18 Building wheels for collected packages: omero-dropbox
12:15:18 Building wheel for omero-dropbox (pyproject.toml): started
12:15:19 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
12:15:19 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49155 sha256=99f003890fd9496e44b5b6a3359eb727b536cda4ecbf3d956f45496ff8176eaf
12:15:19 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
12:15:19 Successfully built omero-dropbox
12:15:19 Installing collected packages: omero-dropbox
12:15:20 Successfully installed omero-dropbox-5.7.1.dev0
12:15:20 + for x in *.tar.gz
12:15:20 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
12:15:21 Processing ./omero_marshal-0.9.2.dev0.tar.gz
12:15:21 Installing build dependencies: started
12:15:23 Installing build dependencies: finished with status 'done'
12:15:23 Getting requirements to build wheel: started
12:15:24 Getting requirements to build wheel: finished with status 'done'
12:15:24 Preparing metadata (pyproject.toml): started
12:15:24 Preparing metadata (pyproject.toml): finished with status 'done'
12:15:24 Building wheels for collected packages: omero_marshal
12:15:24 Building wheel for omero_marshal (pyproject.toml): started
12:15:25 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
12:15:25 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88121 sha256=b6d0382d41ec998ea9ae8be85b6aea6249ac5b0ca77d6362ba6395bdd12c5931
12:15:25 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
12:15:25 Successfully built omero_marshal
12:15:26 Installing collected packages: omero_marshal
12:15:28 Successfully installed omero_marshal-0.9.2.dev0
12:15:29 + for x in *.tar.gz
12:15:29 + pip install -U omero_py-5.23.1.dev0.tar.gz
12:15:29 Processing ./omero_py-5.23.1.dev0.tar.gz
12:15:30 Installing build dependencies: started
12:15:31 Installing build dependencies: finished with status 'done'
12:15:31 Getting requirements to build wheel: started
12:15:32 Getting requirements to build wheel: finished with status 'done'
12:15:32 Preparing metadata (pyproject.toml): started
12:15:32 Preparing metadata (pyproject.toml): finished with status 'done'
12:15:32 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.4.4)
12:15:32 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.0.0)
12:15:32 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.4.6)
12:15:32 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (12.3.0)
12:15:32 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (6.0.3)
12:15:32 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)
12:15:32 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.34.2)
12:15:32 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (4.3.0)
12:15:32 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.5.1)
12:15:32 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.19)
12:15:32 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2.7.0)
12:15:32 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)
12:15:32 Building wheels for collected packages: omero-py
12:15:32 Building wheel for omero-py (pyproject.toml): started
12:15:33 Building wheel for omero-py (pyproject.toml): finished with status 'done'
12:15:33 Created wheel for omero-py: filename=omero_py-5.23.1.dev0-py3-none-any.whl size=2787190 sha256=ec48a0e3bca1e4cebb05d1b1be8570f5899008a79e8e36e5675277b81cc023dd
12:15:33 Stored in directory: /home/omero/.cache/pip/wheels/99/0a/38/75d301c3c2feff37b61c572a590c9d07ab2e52df205857b74d
12:15:33 Successfully built omero-py
12:15:33 Installing collected packages: omero-py
12:15:33 Attempting uninstall: omero-py
12:15:33 Found existing installation: omero-py 5.23.0
12:15:35 Uninstalling omero-py-5.23.0:
12:15:48 Successfully uninstalled omero-py-5.23.0
12:16:06 Successfully installed omero-py-5.23.1.dev0
12:16:06 + for x in *.tar.gz
12:16:06 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
12:16:07 Processing ./omero_scripts-5.10.1.dev0.tar.gz
12:16:07 Installing build dependencies: started
12:16:10 Installing build dependencies: finished with status 'done'
12:16:10 Getting requirements to build wheel: started
12:16:10 Getting requirements to build wheel: finished with status 'done'
12:16:10 Preparing metadata (pyproject.toml): started
12:16:10 Preparing metadata (pyproject.toml): finished with status 'done'
12:16:10 Building wheels for collected packages: omero-scripts
12:16:10 Building wheel for omero-scripts (pyproject.toml): started
12:16:11 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
12:16:11 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137217 sha256=c60fc6b884c8179c1a944cedf646405efb11012a80b17bd1ed61e347d4ec112b
12:16:11 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
12:16:11 Successfully built omero-scripts
12:16:11 Installing collected packages: omero-scripts
12:16:12 Successfully installed omero-scripts-5.10.1.dev0
12:16:12 + for x in *.tar.gz
12:16:12 + pip install -U omero_web-5.33.1.dev0.tar.gz
12:16:14 Processing ./omero_web-5.33.1.dev0.tar.gz
12:16:14 Installing build dependencies: started
12:16:17 Installing build dependencies: finished with status 'done'
12:16:17 Getting requirements to build wheel: started
12:16:17 Getting requirements to build wheel: finished with status 'done'
12:16:17 Preparing metadata (pyproject.toml): started
12:16:17 Preparing metadata (pyproject.toml): finished with status 'done'
12:16:17 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (5.23.1.dev0)
12:16:17 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.33.1.dev0)
12:16:18 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
12:16:18 Collecting Django<5.3,>=5.2.9 (from omero-web==5.33.1.dev0)
12:16:18 Using cached django-5.2.17-py3-none-any.whl.metadata (4.1 kB)
12:16:18 Collecting django-pipeline>=4.1.0 (from omero-web==5.33.1.dev0)
12:16:18 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
12:16:18 Collecting django-cors-headers==3.7.0 (from omero-web==5.33.1.dev0)
12:16:18 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
12:16:18 Collecting whitenoise>=5.3.0 (from omero-web==5.33.1.dev0)
12:16:18 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
12:16:18 Collecting gunicorn>=19.3 (from omero-web==5.33.1.dev0)
12:16:18 Using cached gunicorn-26.2.0-py3-none-any.whl.metadata (5.5 kB)
12:16:18 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (0.9.2.dev0)
12:16:18 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (12.3.0)
12:16:18 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (2026.3.post1)
12:16:18 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (4.3.0)
12:16:18 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (26.3)
12:16:18 Collecting importlib-resources (from omero-web==5.33.1.dev0)
12:16:18 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
12:16:18 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.33.1.dev0)
12:16:18 Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
12:16:18 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.33.1.dev0)
12:16:18 Using cached sqlparse-0.6.0-py3-none-any.whl.metadata (6.0 kB)
12:16:18 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.33.1.dev0) (65.5.1)
12:16:18 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.33.1.dev0)
12:16:18 Using cached wheel-0.48.0-py3-none-any.whl.metadata (2.3 kB)
12:16:18 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (1.4.4)
12:16:18 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (1.0.0)
12:16:18 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (2.4.6)
12:16:18 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (6.0.3)
12:16:18 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==5.33.1.dev0) (3.6.5)
12:16:18 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (2.34.2)
12:16:18 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (3.5.1)
12:16:18 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (3.19)
12:16:18 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (2.7.0)
12:16:18 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (2026.7.22)
12:16:18 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
12:16:18 Using cached django-5.2.17-py3-none-any.whl (8.3 MB)
12:16:18 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
12:16:18 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
12:16:18 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
12:16:18 Using cached gunicorn-26.2.0-py3-none-any.whl (228 kB)
12:16:18 Using cached sqlparse-0.6.0-py3-none-any.whl (50 kB)
12:16:18 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
12:16:19 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
12:16:19 Using cached wheel-0.48.0-py3-none-any.whl (33 kB)
12:16:19 Building wheels for collected packages: omero-web
12:16:19 Building wheel for omero-web (pyproject.toml): started
12:16:20 Building wheel for omero-web (pyproject.toml): finished with status 'done'
12:16:20 Created wheel for omero-web: filename=omero_web-5.33.1.dev0-py3-none-any.whl size=2821687 sha256=9d1fb7a240b8b7567e162e8b4ea02ca63edb7541d8928b30f5e304859c6303b4
12:16:20 Stored in directory: /home/omero/.cache/pip/wheels/77/f6/23/fc9c2b5a287f0e430435deaa5ed7a3a49a9c9a8f56769f82c4
12:16:20 Successfully built omero-web
12:16:21 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
12:17:39
12:17:39 Successfully installed Django-5.2.17 asgiref-3.12.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.2.0 importlib-resources-7.1.0 omero-web-5.33.1.dev0 sqlparse-0.6.0 wheel-0.48.0 whitenoise-6.12.0
12:17:39 + wget https://raw.githubusercontent.com/ome/figure/refs/heads/master/ome_figure/Figure_To_Pdf.py
12:17:39 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
12:17:39 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
12:17:39 --2026-09-08 12:17:39-- https://raw.githubusercontent.com/ome/figure/refs/heads/master/ome_figure/Figure_To_Pdf.py
12:17:39 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.111.133, 185.199.109.133, ...
12:17:39 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
12:17:39 HTTP request sent, awaiting response... 200 OK
12:17:39 Length: 133662 (131K) [text/plain]
12:17:39 Saving to: ‘Figure_To_Pdf.py’
12:17:39
12:17:39 0K .......... .......... .......... .......... .......... 38% 2.90M 0s
12:17:39 50K .......... .......... .......... .......... .......... 76% 10.4M 0s
12:17:39 100K .......... .......... .......... 100% 3.01M=0.03s
12:17:39
12:17:39 2026-09-08 12:17:39 (4.05 MB/s) - ‘Figure_To_Pdf.py’ saved [133662/133662]
12:17:39
12:17:39 + chmod 755 Figure_To_Pdf.py
12:17:39 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
12:17:39 + omero config set omero.db.name OMERO-server
12:17:49 + omero config set omero.db.host pg
12:17:55 + omero config set omero.db.user postgres
12:18:01 + omero config set omero.data.dir /home/omero/omero-server-data
12:18:10 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
12:18:18 + omero config set omero.db.poolsize 25
12:18:25 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
12:18:33 + omero config set omero.security.trustStorePassword changeit
12:18:42 + omero config set omero.mail.config true
12:18:52 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
12:18:59 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
12:19:08 + omero certificates
12:19:14 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
12:19:14 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
12:19:15 + '[' false = true ']'
12:19:15 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
12:19:15 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
12:19:15 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG dbcommand => upgrade
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG dbhost => localhost
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG dbname => OMERO-server
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG dbpass => omero
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG dbuser => omero
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG rootpass => omero
12:19:15 2026-09-08 12:19:15,491 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
12:19:15 2026-09-08 12:19:15,493 [omego.extern] INFO Executing : omero version
12:19:22 OMERO.py version:
12:19:22 OMERO.server version:
12:19:22 5.6.3-677-151707f7e0-ice36-b71
12:19:22 5.23.1.dev0
12:19:23 2026-09-08 12:19:23,638 [omego.extern] INFO Completed [8.145 s]
12:19:23 2026-09-08 12:19:23,638 [omego.extern] DEBUG Using omero CLI from omero
12:19:23 2026-09-08 12:19:23,638 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
12:19:23 2026-09-08 12:19:23,638 [omego.extern] INFO Running [current environment]: omero config get --show-password
12:19:23 2026-09-08 12:19:23,638 [omego.extern] INFO Executing : omero config get --show-password
12:19:33 2026-09-08 12:19:33,490 [omego.extern] INFO Completed [9.852 s]
12:19:33 2026-09-08 12:19:33,490 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
12:19:33 2026-09-08 12:19:33,491 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
12:19:33 2026-09-08 12:19:33,499 [omego.extern] INFO Completed [0.009 s]
12:19:33 2026-09-08 12:19:33,499 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
12:19:33 2026-09-08 12:19:33,499 [ omego.db] INFO psql version: psql (PostgreSQL) 16.14
12:19:33
12:19:33 2026-09-08 12:19:33,499 [omego.extern] INFO Running [current environment]: omero config get --show-password
12:19:33 2026-09-08 12:19:33,499 [omego.extern] INFO Executing : omero config get --show-password
12:19:40 2026-09-08 12:19:40,924 [omego.extern] INFO Completed [7.424 s]
12:19:40 2026-09-08 12:19:40,924 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
12:19:40 2026-09-08 12:19:40,924 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
12:19:40 2026-09-08 12:19:40,946 [omego.extern] INFO Completed [0.022 s]
12:19:40 2026-09-08 12:19:40,946 [ 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'
12:19:40 2026-09-08 12:19:40,946 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
12:19:40 2026-09-08 12:19:40,946 [omego.extern] INFO Running [current environment]: omero config get --show-password
12:19:40 2026-09-08 12:19:40,946 [omego.extern] INFO Executing : omero config get --show-password
12:19:49 2026-09-08 12:19:49,793 [omego.extern] INFO Completed [8.847 s]
12:19:49 2026-09-08 12:19:49,793 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
12:19:49 2026-09-08 12:19:49,793 [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
12:19:49 2026-09-08 12:19:49,821 [omego.extern] INFO Completed [0.027 s]
12:19:49 2026-09-08 12:19:49,821 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
12:19:49 2026-09-08 12:19:49,821 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
12:19:49 2026-09-08 12:19:49,885 [ omego.db] INFO Database is already at OMERO5.4__0
12:19:49 + export LANG=en_US.UTF-8
12:19:49 + LANG=en_US.UTF-8
12:19:49 + export LANGUAGE=en_US:en
12:19:49 + LANGUAGE=en_US:en
12:19:49 + export LC_ALL=en_US.UTF-8
12:19:49 + LC_ALL=en_US.UTF-8
12:19:49 + BUILD_ID=DONT_KILL_ME
12:19:49 + omero admin start
12:20:04 No descriptor given. Using etc/grid/default.xml
12:20:32 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
12:20:32 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
12:20:32 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
12:20:32 Waiting on startup. Use CTRL-C to exit
12:20:34 + omero admin waitup
12:20:45 Waiting on startup. Use CTRL-C to exit
12:20:45 + omero admin diagnostics
12:20:52
12:20:52 ================================================================================
12:20:52 OMERO Diagnostics (admin)
12:20:52 ================================================================================
12:20:52
12:20:52 Commands: java -version 21.0.12 (/usr/bin/java)
12:20:52 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
12:20:52 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
12:20:52 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
12:20:52 Commands: psql --version 16.14 (/usr/bin/psql)
12:20:53 Commands: openssl version 3.5.527 (/usr/bin/openssl)
12:20:53
12:20:53 Component: OMERO.py 5.23.1.dev0
12:20:53 Component: OMERO.server 5.6.3-677-151707f7e0-ice36-b71
12:20:53
12:20:53 Server: icegridnode running
12:20:53 Server: Blitz-0 active (pid = 2800, enabled)
12:20:53 Server: Indexer-0 active (pid = 2819, enabled)
12:20:53 Server: OMERO.Glacier2 active (pid = 2840, enabled)
12:20:53 Server: OMERO.IceStorm active (pid = 2843, enabled)
12:20:53 Server: Processor-0 active (pid = 2822, enabled)
12:20:53 Server: Tables-0 active (pid = 2839, enabled)
12:20:53
12:20:53 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
12:20:53 Log files: Blitz-0.log 66.4 KB errors=0 warnings=5
12:20:53 Log files: DropBox.log n/a
12:20:53 Log files: FileServer.log n/a
12:20:53 Log files: Indexer-0.log 2.6 KB
12:20:53 Log files: MonitorServer.log n/a
12:20:53 Log files: Processor-0.log 2.3 KB
12:20:53 Log files: Tables-0.log 1.1 KB
12:20:53 Log files: TestDropBox.log n/a
12:20:53 Log files: master.err empty
12:20:53 Log files: master.out 30.7 KB
12:20:53 Log files: Total size 0.10 MB
12:20:53
12:20:53
12:20:53 Environment:OMERO_HOME=(unset)
12:20:53 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:20:53 Environment:OMERO_NODE=(unset)
12:20:53 Environment:OMERO_MASTER=(unset)
12:20:53 Environment:OMERO_USERDIR=(unset)
12:20:53 Environment:OMERO_TMPDIR=(unset)
12:20:53 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:20:53 Environment:PYTHONPATH=(unset)
12:20:53 Environment:ICE_HOME=/opt/ice-3.6.5
12:20:53 Environment:LD_LIBRARY_PATH=(unset)
12:20:53 Environment:DYLD_LIBRARY_PATH=(unset)
12:20:53
12:20:53 OMERO SSL port:4064
12:20:53 OMERO TCP port:4063
12:20:53 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
12:20:53 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 22972)
12:20:53
12:20:53 JVM settings: Blitz-${index} -Xmx5007m
12:20:53 JVM settings: Indexer-${index} -Xmx3338m
12:20:53 JVM settings: PixelData-${index} -Xmx5007m
12:20:53 JVM settings: Repository-${index} -Xmx3338m
12:20:53
12:20:53 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
12:20:53 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
12:20:53 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce
12:20:53 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3 26 February 2026 70fd9b72a9834f1af4852c1e5b5676c57a2c360e
12:20:53 Jar: lib/server/ome-common.jar OME Common Java 6.2.1 27 February 2026 a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
12:20:53 Jar: lib/server/ome-jai.jar OME JAI 0.1.5 30 June 2025 257a1c1410c0103485248d05752a5174262a38b6
12:20:53 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4 25 June 2025 57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
12:20:53 Jar: lib/server/ome-poi.jar OME POI 5.3.11 11 November 2025 a2f3944ac71db9e7e51a6f64ec46beeb60613afb
12:20:53 Jar: lib/server/ome-xml.jar OME XML library 6.5.3 22 January 2026 21d1362abd9ce26e13888d2b2d028753d21ac96e
12:20:53 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT
12:20:53 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
12:20:53 Jar: lib/server/omero-gateway.jar jar 5.11.1-SNAPSHOT
12:20:53 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
12:20:53 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT
12:20:53 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
12:20:53 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT
12:20:53 Jar: lib/server/omero-zarr-pixel-buffer.jar OMERO Zarr Pixel Buffer 0.7.0-rc3 4c6a6c7d8fb12449c8080808fd12bf95e996e398
12:20:54 + deactivate
12:20:54 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
12:20:54 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:20:54 + export PATH
12:20:54 + unset _OLD_VIRTUAL_PATH
12:20:54 + '[' -n '' ']'
12:20:54 + hash -r
12:20:54 + '[' -n '' ']'
12:20:54 + unset VIRTUAL_ENV
12:20:54 + unset VIRTUAL_ENV_PROMPT
12:20:54 + '[' '!' '' = nondestructive ']'
12:20:54 + unset -f deactivate
12:20:54 Finished: SUCCESS
