Console

14:48:33 Started by upstream project "Trigger" build number 34
14:48:33 originally caused by:
14:48:33  Started by user devspace
14:48:33 Running as SYSTEM
14:48:34 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
14:48:34 [OMERO-server] $ /bin/bash -xe /tmp/jenkins3161923326013320684.sh
14:48:34 + source /home/settings.env
14:48:34 ++ OMERO_DB_HOST=pg
14:48:34 ++ OMERO_DB_USER=postgres
14:48:34 ++ OMERO_DB_PASS=
14:48:34 ++ OMERO_ROOT_PASS=omero
14:48:34 ++ OMERO_DATA_DIR=/OMERO
14:48:34 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:48:34 + OMERO_DB_NAME=OMERO-server
14:48:34 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:48:34 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:48:34 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:48:34 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:48:34 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
14:48:34 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:48:34 ++ deactivate nondestructive
14:48:34 ++ '[' -n '' ']'
14:48:34 ++ '[' -n '' ']'
14:48:34 ++ hash -r
14:48:34 ++ '[' -n '' ']'
14:48:34 ++ unset VIRTUAL_ENV
14:48:34 ++ unset VIRTUAL_ENV_PROMPT
14:48:34 ++ '[' '!' nondestructive = nondestructive ']'
14:48:34 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:48:34 ++ export VIRTUAL_ENV
14:48:34 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:48:34 ++ 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
14:48:34 ++ export PATH
14:48:34 ++ '[' -n '' ']'
14:48:34 ++ '[' -z '' ']'
14:48:34 ++ _OLD_VIRTUAL_PS1=
14:48:34 ++ PS1='(.venv3) '
14:48:34 ++ export PS1
14:48:34 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
14:48:34 ++ export VIRTUAL_ENV_PROMPT
14:48:34 ++ hash -r
14:48:34 + omero admin stop
14:49:06 Server not running
14:49:06 + echo not running
14:49:06 not running
14:49:06 + sleep 5
14:49:11 + deactivate
14:49:11 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
14:49:11 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:49:11 + export PATH
14:49:11 + unset _OLD_VIRTUAL_PATH
14:49:11 + '[' -n '' ']'
14:49:11 + hash -r
14:49:11 + '[' -n '' ']'
14:49:11 + unset VIRTUAL_ENV
14:49:11 + unset VIRTUAL_ENV_PROMPT
14:49:11 + '[' '!' '' = nondestructive ']'
14:49:11 + unset -f deactivate
14:49:11 + rm -rf /home/omero/workspace/OMERO-server/.venv3
14:51:51 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
14:52:11 + '[' false = true ']'
14:52:11 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
14:52:11 Skipping PURGE_DATA:CleanDbAndRepo
14:52:11 + 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-5.22.2.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-5.32.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
14:52:17 Copied 1 artifact from "OMERO-build" build number 24
14:52:18 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 21
14:52:18 Copied 2 artifacts from "OMERO-build-build" build number 33
14:52:18 [OMERO-server] $ /bin/bash -xe /tmp/jenkins13228281963067048638.sh
14:52:18 + source /home/settings.env
14:52:18 ++ OMERO_DB_HOST=pg
14:52:18 ++ OMERO_DB_USER=postgres
14:52:18 ++ OMERO_DB_PASS=
14:52:18 ++ OMERO_ROOT_PASS=omero
14:52:18 ++ OMERO_DATA_DIR=/OMERO
14:52:18 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:52:18 + OMERO_DB_NAME=OMERO-server
14:52:18 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:52:18 + mkdir -p /home/omero/omero-server-data
14:52:18 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:52:18 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:52:18 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:52:18 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:52:18 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:52:18 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:52:18 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:52:18 ++ ls OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24.zip
14:52:18 + ZIP=OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24.zip
14:52:18 + '[' '!' -z '' ']'
14:52:18 + DIST=OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24
14:52:18 + unzip OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24.zip
14:52:18 Archive:  OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24.zip
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/blitz/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/grid/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/profiles/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/error/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/grid/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/luts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/luts/janelia/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/luts/matplotlib/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/luts/ncsa_paledit/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/luts/seaborn/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/luts/wcif/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/analysis_scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/annotation_scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/export_scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/figure_scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/import_scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/scripts/omero/util_scripts/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/server/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/misc/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__1/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__10/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__11/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__2/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__3/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__4/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__5/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__6/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__7/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__8/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__9/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__4/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__5/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__6/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__7/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.1__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.2__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.2__0/t/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.3__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.4__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.0__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.1__1/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.2__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4DEV__1/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4DEV__2/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4DEV__3/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/var/
14:52:18    creating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/var/tmp/
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/LICENSE.txt  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/backup.cfg  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/blitz/mail-senders.example  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/blitz/mail-server.example  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/build.properties  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/env.bat  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/env.sh  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/hibernate.properties  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/ice.config  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/logback-cli.xml  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/logback-indexing-cli.xml  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/logback-indexing.xml  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/logback.xml  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/mime.types  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/node1.cfg  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/node2.cfg  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/omero.properties  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/profiles/psql  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/rollover.cfg  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/Windows.cfg  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/error/maintainance.html  
14:52:18   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/grid/README  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/grid/default.xml  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/grid/templates.xml  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/grid/windefault.xml  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/ice.config  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/internal.cfg  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/master.cfg  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/templates/robot.template  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/etc/testdropbox.config  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/history.rst  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/OMEZarrReader.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/accessors-smart.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/activation.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/aggdesigner-algorithm.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/aircompressor.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/antlr.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/aopalliance.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/apiguardian-api.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/asm.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/avatica-core.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/avatica-metrics.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/aws-java-sdk-core.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/aws-java-sdk-kms.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/aws-java-sdk-s3.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/base.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-anim.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-awt-util.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-bridge.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-codec.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-constants.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-css.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-dom.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-ext.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-gvt.jar  
14:52:19   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/lib/client/batik-i18n.jar  
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14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/psf-v2.0.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/psf-v2.5.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/scons.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/slf4j.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/tablelayout.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/which.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/zlib-libpng.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/share/licenses/zpl-v2.1.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/README.txt  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/misc/Makefile  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/misc/current.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/misc/enums.py  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__1/OMERO3__7.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__10/OMERO3A__9.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__11/OMERO3A__10.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__11/OMERO3A__5.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__2/OMERO3A__1.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__3/OMERO3A__2.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__3/OMERO3__5.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__4/OMERO3A__3.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__4/OMERO3__5.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__5/OMERO3A__4.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__6/OMERO3A__5.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__7/OMERO3A__6.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__8/OMERO3A__6.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3A__9/OMERO3A__8.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__4/OMERO3__1.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__5/OMERO3__4.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__6/OMERO3__5.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO3__7/OMERO3__6.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.1__0/OMERO4__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.2__0/OMERO4.1__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.3__0/OMERO4.2__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.4__0/OMERO4.1__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4.4__0/OMERO4.3__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO4__0/OMERO3A__11.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.0__0/OMERO4.4__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.1__1/OMERO5.0__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.1__1/OMERO5.1__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.2__0/OMERO5.1__1.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/OMERO5.2__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/delete-ns-orphans.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/OMERO5.3__0.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/OMERO5.3__1.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql  
14:52:33   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql  
14:52:34   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/psql-footer.sql  
14:52:34   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/psql-header.sql  
14:52:34   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/schema.sql  
14:52:34   inflating: OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24/sql/psql/OMERO5.4__0/views.sql  
14:52:34 + rm -f OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24.zip
14:52:34 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-629-f9a7f8ddff-ice36-b24 /home/omero/workspace/OMERO-server/OMERO.server
14:52:34 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:52:34 ++ deactivate nondestructive
14:52:34 ++ '[' -n '' ']'
14:52:34 ++ '[' -n '' ']'
14:52:34 ++ hash -r
14:52:34 ++ '[' -n '' ']'
14:52:34 ++ unset VIRTUAL_ENV
14:52:34 ++ unset VIRTUAL_ENV_PROMPT
14:52:34 ++ '[' '!' nondestructive = nondestructive ']'
14:52:34 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:52:34 ++ export VIRTUAL_ENV
14:52:34 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:52:34 ++ 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
14:52:34 ++ export PATH
14:52:34 ++ '[' -n '' ']'
14:52:34 ++ '[' -z '' ']'
14:52:34 ++ _OLD_VIRTUAL_PS1=
14:52:34 ++ PS1='(.venv3) '
14:52:34 ++ export PS1
14:52:34 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
14:52:34 ++ export VIRTUAL_ENV_PROMPT
14:52:34 ++ hash -r
14:52:34 + pip install -U pip
14:52:35 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
14:52:35 Collecting pip
14:52:35   Using cached pip-26.1.2-py3-none-any.whl (1.8 MB)
14:52:35 Installing collected packages: pip
14:52:35   Attempting uninstall: pip
14:52:35     Found existing installation: pip 22.3.1
14:52:36     Uninstalling pip-22.3.1:
14:52:36       Successfully uninstalled pip-22.3.1
14:52:50 Successfully installed pip-26.1.2
14:52:50 + 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
14:52:51 Collecting zeroc-ice==3.6.5
14:52:52   Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
14:52:55      ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 13.8 MB/s  0:00:02
14:52:55 Installing collected packages: zeroc-ice
14:52:58 Successfully installed zeroc-ice-3.6.5
14:52:58 + pip install markdown
14:52:59 Collecting markdown
14:52:59   Using cached markdown-3.10.2-py3-none-any.whl.metadata (5.1 kB)
14:52:59 Using cached markdown-3.10.2-py3-none-any.whl (108 kB)
14:52:59 Installing collected packages: markdown
14:53:00 Successfully installed markdown-3.10.2
14:53:01 + pip install reportlab
14:53:02 Collecting reportlab
14:53:02   Using cached reportlab-5.0.0-py3-none-any.whl.metadata (1.6 kB)
14:53:02 Collecting pillow>=9.0.0 (from reportlab)
14:53:02   Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
14:53:02 Collecting charset-normalizer (from reportlab)
14:53:02   Using cached charset_normalizer-3.4.9-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (41 kB)
14:53:02 Using cached reportlab-5.0.0-py3-none-any.whl (2.0 MB)
14:53:02 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
14:53:03 Using cached charset_normalizer-3.4.9-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (221 kB)
14:53:03 Installing collected packages: pillow, charset-normalizer, reportlab
14:53:11 
14:53:11 Successfully installed charset-normalizer-3.4.9 pillow-12.3.0 reportlab-5.0.0
14:53:11 + pip install omego
14:53:12 Collecting omego
14:53:12   Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
14:53:12 Collecting future (from omego)
14:53:13   Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
14:53:13 Collecting yaclifw>=0.1.1 (from omego)
14:53:13   Using cached yaclifw-0.2.0-py3-none-any.whl
14:53:13 Collecting six (from yaclifw>=0.1.1->omego)
14:53:13   Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
14:53:13 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
14:53:13 Using cached future-1.0.0-py3-none-any.whl (491 kB)
14:53:13 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
14:53:13 Installing collected packages: six, future, yaclifw, omego
14:53:18 
14:53:18 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
14:53:18 + pip install tables
14:53:19 Collecting tables
14:53:19   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)
14:53:20 Collecting numpy>=1.20.0 (from tables)
14:53:20   Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
14:53:20 Collecting numexpr>=2.6.2 (from tables)
14:53:20   Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
14:53:20 Collecting packaging (from tables)
14:53:20   Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
14:53:20 Collecting py-cpuinfo (from tables)
14:53:20   Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
14:53:20 Collecting blosc2>=2.3.0 (from tables)
14:53:21   Using cached blosc2-4.9.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (7.8 kB)
14:53:21 Collecting ndindex (from blosc2>=2.3.0->tables)
14:53:21   Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
14:53:21 Collecting msgpack (from blosc2>=2.3.0->tables)
14:53:21   Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
14:53:21 Collecting pydantic (from blosc2>=2.3.0->tables)
14:53:21   Using cached pydantic-2.13.4-py3-none-any.whl.metadata (109 kB)
14:53:21 Collecting httpx[http2] (from blosc2>=2.3.0->tables)
14:53:21   Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB)
14:53:21 Collecting rich (from blosc2>=2.3.0->tables)
14:53:22   Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
14:53:22 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
14:53:22   Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
14:53:22 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables)
14:53:22   Using cached anyio-4.14.2-py3-none-any.whl.metadata (4.6 kB)
14:53:22 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables)
14:53:22   Using cached certifi-2026.7.22-py3-none-any.whl.metadata (2.5 kB)
14:53:22 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables)
14:53:22   Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB)
14:53:22 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables)
14:53:22   Using cached idna-3.18-py3-none-any.whl.metadata (6.1 kB)
14:53:22 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables)
14:53:23   Using cached h2-4.4.0-py3-none-any.whl.metadata (3.8 kB)
14:53:23 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
14:53:23   Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB)
14:53:23 Collecting hpack<5,>=4.2 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables)
14:53:23   Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB)
14:53:23 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables)
14:53:23   Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
14:53:23 Collecting typing_extensions>=4.5 (from anyio->httpx[http2]->blosc2>=2.3.0->tables)
14:53:23   Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
14:53:23 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
14:53:23   Using cached annotated_types-0.8.0-py3-none-any.whl.metadata (15 kB)
14:53:24 Collecting pydantic-core==2.46.4 (from pydantic->blosc2>=2.3.0->tables)
14:53:24   Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB)
14:53:24 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables)
14:53:24   Using cached typing_inspection-0.4.2-py3-none-any.whl.metadata (2.6 kB)
14:53:24 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
14:53:24   Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
14:53:25 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
14:53:25   Using cached pygments-2.20.0-py3-none-any.whl.metadata (2.5 kB)
14:53:25 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
14:53:25   Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
14:53:25 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)
14:53:25 Using cached blosc2-4.9.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.3 MB)
14:53:25 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB)
14:53:25 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
14:53:25 Using cached httpx-0.28.1-py3-none-any.whl (73 kB)
14:53:25 Using cached h2-4.4.0-py3-none-any.whl (62 kB)
14:53:25 Using cached hpack-4.2.0-py3-none-any.whl (34 kB)
14:53:25 Using cached httpcore-1.0.9-py3-none-any.whl (78 kB)
14:53:26 Using cached hyperframe-6.1.0-py3-none-any.whl (13 kB)
14:53:26 Using cached h11-0.16.0-py3-none-any.whl (37 kB)
14:53:26 Using cached anyio-4.14.2-py3-none-any.whl (125 kB)
14:53:26 Using cached idna-3.18-py3-none-any.whl (65 kB)
14:53:26 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
14:53:26 Using cached certifi-2026.7.22-py3-none-any.whl (136 kB)
14:53:26 Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (423 kB)
14:53:26 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
14:53:26 Using cached packaging-26.2-py3-none-any.whl (100 kB)
14:53:26 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
14:53:26 Using cached pydantic-2.13.4-py3-none-any.whl (472 kB)
14:53:26 Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
14:53:26 Using cached annotated_types-0.8.0-py3-none-any.whl (13 kB)
14:53:26 Using cached typing_inspection-0.4.2-py3-none-any.whl (14 kB)
14:53:26 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
14:53:26 Using cached pygments-2.20.0-py3-none-any.whl (1.2 MB)
14:53:26 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB)
14:53:26 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
14:53:26 Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
14:53:27 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
14:54:17 
14:54:17 Successfully installed annotated-types-0.8.0 anyio-4.14.2 blosc2-4.9.1 certifi-2026.7.22 h11-0.16.0 h2-4.4.0 hpack-4.2.0 httpcore-1.0.9 httpx-0.28.1 hyperframe-6.1.0 idna-3.18 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.1 ndindex-1.10.1 numexpr-2.14.2 numpy-2.4.6 packaging-26.2 py-cpuinfo-9.0.0 pydantic-2.13.4 pydantic-core-2.46.4 pygments-2.20.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.6.0 typing-inspection-0.4.2 typing_extensions-4.16.0
14:54:17 + pip install jinja2
14:54:18 Collecting jinja2
14:54:18   Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
14:54:19 Collecting MarkupSafe>=2.0 (from jinja2)
14:54:19   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)
14:54:19 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
14:54:19 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
14:54:19 Installing collected packages: MarkupSafe, jinja2
14:54:20 
14:54:20 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
14:54:20 + pip install omero-py
14:54:21 Collecting omero-py
14:54:21   Using cached omero_py-5.22.1-py3-none-any.whl.metadata (6.5 kB)
14:54:21 Collecting appdirs (from omero-py)
14:54:21   Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
14:54:21 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
14:54:21 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
14:54:21 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
14:54:21 Collecting PyYAML (from omero-py)
14:54:21   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)
14:54:21 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
14:54:21 Collecting requests (from omero-py)
14:54:21   Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
14:54:21 Collecting portalocker (from omero-py)
14:54:21   Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
14:54:21 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.9)
14:54:21 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.18)
14:54:21 Collecting urllib3<3,>=1.26 (from requests->omero-py)
14:54:21   Using cached urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB)
14:54:21 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.7.22)
14:54:21 Using cached omero_py-5.22.1-py3-none-any.whl (2.8 MB)
14:54:22 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
14:54:22 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
14:54:22 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
14:54:22 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
14:54:22 Using cached urllib3-2.7.0-py3-none-any.whl (131 kB)
14:54:22 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py
14:54:41 
14:54:41 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.22.1 portalocker-3.2.0 requests-2.34.2 urllib3-2.7.0
14:54:41 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
14:54:42 Collecting omero-metadata
14:54:42   Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-9duf_hvz/omero-metadata_2b46d6b208a744e1a92c902cc0fe4cd5
14:54:42   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-9duf_hvz/omero-metadata_2b46d6b208a744e1a92c902cc0fe4cd5
14:54:43   Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit ed874a459a38fb0d0b9d863dc77300fe3c73873c
14:54:43   Installing build dependencies: started
14:54:44   Installing build dependencies: finished with status 'done'
14:54:44   Getting requirements to build wheel: started
14:54:45   Getting requirements to build wheel: finished with status 'done'
14:54:45   Preparing metadata (pyproject.toml): started
14:54:45   Preparing metadata (pyproject.toml): finished with status 'done'
14:54:45 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.22.1)
14:54:45 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
14:54:45 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
14:54:45 Collecting pandas (from omero-metadata)
14:54:45   Using cached pandas-3.0.5-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
14:54:45 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
14:54:45 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
14:54:45 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.6)
14:54:45 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)
14:54:45 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
14:54:45 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
14:54:45 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
14:54:45 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
14:54:45 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
14:54:45   Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
14:54:45 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
14:54:46 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.9)
14:54:46 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.18)
14:54:46 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)
14:54:46 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)
14:54:46 Using cached pandas-3.0.5-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (11.3 MB)
14:54:46 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
14:54:46 Building wheels for collected packages: omero-metadata
14:54:46   Building wheel for omero-metadata (pyproject.toml): started
14:54:46   Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
14:54:46   Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=2ebfaa6ec500b76363618cc03c855d61a28d4aae29f0acf5b78f10b7f6e8b832
14:54:46   Stored in directory: /tmp/pip-ephem-wheel-cache-wy_omclq/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
14:54:46 Successfully built omero-metadata
14:54:46 Installing collected packages: python-dateutil, pandas, omero-metadata
14:55:26 
14:55:26 Successfully installed omero-metadata-0.13.1.dev0 pandas-3.0.5 python-dateutil-2.9.0.post0
14:55:26 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
14:55:27 Collecting omero-cli-render
14:55:27   Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-_uq2e9_t/omero-cli-render_c242dac2e22e492fa4220a703f0f0eff
14:55:27   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-_uq2e9_t/omero-cli-render_c242dac2e22e492fa4220a703f0f0eff
14:55:28   Running command git checkout -b merge_ci --track origin/merge_ci
14:55:29   Switched to a new branch 'merge_ci'
14:55:29   branch 'merge_ci' set up to track 'origin/merge_ci'.
14:55:29   Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 0e896035ac09a54adef6645b2fb4dcfc8db6c447
14:55:29   Installing build dependencies: started
14:55:30   Installing build dependencies: finished with status 'done'
14:55:30   Getting requirements to build wheel: started
14:55:30   Getting requirements to build wheel: finished with status 'done'
14:55:30   Preparing metadata (pyproject.toml): started
14:55:31   Preparing metadata (pyproject.toml): finished with status 'done'
14:55:31 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
14:55:31 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.22.1)
14:55:31 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
14:55:31 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
14:55:31 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)
14:55:31 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)
14:55:31 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)
14:55:31 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
14:55:31 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
14:55:31 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.9)
14:55:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.18)
14:55:31 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)
14:55:31 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)
14:55:31 Building wheels for collected packages: omero-cli-render
14:55:31   Building wheel for omero-cli-render (pyproject.toml): started
14:55:31   Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
14:55:31   Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19838 sha256=085a166c40c9db780e36b7e500db76902bd37023a61d009e30235e51608af090
14:55:31   Stored in directory: /tmp/pip-ephem-wheel-cache-9n6yaje1/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
14:55:31 Successfully built omero-cli-render
14:55:31 Installing collected packages: omero-cli-render
14:55:31 Successfully installed omero-cli-render-0.8.2.dev0
14:55:31 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
14:55:32 Collecting omero-cli-duplicate
14:55:32   Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-t7dti2dw/omero-cli-duplicate_da06c958437f4c2582c4b2d7d084a3ae
14:55:32   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-t7dti2dw/omero-cli-duplicate_da06c958437f4c2582c4b2d7d084a3ae
14:55:33   Running command git checkout -b merge_ci --track origin/merge_ci
14:55:34   Switched to a new branch 'merge_ci'
14:55:34   branch 'merge_ci' set up to track 'origin/merge_ci'.
14:55:34   Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 828164f477fcf63069ae2f397a883dd25ccb7c06
14:55:34   Installing build dependencies: started
14:55:35   Installing build dependencies: finished with status 'done'
14:55:35   Getting requirements to build wheel: started
14:55:35   Getting requirements to build wheel: finished with status 'done'
14:55:35   Preparing metadata (pyproject.toml): started
14:55:36   Preparing metadata (pyproject.toml): finished with status 'done'
14:55:36 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.22.1)
14:55:36 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
14:55:36 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
14:55:36 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
14:55:36 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)
14:55:36 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
14:55:36 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)
14:55:36 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
14:55:36 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
14:55:36 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.9)
14:55:36 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.18)
14:55:36 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)
14:55:36 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)
14:55:36 Building wheels for collected packages: omero-cli-duplicate
14:55:36   Building wheel for omero-cli-duplicate (pyproject.toml): started
14:55:36   Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
14:55:36   Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11538 sha256=e3a24c5c68ee263ba6709b01791cd829065041d70a5834381e17097d2a590620
14:55:36   Stored in directory: /tmp/pip-ephem-wheel-cache-sjm5xbwa/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
14:55:36 Successfully built omero-cli-duplicate
14:55:36 Installing collected packages: omero-cli-duplicate
14:55:36 Successfully installed omero-cli-duplicate-0.4.1.dev0
14:55:36 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
14:55:37 Collecting omero-cli-zarr
14:55:37   Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-emkjl4dv/omero-cli-zarr_9c69d5efa6f641e78a2821a0a24f7d1c
14:55:37   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-emkjl4dv/omero-cli-zarr_9c69d5efa6f641e78a2821a0a24f7d1c
14:55:38   Running command git checkout -b merge_ci --track origin/merge_ci
14:55:38   Switched to a new branch 'merge_ci'
14:55:38   branch 'merge_ci' set up to track 'origin/merge_ci'.
14:55:38   Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 87aea469443e897d953c8c85b60ed0156c1776b1
14:55:38   Installing build dependencies: started
14:55:40   Installing build dependencies: finished with status 'done'
14:55:40   Getting requirements to build wheel: started
14:55:40   Getting requirements to build wheel: finished with status 'done'
14:55:40   Installing backend dependencies: started
14:55:42   Installing backend dependencies: finished with status 'done'
14:55:42   Preparing metadata (pyproject.toml): started
14:55:42   Preparing metadata (pyproject.toml): finished with status 'done'
14:55:42 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.22.1)
14:55:42 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
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14:55:42 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:55:42   Using cached dask-2026.7.1-py3-none-any.whl.metadata (3.8 kB)
14:55:43 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:43 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)
14:55:43   Using cached fsspec-2026.6.0-py3-none-any.whl.metadata (10 kB)
14:55:43 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
14:55:43   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)
14:55:43 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
14:55:44 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:55:44   Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
14:55:44 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
14:55:44   Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
14:55:44 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
14:55:44   Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
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14:55:44   Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB)
14:55:44 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
14:55:44   Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
14:55:44 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:55:44   Using cached click-8.4.2-py3-none-any.whl.metadata (2.6 kB)
14:55:44 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:44 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:45 Collecting importlib_metadata>=4.13.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:45 Collecting s3fs>2024.2.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:45 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)
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14:55:46 Collecting pydantic-core==2.41.5 (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:46 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
14:55:46 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
14:55:46 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)
14:55:46 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)
14:55:46 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.2.0)
14:55:46 Collecting locket (from partd>=1.4.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:46 Collecting aiobotocore<4.0.0,>=2.19.0 (from s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:46 Collecting aioitertools<1.0.0,>=0.5.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:47 Collecting jmespath<2.0.0,>=0.7.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:48 Collecting wrapt<3.0.0,>=1.10.10 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
14:55:48   Downloading wrapt-2.3.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
14:55:48 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
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14:55:53 Building wheels for collected packages: omero-cli-zarr
14:55:53   Building wheel for omero-cli-zarr (pyproject.toml): started
14:55:53   Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
14:55:53   Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev168+g87aea46-py3-none-any.whl size=38399 sha256=c6a17fbcb06a1b650e49514cd40babda6f814d77f7e676a5b49bd4140d8eb0e8
14:55:53   Stored in directory: /tmp/pip-ephem-wheel-cache-wwvld0vb/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
14:55:53 Successfully built omero-cli-zarr
14:55:53 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
14:56:28   Attempting uninstall: pydantic-core
14:56:28     Found existing installation: pydantic_core 2.46.4
14:56:28     Uninstalling pydantic_core-2.46.4:
14:56:28       Successfully uninstalled pydantic_core-2.46.4
14:57:02   Attempting uninstall: pydantic
14:57:03     Found existing installation: pydantic 2.13.4
14:57:03     Uninstalling pydantic-2.13.4:
14:57:03       Successfully uninstalled pydantic-2.13.4
14:57:44 
14:57:44 Successfully installed Deprecated-1.3.1 aiobotocore-3.8.0 aiohappyeyeballs-2.7.1 aiohttp-3.14.3 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.46 click-8.4.2 cloudpickle-3.1.2 dask-2026.7.1 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.6.0 google-crc32c-1.8.0 imageio-2.37.4 importlib_metadata-9.0.0 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.dev168+g87aea46 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-2026.6.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.3.0 yarl-1.24.5 zarr-3.1.6 zipp-4.1.0
14:57:44 + pip install omero-certificates
14:57:45 Collecting omero-certificates
14:57:45   Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
14:57:45 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.22.1)
14:57:45 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
14:57:45 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
14:57:45 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
14:57:45 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)
14:57:45 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
14:57:45 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
14:57:45 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
14:57:45 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
14:57:45 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.9)
14:57:45 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.18)
14:57:45 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)
14:57:45 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)
14:57:45 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
14:57:46 Installing collected packages: omero-certificates
14:57:46 Successfully installed omero-certificates-0.4.0
14:57:46 + for x in *.tar.gz
14:57:46 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
14:57:47 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
14:57:47   Installing build dependencies: started
14:57:48   Installing build dependencies: finished with status 'done'
14:57:48   Getting requirements to build wheel: started
14:57:48   Getting requirements to build wheel: finished with status 'done'
14:57:48   Preparing metadata (pyproject.toml): started
14:57:49   Preparing metadata (pyproject.toml): finished with status 'done'
14:57:49 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.22.1)
14:57:49 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
14:57:49 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
14:57:49 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)
14:57:49 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)
14:57:49 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
14:57:49 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)
14:57:49 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
14:57:49 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
14:57:49 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.9)
14:57:49 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.18)
14:57:49 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)
14:57:49 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)
14:57:49 Building wheels for collected packages: omero-dropbox
14:57:49   Building wheel for omero-dropbox (pyproject.toml): started
14:57:49   Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
14:57:49   Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49153 sha256=9049c8cf6b473c899db01c7564d1b65e5aba045ed83d89bf72286c946d8584d7
14:57:49   Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
14:57:49 Successfully built omero-dropbox
14:57:49 Installing collected packages: omero-dropbox
14:57:50 Successfully installed omero-dropbox-5.7.1.dev0
14:57:50 + for x in *.tar.gz
14:57:50 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
14:57:51 Processing ./omero_marshal-0.9.2.dev0.tar.gz
14:57:51   Installing build dependencies: started
14:57:52   Installing build dependencies: finished with status 'done'
14:57:52   Getting requirements to build wheel: started
14:57:53   Getting requirements to build wheel: finished with status 'done'
14:57:53   Preparing metadata (pyproject.toml): started
14:57:53   Preparing metadata (pyproject.toml): finished with status 'done'
14:57:53 Building wheels for collected packages: omero_marshal
14:57:53   Building wheel for omero_marshal (pyproject.toml): started
14:57:53   Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
14:57:53   Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88129 sha256=092332960f215cdd7d00c3d0417540ca1167fcad267c297da7010fc80c3738f2
14:57:53   Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
14:57:53 Successfully built omero_marshal
14:57:54 Installing collected packages: omero_marshal
14:57:56 Successfully installed omero_marshal-0.9.2.dev0
14:57:56 + for x in *.tar.gz
14:57:56 + pip install -U omero_py-5.22.2.dev0.tar.gz
14:57:57 Processing ./omero_py-5.22.2.dev0.tar.gz
14:57:57   Installing build dependencies: started
14:57:59   Installing build dependencies: finished with status 'done'
14:57:59   Getting requirements to build wheel: started
14:57:59   Getting requirements to build wheel: finished with status 'done'
14:57:59   Preparing metadata (pyproject.toml): started
14:58:00   Preparing metadata (pyproject.toml): finished with status 'done'
14:58:00 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.4.4)
14:58:00 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.0.0)
14:58:00 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.4.6)
14:58:00 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (12.3.0)
14:58:00 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (6.0.3)
14:58:00 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.6.5)
14:58:00 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.34.2)
14:58:00 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.2.0)
14:58:00 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.4.9)
14:58:00 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.18)
14:58:00 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2.7.0)
14:58:00 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2026.7.22)
14:58:00 Building wheels for collected packages: omero-py
14:58:00   Building wheel for omero-py (pyproject.toml): started
14:58:01   Building wheel for omero-py (pyproject.toml): finished with status 'done'
14:58:01   Created wheel for omero-py: filename=omero_py-5.22.2.dev0-py3-none-any.whl size=2787060 sha256=c9a31decb9c73115554eb72749b4a8ca714c443781aea65690739b9b108b74d8
14:58:01   Stored in directory: /home/omero/.cache/pip/wheels/ec/3f/72/4027ca0a7faf1f66d4577cc07619b0497ac8e99396d43dd8fa
14:58:01 Successfully built omero-py
14:58:01 Installing collected packages: omero-py
14:58:01   Attempting uninstall: omero-py
14:58:01     Found existing installation: omero-py 5.22.1
14:58:02     Uninstalling omero-py-5.22.1:
14:58:12       Successfully uninstalled omero-py-5.22.1
14:58:29 Successfully installed omero-py-5.22.2.dev0
14:58:29 + for x in *.tar.gz
14:58:29 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
14:58:30 Processing ./omero_scripts-5.10.1.dev0.tar.gz
14:58:30   Installing build dependencies: started
14:58:31   Installing build dependencies: finished with status 'done'
14:58:31   Getting requirements to build wheel: started
14:58:32   Getting requirements to build wheel: finished with status 'done'
14:58:32   Preparing metadata (pyproject.toml): started
14:58:32   Preparing metadata (pyproject.toml): finished with status 'done'
14:58:32 Building wheels for collected packages: omero-scripts
14:58:32   Building wheel for omero-scripts (pyproject.toml): started
14:58:32   Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
14:58:32   Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137216 sha256=570ab26b2a6753e2e6b791f87134bbeeff9b486eb0f475cce3ca258b135095ec
14:58:32   Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
14:58:32 Successfully built omero-scripts
14:58:32 Installing collected packages: omero-scripts
14:58:33 Successfully installed omero-scripts-5.10.1.dev0
14:58:33 + for x in *.tar.gz
14:58:33 + pip install -U omero_web-5.32.1.dev0.tar.gz
14:58:34 Processing ./omero_web-5.32.1.dev0.tar.gz
14:58:34   Installing build dependencies: started
14:58:36   Installing build dependencies: finished with status 'done'
14:58:36   Getting requirements to build wheel: started
14:58:36   Getting requirements to build wheel: finished with status 'done'
14:58:36   Preparing metadata (pyproject.toml): started
14:58:37   Preparing metadata (pyproject.toml): finished with status 'done'
14:58:37 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (5.22.2.dev0)
14:58:37 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.32.1.dev0)
14:58:37   Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
14:58:37 Collecting Django<5.3,>=5.2.9 (from omero-web==5.32.1.dev0)
14:58:37   Using cached django-5.2.16-py3-none-any.whl.metadata (4.1 kB)
14:58:37 Collecting django-pipeline>=4.1.0 (from omero-web==5.32.1.dev0)
14:58:37   Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
14:58:37 Collecting django-cors-headers==3.7.0 (from omero-web==5.32.1.dev0)
14:58:37   Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
14:58:37 Collecting whitenoise>=5.3.0 (from omero-web==5.32.1.dev0)
14:58:37   Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
14:58:38 Collecting gunicorn>=19.3 (from omero-web==5.32.1.dev0)
14:58:38   Using cached gunicorn-26.0.0-py3-none-any.whl.metadata (5.4 kB)
14:58:38 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (0.9.2.dev0)
14:58:38 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (12.3.0)
14:58:38 Collecting pytz (from omero-web==5.32.1.dev0)
14:58:38   Using cached pytz-2026.3.post1-py2.py3-none-any.whl.metadata (22 kB)
14:58:38 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (3.2.0)
14:58:38 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (26.2)
14:58:38 Collecting importlib-resources (from omero-web==5.32.1.dev0)
14:58:38   Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
14:58:38 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
14:58:38   Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB)
14:58:38 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
14:58:38   Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
14:58:38 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0) (65.5.1)
14:58:38 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0)
14:58:38   Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
14:58:38 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (1.4.4)
14:58:38 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (1.0.0)
14:58:38 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.4.6)
14:58:38 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (6.0.3)
14:58:38 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==5.32.1.dev0) (3.6.5)
14:58:38 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.34.2)
14:58:38 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (3.4.9)
14:58:38 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (3.18)
14:58:38 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.7.0)
14:58:38 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (2026.7.22)
14:58:38 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
14:58:38 Using cached django-5.2.16-py3-none-any.whl (8.3 MB)
14:58:38 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB)
14:58:38 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
14:58:38 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
14:58:38 Using cached gunicorn-26.0.0-py3-none-any.whl (212 kB)
14:58:39 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
14:58:39 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
14:58:39 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
14:58:39 Using cached pytz-2026.3.post1-py2.py3-none-any.whl (508 kB)
14:58:39 Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
14:58:39 Building wheels for collected packages: omero-web
14:58:39   Building wheel for omero-web (pyproject.toml): started
14:58:40   Building wheel for omero-web (pyproject.toml): finished with status 'done'
14:58:40   Created wheel for omero-web: filename=omero_web-5.32.1.dev0-py3-none-any.whl size=2820645 sha256=0f0be837c5618270ab85aea5c011197b0bc140baa4811d5d9761590e1c14ca28
14:58:40   Stored in directory: /home/omero/.cache/pip/wheels/e6/f6/6f/ec36dda9edad720aabd7330edafa8a6a62d6ebfa4c7467248f
14:58:40 Successfully built omero-web
14:58:40 Installing collected packages: pytz, whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
14:59:51 
14:59:52 Successfully installed Django-5.2.16 asgiref-3.12.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.0.0 importlib-resources-7.1.0 omero-web-5.32.1.dev0 pytz-2026.3.post1 sqlparse-0.5.5 wheel-0.47.0 whitenoise-6.12.0
14:59:52 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:59:52 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
14:59:52 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
14:59:52 --2026-07-28 14:59:52--  https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:59:52 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.110.133, 185.199.108.133, ...
14:59:52 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
14:59:52 HTTP request sent, awaiting response... 200 OK
14:59:52 Length: 139337 (136K) [text/plain]
14:59:52 Saving to: ‘Figure_To_Pdf.py’
14:59:52 
14:59:52      0K .......... .......... .......... .......... .......... 36% 2.90M 0s
14:59:52     50K .......... .......... .......... .......... .......... 73% 10.5M 0s
14:59:52    100K .......... .......... .......... ......               100% 3.51M=0.03s
14:59:52 
14:59:52 2026-07-28 14:59:52 (4.22 MB/s) - ‘Figure_To_Pdf.py’ saved [139337/139337]
14:59:52 
14:59:52 + chmod 755 Figure_To_Pdf.py
14:59:52 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
14:59:52 + omero config set omero.db.name OMERO-server
14:59:59 + omero config set omero.db.host pg
15:00:04 + omero config set omero.db.user postgres
15:00:09 + omero config set omero.data.dir /home/omero/omero-server-data
15:00:14 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
15:00:19 + omero config set omero.db.poolsize 25
15:00:24 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
15:00:29 + omero config set omero.security.trustStorePassword changeit
15:00:34 + omero config set omero.mail.config true
15:00:39 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
15:00:44 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
15:00:49 + omero certificates
15:00:54 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
15:00:54 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
15:00:54 + '[' false = true ']'
15:00:54 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
15:00:54 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
15:00:54 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG            dbcommand => upgrade
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG               dbhost => localhost
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG               dbname => OMERO-server
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG               dbpass => omero
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG               dbuser => omero
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG             rootpass => omero
15:00:54 2026-07-28 15:00:54,789 [    omego.db] DEBUG            serverdir => /home/omero/workspace/OMERO-server/OMERO.server
15:00:54 2026-07-28 15:00:54,790 [omego.extern] INFO  Executing : omero version
15:00:59 OMERO.py version:
15:00:59 OMERO.server version:
15:00:59 5.6.3-629-f9a7f8ddff-ice36-b24
15:00:59 5.22.2.dev0
15:00:59 2026-07-28 15:00:59,822 [omego.extern] INFO  Completed [5.032 s]
15:00:59 2026-07-28 15:00:59,823 [omego.extern] DEBUG Using omero CLI from omero
15:00:59 2026-07-28 15:00:59,823 [    omego.db] INFO  DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
15:00:59 2026-07-28 15:00:59,823 [omego.extern] INFO  Running [current environment]: omero config get --show-password
15:00:59 2026-07-28 15:00:59,823 [omego.extern] INFO  Executing : omero config get --show-password
15:01:04 2026-07-28 15:01:04,752 [omego.extern] INFO  Completed [4.928 s]
15:01:04 2026-07-28 15:01:04,752 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
15:01:04 2026-07-28 15:01:04,752 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
15:01:04 2026-07-28 15:01:04,758 [omego.extern] INFO  Completed [0.006 s]
15:01:04 2026-07-28 15:01:04,758 [    omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
15:01:04 2026-07-28 15:01:04,758 [    omego.db] INFO  psql version: psql (PostgreSQL) 16.14
15:01:04 
15:01:04 2026-07-28 15:01:04,758 [omego.extern] INFO  Running [current environment]: omero config get --show-password
15:01:04 2026-07-28 15:01:04,758 [omego.extern] INFO  Executing : omero config get --show-password
15:01:09 2026-07-28 15:01:09,599 [omego.extern] INFO  Completed [4.840 s]
15:01:09 2026-07-28 15:01:09,599 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
15:01:09 2026-07-28 15:01:09,599 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
15:01:09 2026-07-28 15:01:09,617 [omego.extern] INFO  Completed [0.018 s]
15:01:09 2026-07-28 15:01:09,617 [    omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.7") at port "5432".\n'
15:01:09 2026-07-28 15:01:09,617 [    omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
15:01:09 2026-07-28 15:01:09,617 [omego.extern] INFO  Running [current environment]: omero config get --show-password
15:01:09 2026-07-28 15:01:09,617 [omego.extern] INFO  Executing : omero config get --show-password
15:01:14 2026-07-28 15:01:14,782 [omego.extern] INFO  Completed [5.165 s]
15:01:14 2026-07-28 15:01:14,783 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
15:01:14 2026-07-28 15:01:14,783 [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
15:01:14 2026-07-28 15:01:14,967 [omego.extern] INFO  Completed [0.184 s]
15:01:14 2026-07-28 15:01:14,967 [    omego.db] DEBUG stdout: b'OMERO5.4|0\n'
15:01:14 2026-07-28 15:01:14,967 [    omego.db] INFO  Current omero db version: ('OMERO5.4', '0')
15:01:15 2026-07-28 15:01:15,008 [    omego.db] INFO  Database is already at OMERO5.4__0
15:01:15 + export LANG=en_US.UTF-8
15:01:15 + LANG=en_US.UTF-8
15:01:15 + export LANGUAGE=en_US:en
15:01:15 + LANGUAGE=en_US:en
15:01:15 + export LC_ALL=en_US.UTF-8
15:01:15 + LC_ALL=en_US.UTF-8
15:01:15 + BUILD_ID=DONT_KILL_ME
15:01:15 + omero admin start
15:01:25 WARNING: lock files in /home/omero/omero-server-data
15:01:25 ----------------------------------------
15:01:25 /home/omero/omero-server-data/.omero/repository/a3d421b1-9991-42f6-9eb8-867f8e8779af/.lock
15:01:25 ----------------------------------------
15:01:25 
15:01:25 You may want to stop all server processes and remove
15:01:25 these files manually. Lock files can remain after an
15:01:25 abrupt server outage and are especially frequent on
15:01:25 remotely mounted filesystems like NFS.
15:01:25 
15:01:25 No descriptor given. Using etc/grid/default.xml
15:01:35 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
15:01:35 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
15:01:35 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
15:01:35 Waiting on startup. Use CTRL-C to exit
15:01:35 + omero admin waitup
15:01:40 Waiting on startup. Use CTRL-C to exit
15:01:40 + omero admin diagnostics
15:01:45 
15:01:45 ================================================================================
15:01:45 OMERO Diagnostics (admin)
15:01:45 ================================================================================
15:01:45         
15:01:45 Commands:   java -version                  21.0.11   (/usr/bin/java)
15:01:45 Commands:   python -V                      3.11.13   (/home/omero/workspace/OMERO-server/.venv3/bin/python)
15:01:45 Commands:   icegridnode --version          3.6.5     (/opt/ice-3.6.5/bin/icegridnode)
15:01:45 Commands:   icegridadmin --version         3.6.5     (/opt/ice-3.6.5/bin/icegridadmin)
15:01:45 Commands:   psql --version                 16.14     (/usr/bin/psql)
15:01:45 Commands:   openssl version                3.5.527   (/usr/bin/openssl)
15:01:45 
15:01:45 Component:  OMERO.py                       5.22.2.dev0
15:01:45 Component:  OMERO.server                   5.6.3-629-f9a7f8ddff-ice36-b24
15:01:45 
15:01:45 Server:     icegridnode                    running
15:01:45 Server:     Blitz-0                        active (pid = 3399, enabled)
15:01:45 Server:     Indexer-0                      active (pid = 3434, enabled)
15:01:45 Server:     OMERO.Glacier2                 active (pid = 3423, enabled)
15:01:45 Server:     OMERO.IceStorm                 active (pid = 3435, enabled)
15:01:45 Server:     Processor-0                    active (pid = 3452, enabled)
15:01:45 Server:     Tables-0                       active (pid = 3427, enabled)
15:01:45 
15:01:45 Log dir:    /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
15:01:45 Log files:  Blitz-0.log                    32.1 KB       errors=0    warnings=1   
15:01:45 Log files:  DropBox.log                    n/a
15:01:45 Log files:  FileServer.log                 n/a
15:01:45 Log files:  Indexer-0.log                  2.6 KB       
15:01:45 Log files:  MonitorServer.log              n/a
15:01:45 Log files:  Processor-0.log                735 B        
15:01:45 Log files:  Tables-0.log                   961 B        
15:01:45 Log files:  TestDropBox.log                n/a
15:01:45 Log files:  master.err                     empty
15:01:45 Log files:  master.out                     30.5 KB      
15:01:45 Log files:  Total size                     0.07 MB
15:01:45 
15:01:45 
15:01:45 Environment:OMERO_HOME=(unset)             
15:01:45 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 
15:01:45 Environment:OMERO_NODE=(unset)             
15:01:45 Environment:OMERO_MASTER=(unset)           
15:01:45 Environment:OMERO_USERDIR=(unset)          
15:01:45 Environment:OMERO_TMPDIR=(unset)           
15:01:45 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 
15:01:45 Environment:PYTHONPATH=(unset)             
15:01:45 Environment:ICE_HOME=/opt/ice-3.6.5        
15:01:45 Environment:LD_LIBRARY_PATH=(unset)        
15:01:45 Environment:DYLD_LIBRARY_PATH=(unset)      
15:01:45 
15:01:45 OMERO SSL port:4064                           
15:01:45 OMERO TCP port:4063                           
15:01:45 OMERO data dir:'/home/omero/omero-server-data' Exists? True	Is writable? True
15:01:45 OMERO temp dir:'/home/omero/omero/tmp'        Exists? True	Is writable? True   (Size: 0)
15:01:45 
15:01:45 JVM settings: Blitz-${index}                -Xmx7200m
15:01:45 JVM settings: Indexer-${index}              -Xmx4800m
15:01:45 JVM settings: PixelData-${index}            -Xmx7200m
15:01:45 JVM settings: Repository-${index}           -Xmx4800m
15:01:46 
15:01:46 Jar:        lib/server/formats-api.jar     Bio-Formats API	8.5.0	18 March 2026	877c317e4e396381dc76e56c1539b24947f71dce
15:01:46 Jar:        lib/server/formats-bsd.jar     BSD Bio-Formats readers and writers	8.5.0	18 March 2026	877c317e4e396381dc76e56c1539b24947f71dce
15:01:46 Jar:        lib/server/formats-gpl.jar     Bio-Formats library	8.5.0	18 March 2026	877c317e4e396381dc76e56c1539b24947f71dce
15:01:46 Jar:        lib/server/ome-codecs.jar      OME Codecs	1.1.3	26 February 2026	70fd9b72a9834f1af4852c1e5b5676c57a2c360e
15:01:46 Jar:        lib/server/ome-common.jar      OME Common Java	6.2.1	27 February 2026	a24fbcbf04a3a3acba14e9575d7fb1d36a484dff
15:01:46 Jar:        lib/server/ome-jai.jar         OME JAI	0.1.5	30 June 2025	257a1c1410c0103485248d05752a5174262a38b6
15:01:46 Jar:        lib/server/ome-mdbtools.jar    MDB Tools (Java port)	5.3.4	25 June 2025	57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37
15:01:46 Jar:        lib/server/ome-poi.jar         OME POI	5.3.11	11 November 2025	a2f3944ac71db9e7e51a6f64ec46beeb60613afb
15:01:46 Jar:        lib/server/ome-xml.jar         OME XML library	6.5.3	22 January 2026	21d1362abd9ce26e13888d2b2d028753d21ac96e
15:01:46 Jar:        lib/server/omero-blitz.jar     jar	5.8.6-SNAPSHOT		
15:01:46 Jar:        lib/server/omero-common.jar    jar	5.7.6-SNAPSHOT		
15:01:46 Jar:        lib/server/omero-gateway.jar   jar	5.11.1-SNAPSHOT		
15:01:46 Jar:        lib/server/omero-model.jar     jar	5.7.6-SNAPSHOT		
15:01:46 Jar:        lib/server/omero-renderer.jar  jar	5.6.6-SNAPSHOT		
15:01:46 Jar:        lib/server/omero-romio.jar     jar	5.8.6-SNAPSHOT		
15:01:46 Jar:        lib/server/omero-server.jar    jar	5.7.6-SNAPSHOT		
15:01:46 + deactivate
15:01:46 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
15:01:46 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
15:01:46 + export PATH
15:01:46 + unset _OLD_VIRTUAL_PATH
15:01:46 + '[' -n '' ']'
15:01:46 + hash -r
15:01:46 + '[' -n '' ']'
15:01:46 + unset VIRTUAL_ENV
15:01:46 + unset VIRTUAL_ENV_PROMPT
15:01:46 + '[' '!' '' = nondestructive ']'
15:01:46 + unset -f deactivate
15:01:46 Finished: SUCCESS