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00:48:07 Started by upstream project "Trigger" build number 322
00:48:07 originally caused by:
00:48:07  Started by timer
00:48:07 Running as SYSTEM
00:48:07 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:48:07 [OMERO-server] $ /bin/bash -xe /tmp/jenkins10263385997040283068.sh
00:48:08 + source /home/settings.env
00:48:08 ++ OMERO_DB_HOST=pg
00:48:08 ++ OMERO_DB_USER=postgres
00:48:08 ++ OMERO_DB_PASS=
00:48:08 ++ OMERO_ROOT_PASS=omero
00:48:08 ++ OMERO_DATA_DIR=/OMERO
00:48:08 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:48:08 + OMERO_DB_NAME=OMERO-server
00:48:08 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:48:08 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:08 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:08 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:48:08 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:48:08 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:48:08 ++ deactivate nondestructive
00:48:08 ++ '[' -n '' ']'
00:48:08 ++ '[' -n '' ']'
00:48:08 ++ '[' -n /bin/bash -o -n '' ']'
00:48:08 ++ hash -r
00:48:08 ++ '[' -n '' ']'
00:48:08 ++ unset VIRTUAL_ENV
00:48:08 ++ '[' '!' nondestructive = nondestructive ']'
00:48:08 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:48:08 ++ export VIRTUAL_ENV
00:48:08 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:08 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:08 ++ export PATH
00:48:08 ++ '[' -n '' ']'
00:48:08 ++ '[' -z '' ']'
00:48:08 ++ _OLD_VIRTUAL_PS1=
00:48:08 ++ PS1='(.venv3) '
00:48:08 ++ export PS1
00:48:08 ++ '[' -n /bin/bash -o -n '' ']'
00:48:08 ++ hash -r
00:48:08 + omero admin stop
00:48:31 Waiting on shutdown. Use CTRL-C to exit
00:48:31 .+ sleep 5
00:48:46 + deactivate
00:48:46 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:48:46 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:46 + export PATH
00:48:46 + unset _OLD_VIRTUAL_PATH
00:48:46 + '[' -n '' ']'
00:48:46 + '[' -n /bin/bash -o -n '' ']'
00:48:46 + hash -r
00:48:46 + '[' -n '' ']'
00:48:46 + unset VIRTUAL_ENV
00:48:46 + '[' '!' '' = nondestructive ']'
00:48:46 + unset -f deactivate
00:48:46 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:48:47 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:48:52 + '[' false = true ']'
00:48:52 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:48:52 Skipping PURGE_DATA:CleanDbAndRepo
00:48:52 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.1-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.6.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.28.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:48:55 Copied 1 artifact from "OMERO-build" build number 274
00:48:55 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 270
00:48:55 Copied 2 artifacts from "OMERO-build-build" build number 281
00:48:55 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7366671887753587505.sh
00:48:55 + source /home/settings.env
00:48:55 ++ OMERO_DB_HOST=pg
00:48:55 ++ OMERO_DB_USER=postgres
00:48:55 ++ OMERO_DB_PASS=
00:48:55 ++ OMERO_ROOT_PASS=omero
00:48:55 ++ OMERO_DATA_DIR=/OMERO
00:48:55 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:48:55 + OMERO_DB_NAME=OMERO-server
00:48:55 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:48:55 + mkdir -p /home/omero/omero-server-data
00:48:55 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:48:55 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:55 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:55 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:48:55 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:48:55 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:48:55 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:48:55 ++ ls OMERO.server-5.6.3-531-07a144c9ad-ice36.zip
00:48:55 + ZIP=OMERO.server-5.6.3-531-07a144c9ad-ice36.zip
00:48:55 + '[' '!' -z '' ']'
00:48:55 + DIST=OMERO.server-5.6.3-531-07a144c9ad-ice36
00:48:55 + unzip OMERO.server-5.6.3-531-07a144c9ad-ice36.zip
00:48:55 Archive:  OMERO.server-5.6.3-531-07a144c9ad-ice36.zip
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/blitz/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/grid/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/profiles/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/error/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/grid/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/luts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/luts/janelia/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/luts/matplotlib/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/luts/ncsa_paledit/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/luts/seaborn/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/luts/wcif/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/analysis_scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/annotation_scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/export_scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/figure_scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/import_scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/scripts/omero/util_scripts/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/server/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/share/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/share/licenses/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/misc/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__1/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__10/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__11/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__2/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__3/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__4/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__5/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__6/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__7/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__8/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3A__9/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3__4/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3__5/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3__6/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO3__7/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4.1__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4.2__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4.2__0/t/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4.3__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4.4__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.0__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.1__1/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.2__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4DEV__1/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4DEV__2/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4DEV__3/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/
00:48:55    creating: OMERO.server-5.6.3-531-07a144c9ad-ice36/var/
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/LICENSE.txt  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/backup.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/blitz/mail-senders.example  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/blitz/mail-server.example  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/build.properties  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/env.bat  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/env.sh  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/hibernate.properties  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/ice.config  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/logback-cli.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/logback-indexing-cli.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/logback-indexing.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/logback.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/mime.types  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/node1.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/node2.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/omero.properties  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/profiles/psql  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/rollover.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/Windows.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/error/maintainance.html  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/grid/README  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/grid/default.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/grid/templates.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/grid/windefault.xml  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/ice.config  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/internal.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/master.cfg  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/templates/robot.template  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/etc/testdropbox.config  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/history.rst  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/OMEZarrReader.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/activation.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/aggdesigner-algorithm.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/aircompressor.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/annotations.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/antlr.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/aopalliance.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/avatica-core.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/avatica-metrics.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/aws-java-sdk-core.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/aws-java-sdk-kms.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/aws-java-sdk-s3.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/base.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-all.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-anim.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-awt-util.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-bridge.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-codec.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-constants.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-css.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-dom.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-ext.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-extension.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-gui-util.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-gvt.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-i18n.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-parser.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-rasterizer-ext.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-rasterizer.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-script.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-slideshow.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-squiggle-ext.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-squiggle.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-svg-dom.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-svgbrowser.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-svggen.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-svgpp.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-svgrasterizer.jar  
00:48:55   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/lib/client/batik-swing.jar  
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00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/psql-footer.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/psql-header.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/schema.sql  
00:48:58   inflating: OMERO.server-5.6.3-531-07a144c9ad-ice36/sql/psql/OMERO5.4__0/views.sql  
00:48:58 + rm -f OMERO.server-5.6.3-531-07a144c9ad-ice36.zip
00:48:58 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-531-07a144c9ad-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:48:58 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:48:58 ++ deactivate nondestructive
00:48:58 ++ '[' -n '' ']'
00:48:58 ++ '[' -n '' ']'
00:48:58 ++ '[' -n /bin/bash -o -n '' ']'
00:48:58 ++ hash -r
00:48:58 ++ '[' -n '' ']'
00:48:58 ++ unset VIRTUAL_ENV
00:48:58 ++ '[' '!' nondestructive = nondestructive ']'
00:48:58 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:48:58 ++ export VIRTUAL_ENV
00:48:58 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:58 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:58 ++ export PATH
00:48:58 ++ '[' -n '' ']'
00:48:58 ++ '[' -z '' ']'
00:48:58 ++ _OLD_VIRTUAL_PS1=
00:48:58 ++ PS1='(.venv3) '
00:48:58 ++ export PS1
00:48:58 ++ '[' -n /bin/bash -o -n '' ']'
00:48:58 ++ hash -r
00:48:58 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
00:48:58 Collecting zeroc-ice==3.6.5
00:48:59   Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
00:49:01 Installing collected packages: zeroc-ice
00:49:01 Successfully installed zeroc-ice-3.6.5
00:49:01 + pip install -U pip future
00:49:02 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:49:02 Collecting pip
00:49:02   Using cached pip-24.3.1-py3-none-any.whl (1.8 MB)
00:49:02 Collecting future
00:49:03   Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:49:03 Installing collected packages: pip, future
00:49:03   Attempting uninstall: pip
00:49:03     Found existing installation: pip 21.2.3
00:49:03     Uninstalling pip-21.2.3:
00:49:03       Successfully uninstalled pip-21.2.3
00:49:04 Successfully installed future-1.0.0 pip-24.3.1
00:49:04 + pip install markdown
00:49:05 Collecting markdown
00:49:05   Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
00:49:05 Collecting importlib-metadata>=4.4 (from markdown)
00:49:05   Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
00:49:05 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
00:49:05   Using cached zipp-3.21.0-py3-none-any.whl.metadata (3.7 kB)
00:49:05 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
00:49:05 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
00:49:05 Using cached zipp-3.21.0-py3-none-any.whl (9.6 kB)
00:49:05 Installing collected packages: zipp, importlib-metadata, markdown
00:49:06 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.21.0
00:49:06 + pip install reportlab
00:49:06 Collecting reportlab
00:49:06   Using cached reportlab-4.2.5-py3-none-any.whl.metadata (1.5 kB)
00:49:07 Collecting pillow>=9.0.0 (from reportlab)
00:49:07   Using cached pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.1 kB)
00:49:07 Collecting chardet (from reportlab)
00:49:07   Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:49:07 Using cached reportlab-4.2.5-py3-none-any.whl (1.9 MB)
00:49:07 Using cached pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.4 MB)
00:49:07 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:49:07 Installing collected packages: pillow, chardet, reportlab
00:49:08 Successfully installed chardet-5.2.0 pillow-11.0.0 reportlab-4.2.5
00:49:09 + pip install omego
00:49:09 Collecting omego
00:49:09   Using cached omego-0.7.0-py3-none-any.whl
00:49:09 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:49:09 Collecting yaclifw>=0.1.1 (from omego)
00:49:09   Using cached yaclifw-0.2.0-py3-none-any.whl
00:49:10 Collecting six (from yaclifw>=0.1.1->omego)
00:49:10   Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:49:10 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:49:10 Installing collected packages: six, yaclifw, omego
00:49:10 Successfully installed omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:49:10 + pip install tables
00:49:10 Collecting tables
00:49:10   Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:49:11 Collecting numpy>=1.19.0 (from tables)
00:49:11   Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
00:49:11 Collecting numexpr>=2.6.2 (from tables)
00:49:11   Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:49:11 Collecting packaging (from tables)
00:49:11   Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
00:49:12 Collecting py-cpuinfo (from tables)
00:49:12   Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:49:12 Collecting blosc2>=2.3.0 (from tables)
00:49:12   Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:49:12 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:49:12   Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
00:49:13 Collecting msgpack (from blosc2>=2.3.0->tables)
00:49:13   Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:49:13 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:49:13 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:49:13 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (396 kB)
00:49:13 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
00:49:13 Using cached packaging-24.2-py3-none-any.whl (65 kB)
00:49:13 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:49:13 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
00:49:14 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
00:49:14 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:49:18 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.0.2 packaging-24.2 py-cpuinfo-9.0.0 tables-3.9.2
00:49:18 + pip install jinja2
00:49:18 Collecting jinja2
00:49:18   Using cached jinja2-3.1.5-py3-none-any.whl.metadata (2.6 kB)
00:49:19 Collecting MarkupSafe>=2.0 (from jinja2)
00:49:19   Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
00:49:19 Using cached jinja2-3.1.5-py3-none-any.whl (134 kB)
00:49:19 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB)
00:49:19 Installing collected packages: MarkupSafe, jinja2
00:49:19 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.5
00:49:19 + pip install omero-py
00:49:20 Collecting omero-py
00:49:20   Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
00:49:20 Collecting urllib3<2 (from omero-py)
00:49:20   Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:49:20 Collecting appdirs (from omero-py)
00:49:20   Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:49:20 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:49:20 Collecting numpy<2 (from omero-py)
00:49:20   Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:49:20 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (11.0.0)
00:49:21 Collecting PyYAML (from omero-py)
00:49:21   Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:49:21 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:49:21 Collecting requests (from omero-py)
00:49:21   Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:49:21 Collecting portalocker (from omero-py)
00:49:21   Using cached portalocker-3.0.0-py3-none-any.whl.metadata (8.5 kB)
00:49:21 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:49:21   Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
00:49:21 Collecting idna<4,>=2.5 (from requests->omero-py)
00:49:21   Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:49:21 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:49:21   Using cached certifi-2024.12.14-py3-none-any.whl.metadata (2.3 kB)
00:49:21 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB)
00:49:22 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:49:22 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:49:22 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:49:22 Using cached portalocker-3.0.0-py3-none-any.whl (19 kB)
00:49:22 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
00:49:22 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:49:22 Using cached certifi-2024.12.14-py3-none-any.whl (164 kB)
00:49:22 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (146 kB)
00:49:22 Using cached idna-3.10-py3-none-any.whl (70 kB)
00:49:22 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
00:49:22   Attempting uninstall: numpy
00:49:22     Found existing installation: numpy 2.0.2
00:49:22     Uninstalling numpy-2.0.2:
00:49:22       Successfully uninstalled numpy-2.0.2
00:49:27 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.12.14 charset-normalizer-3.4.1 idna-3.10 numpy-1.26.4 omero-py-5.19.5 portalocker-3.0.0 requests-2.32.3 urllib3-1.26.20
00:49:27 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:49:27 Collecting omero-metadata
00:49:27   Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-eiu7nv5m/omero-metadata_c9b9069db9494ad6bfbde3f15cf66a0f
00:49:27   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-eiu7nv5m/omero-metadata_c9b9069db9494ad6bfbde3f15cf66a0f
00:49:33   Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit e5c199d90a196093450cdb9616288479e1f3d502
00:49:33   Installing build dependencies: started
00:49:35   Installing build dependencies: finished with status 'done'
00:49:35   Getting requirements to build wheel: started
00:49:35   Getting requirements to build wheel: finished with status 'done'
00:49:35   Preparing metadata (pyproject.toml): started
00:49:35   Preparing metadata (pyproject.toml): finished with status 'done'
00:49:35 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
00:49:35 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
00:49:35 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.5)
00:49:36 Collecting pandas (from omero-metadata)
00:49:36   Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
00:49:36 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:49:36 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:49:36 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:49:36 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:49:36 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (11.0.0)
00:49:36 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:49:36 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
00:49:36 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.0.0)
00:49:36 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (3.0.2)
00:49:36 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:49:36   Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:49:36 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:49:36   Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
00:49:36 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:49:36   Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB)
00:49:36 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:49:36 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.1)
00:49:36 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
00:49:36 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.12.14)
00:49:36 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:49:37 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:49:37 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
00:49:37 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB)
00:49:37 Building wheels for collected packages: omero-metadata
00:49:37   Building wheel for omero-metadata (pyproject.toml): started
00:49:37   Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:49:37   Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39188 sha256=785cdb72511d4d2595d8a4b128da8aa97efbe516e6fe8dba1c57ef332618d2fb
00:49:37   Stored in directory: /tmp/pip-ephem-wheel-cache-fqdaewyo/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:49:37 Successfully built omero-metadata
00:49:37 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:49:43 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2
00:49:43 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:49:43 Collecting omero-cli-render
00:49:43   Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-cvmpx61a/omero-cli-render_5f8663f4f11649b7a463e934d7a42774
00:49:43   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-cvmpx61a/omero-cli-render_5f8663f4f11649b7a463e934d7a42774
00:49:44   Running command git checkout -b merge_ci --track origin/merge_ci
00:49:44   Switched to a new branch 'merge_ci'
00:49:44   branch 'merge_ci' set up to track 'origin/merge_ci'.
00:49:44   Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 63a4494986003859cb3eebdebd43771802c14d14
00:49:44   Installing build dependencies: started
00:49:46   Installing build dependencies: finished with status 'done'
00:49:46   Getting requirements to build wheel: started
00:49:46   Getting requirements to build wheel: finished with status 'done'
00:49:46   Preparing metadata (pyproject.toml): started
00:49:46   Preparing metadata (pyproject.toml): finished with status 'done'
00:49:46 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
00:49:46 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
00:49:46 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:49:46 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:49:46 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:49:46 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:49:46 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.0.0)
00:49:46 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:49:46 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
00:49:46 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.0.0)
00:49:46 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.1)
00:49:46 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
00:49:46 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.12.14)
00:49:46 Building wheels for collected packages: omero-cli-render
00:49:46   Building wheel for omero-cli-render (pyproject.toml): started
00:49:47   Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:49:47   Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19513 sha256=70fdd9e4979af616364316e9286c9ed2f6e677ca8d5091f3bc831224d9a168ba
00:49:47   Stored in directory: /tmp/pip-ephem-wheel-cache-jad6nb0w/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:49:47 Successfully built omero-cli-render
00:49:47 Installing collected packages: omero-cli-render
00:49:47 Successfully installed omero-cli-render-0.8.2.dev0
00:49:47 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:49:47 Collecting omero-cli-duplicate
00:49:47   Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-uks43gyj/omero-cli-duplicate_dffe55ab68024c608d9c8c6302f59e0a
00:49:47   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-uks43gyj/omero-cli-duplicate_dffe55ab68024c608d9c8c6302f59e0a
00:49:48   Running command git checkout -b merge_ci --track origin/merge_ci
00:49:48   Switched to a new branch 'merge_ci'
00:49:48   branch 'merge_ci' set up to track 'origin/merge_ci'.
00:49:48   Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 51fea1cf674ee971fd3e9305bf1ea1df4f7c907d
00:49:48   Installing build dependencies: started
00:49:50   Installing build dependencies: finished with status 'done'
00:49:50   Getting requirements to build wheel: started
00:49:50   Getting requirements to build wheel: finished with status 'done'
00:49:50   Preparing metadata (pyproject.toml): started
00:49:51   Preparing metadata (pyproject.toml): finished with status 'done'
00:49:51 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
00:49:51 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:49:51 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:49:51 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:49:51 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:49:51 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.0.0)
00:49:51 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:49:51 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:49:51 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
00:49:51 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.0.0)
00:49:51 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.1)
00:49:51 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
00:49:51 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.12.14)
00:49:51 Building wheels for collected packages: omero-cli-duplicate
00:49:51   Building wheel for omero-cli-duplicate (pyproject.toml): started
00:49:51   Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:49:51   Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=4beb18e4dd5a926db442294182c7f93c239bbe5c3bc631098f527659291cb6d6
00:49:51   Stored in directory: /tmp/pip-ephem-wheel-cache-f44694_t/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:49:51 Successfully built omero-cli-duplicate
00:49:51 Installing collected packages: omero-cli-duplicate
00:49:51 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:49:51 + pip install omero-certificates
00:49:52 Collecting omero-certificates
00:49:52   Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:49:52 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
00:49:52 Collecting distro==1.8.0 (from omero-certificates)
00:49:52   Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:49:52 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:49:52 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:49:52 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:49:52 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:49:52 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (11.0.0)
00:49:52 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:49:52 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:49:52 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
00:49:52 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.0.0)
00:49:52 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.1)
00:49:52 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
00:49:52 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.12.14)
00:49:52 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:49:52 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:49:52 Installing collected packages: distro, omero-certificates
00:49:53 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:49:53 + for x in *.tar.gz
00:49:53 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:49:53 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:49:53   Installing build dependencies: started
00:49:56   Installing build dependencies: finished with status 'done'
00:49:56   Getting requirements to build wheel: started
00:49:56   Getting requirements to build wheel: finished with status 'done'
00:49:56   Preparing metadata (pyproject.toml): started
00:49:56   Preparing metadata (pyproject.toml): finished with status 'done'
00:49:56 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
00:49:56 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:49:56 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:49:56 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:49:56 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
00:49:56 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.0.0)
00:49:56 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:49:56 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
00:49:56 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
00:49:56 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.0.0)
00:49:56 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.1)
00:49:56 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
00:49:56 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.12.14)
00:49:56 Building wheels for collected packages: omero-dropbox
00:49:56   Building wheel for omero-dropbox (pyproject.toml): started
00:49:56   Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:49:57   Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=a413cdfa6e03fd5a0a1dff69b7ff60c49036d45257904fb1c1caef3944d1a6c3
00:49:57   Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
00:49:57 Successfully built omero-dropbox
00:49:57 Installing collected packages: omero-dropbox
00:49:57 Successfully installed omero-dropbox-5.7.1.dev0
00:49:57 + for x in *.tar.gz
00:49:57 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:49:57 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:49:57   Installing build dependencies: started
00:49:59   Installing build dependencies: finished with status 'done'
00:49:59   Getting requirements to build wheel: started
00:49:59   Getting requirements to build wheel: finished with status 'done'
00:49:59   Preparing metadata (pyproject.toml): started
00:49:59   Preparing metadata (pyproject.toml): finished with status 'done'
00:49:59 Building wheels for collected packages: omero_marshal
00:49:59   Building wheel for omero_marshal (pyproject.toml): started
00:50:00   Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:50:00   Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88032 sha256=760f67ebdb3b22fd99409eb0cfbabdab659338985e836f7295620aaf3b3de40e
00:50:00   Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:50:00 Successfully built omero_marshal
00:50:00 Installing collected packages: omero_marshal
00:50:00 Successfully installed omero_marshal-0.9.1.dev0
00:50:00 + for x in *.tar.gz
00:50:00 + pip install -U omero_py-5.19.6.dev0.tar.gz
00:50:01 Processing ./omero_py-5.19.6.dev0.tar.gz
00:50:01   Installing build dependencies: started
00:50:03   Installing build dependencies: finished with status 'done'
00:50:03   Getting requirements to build wheel: started
00:50:03   Getting requirements to build wheel: finished with status 'done'
00:50:03   Preparing metadata (pyproject.toml): started
00:50:03   Preparing metadata (pyproject.toml): finished with status 'done'
00:50:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
00:50:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
00:50:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
00:50:03 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
00:50:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (11.0.0)
00:50:03 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
00:50:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.6.5)
00:50:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
00:50:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.0.0)
00:50:03 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.4.1)
00:50:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
00:50:03 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (2024.12.14)
00:50:03 Building wheels for collected packages: omero-py
00:50:03   Building wheel for omero-py (pyproject.toml): started
00:50:04   Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:50:04   Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783250 sha256=4cff58197229acf449bd81cff1a9bf3717d47225acb0a8a9cacf1549c535e5ac
00:50:04   Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
00:50:05 Successfully built omero-py
00:50:05 Installing collected packages: omero-py
00:50:05   Attempting uninstall: omero-py
00:50:05     Found existing installation: omero-py 5.19.5
00:50:05     Uninstalling omero-py-5.19.5:
00:50:05       Successfully uninstalled omero-py-5.19.5
00:50:07 Successfully installed omero-py-5.19.6.dev0
00:50:07 + for x in *.tar.gz
00:50:07 + pip install -U omero_scripts-5.9.1.dev0.tar.gz
00:50:08 Processing ./omero_scripts-5.9.1.dev0.tar.gz
00:50:08   Installing build dependencies: started
00:50:10   Installing build dependencies: finished with status 'done'
00:50:10   Getting requirements to build wheel: started
00:50:10   Getting requirements to build wheel: finished with status 'done'
00:50:10   Preparing metadata (pyproject.toml): started
00:50:10   Preparing metadata (pyproject.toml): finished with status 'done'
00:50:10 Building wheels for collected packages: omero-scripts
00:50:10   Building wheel for omero-scripts (pyproject.toml): started
00:50:10   Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:50:10   Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136799 sha256=7ffd1e2ff06bbc65839d9dbc27c087f230125802cfc48fe8ee1a30fa77ef58ae
00:50:10   Stored in directory: /home/omero/.cache/pip/wheels/4d/ea/13/654c1b7c00351342c84d3e545702a0063ab8e12d260d83323c
00:50:10 Successfully built omero-scripts
00:50:11 Installing collected packages: omero-scripts
00:50:11 Successfully installed omero-scripts-5.9.1.dev0
00:50:11 + for x in *.tar.gz
00:50:11 + pip install -U omero_web-5.28.1.dev0.tar.gz
00:50:11 Processing ./omero_web-5.28.1.dev0.tar.gz
00:50:12   Installing build dependencies: started
00:50:15   Installing build dependencies: finished with status 'done'
00:50:15   Getting requirements to build wheel: started
00:50:15   Getting requirements to build wheel: finished with status 'done'
00:50:15   Preparing metadata (pyproject.toml): started
00:50:15   Preparing metadata (pyproject.toml): finished with status 'done'
00:50:15 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (5.19.6.dev0)
00:50:15 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.28.1.dev0)
00:50:15   Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:50:16 Collecting Django<4.3,>=4.2.3 (from omero-web==5.28.1.dev0)
00:50:16   Using cached Django-4.2.17-py3-none-any.whl.metadata (4.1 kB)
00:50:16 Collecting django-pipeline (from omero-web==5.28.1.dev0)
00:50:16   Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
00:50:16 Collecting django-cors-headers==3.7.0 (from omero-web==5.28.1.dev0)
00:50:16   Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:50:16 Collecting django-csp (from omero-web==5.28.1.dev0)
00:50:16   Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:50:16 Collecting whitenoise>=5.3.0 (from omero-web==5.28.1.dev0)
00:50:16   Using cached whitenoise-6.8.2-py3-none-any.whl.metadata (3.6 kB)
00:50:17 Collecting gunicorn>=19.3 (from omero-web==5.28.1.dev0)
00:50:17   Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:50:17 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (0.9.1.dev0)
00:50:17 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (11.0.0)
00:50:17 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (2024.2)
00:50:17 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (3.0.0)
00:50:17 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (24.2)
00:50:17 Collecting importlib-resources (from omero-web==5.28.1.dev0)
00:50:17   Using cached importlib_resources-6.4.5-py3-none-any.whl.metadata (4.0 kB)
00:50:17 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:50:17   Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:50:17 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:50:17   Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
00:50:17 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.26.20)
00:50:17 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.4.4)
00:50:17 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.0.0)
00:50:17 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.26.4)
00:50:17 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (6.0.2)
00:50:17 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.6.5)
00:50:17 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (2.32.3)
00:50:17 Requirement already satisfied: setuptools in ./.venv3/lib/python3.9/site-packages (from django-pipeline->omero-web==5.28.1.dev0) (53.0.0)
00:50:17 Collecting wheel (from django-pipeline->omero-web==5.28.1.dev0)
00:50:17   Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
00:50:17 Requirement already satisfied: zipp>=3.1.0 in ./.venv3/lib/python3.9/site-packages (from importlib-resources->omero-web==5.28.1.dev0) (3.21.0)
00:50:17 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:50:17   Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
00:50:17 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.4.1)
00:50:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.10)
00:50:17 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (2024.12.14)
00:50:18 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:50:18 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:50:18 Using cached Django-4.2.17-py3-none-any.whl (8.0 MB)
00:50:18 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:50:18 Using cached whitenoise-6.8.2-py3-none-any.whl (20 kB)
00:50:18 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:50:18 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
00:50:18 Using cached importlib_resources-6.4.5-py3-none-any.whl (36 kB)
00:50:19 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:50:19 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
00:50:19 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
00:50:19 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
00:50:19 Building wheels for collected packages: omero-web
00:50:19   Building wheel for omero-web (pyproject.toml): started
00:50:20   Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:50:20   Created wheel for omero-web: filename=omero_web-5.28.1.dev0-py3-none-any.whl size=2771008 sha256=cac4197e7cd11581edc9d18867cf54b296f2284d553f907bc783f8567b584b6c
00:50:20   Stored in directory: /home/omero/.cache/pip/wheels/97/1e/88/508867809512b265cdeb53be905e01f64ea0b8d6c0b64f8ebd
00:50:20 Successfully built omero-web
00:50:20 Installing collected packages: whitenoise, wheel, typing-extensions, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, django-pipeline, asgiref, Django, django-csp, django-cors-headers, omero-web
00:50:23 Successfully installed Django-4.2.17 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.4.5 omero-web-5.28.1.dev0 sqlparse-0.5.3 typing-extensions-4.12.2 wheel-0.45.1 whitenoise-6.8.2
00:50:23 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:50:25 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:50:25 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:50:25 --2024-12-27 00:50:25--  https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:50:25 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.111.133, 185.199.110.133, ...
00:50:25 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
00:50:25 HTTP request sent, awaiting response... 200 OK
00:50:26 Length: 102311 (100K) [text/plain]
00:50:26 Saving to: ‘Figure_To_Pdf.py’
00:50:26 
00:50:26      0K .......... .......... .......... .......... .......... 50% 3.49M 0s
00:50:26     50K .......... .......... .......... .......... ......... 100% 5.58M=0.02s
00:50:26 
00:50:26 2024-12-27 00:50:26 (4.30 MB/s) - ‘Figure_To_Pdf.py’ saved [102311/102311]
00:50:26 
00:50:26 + chmod 755 Figure_To_Pdf.py
00:50:26 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:50:26 + omero config set omero.db.name OMERO-server
00:50:27 + omero config set omero.db.host pg
00:50:29 + omero config set omero.db.user postgres
00:50:30 + omero config set omero.data.dir /home/omero/omero-server-data
00:50:32 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:50:33 + omero config set omero.db.poolsize 25
00:50:35 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:50:36 + omero config set omero.security.trustStorePassword changeit
00:50:38 + omero config set omero.mail.config true
00:50:39 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:50:41 + omero config set omero.mail.host smtp.dundee.ac.uk
00:50:42 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:50:43 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:50:45 + omero certificates
00:50:47 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:50:47 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:50:47 + '[' false = true ']'
00:50:47 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:50:47 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:50:47 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG            dbcommand => upgrade
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG               dbhost => localhost
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG               dbname => OMERO-server
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG               dbpass => omero
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG               dbuser => omero
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG             rootpass => omero
00:50:47 2024-12-27 00:50:47,652 [    omego.db] DEBUG            serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:50:47 2024-12-27 00:50:47,652 [omego.extern] INFO  Executing : omero version
00:50:48 OMERO.py version:
00:50:48 OMERO.server version:
00:50:48 5.6.3-531-07a144c9ad-ice36
00:50:48 5.19.6.dev0
00:50:49 2024-12-27 00:50:49,215 [omego.extern] INFO  Completed [1.563 s]
00:50:49 2024-12-27 00:50:49,215 [omego.extern] DEBUG Using omero CLI from omero
00:50:49 2024-12-27 00:50:49,215 [    omego.db] INFO  DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:50:49 2024-12-27 00:50:49,216 [omego.extern] INFO  Running [current environment]: omero config get --show-password
00:50:49 2024-12-27 00:50:49,216 [omego.extern] INFO  Executing : omero config get --show-password
00:50:50 2024-12-27 00:50:50,633 [omego.extern] INFO  Completed [1.417 s]
00:50:50 2024-12-27 00:50:50,633 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
00:50:50 2024-12-27 00:50:50,633 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:50:51 2024-12-27 00:50:51,793 [omego.extern] INFO  Completed [1.159 s]
00:50:51 2024-12-27 00:50:51,793 [    omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
00:50:51 2024-12-27 00:50:51,793 [    omego.db] INFO  psql version: psql (PostgreSQL) 16.4
00:50:51 
00:50:51 2024-12-27 00:50:51,793 [omego.extern] INFO  Running [current environment]: omero config get --show-password
00:50:51 2024-12-27 00:50:51,793 [omego.extern] INFO  Executing : omero config get --show-password
00:50:53 2024-12-27 00:50:53,317 [omego.extern] INFO  Completed [1.524 s]
00:50:53 2024-12-27 00:50:53,317 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
00:50:53 2024-12-27 00:50:53,317 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:50:53 2024-12-27 00:50:53,423 [omego.extern] INFO  Completed [0.106 s]
00:50:53 2024-12-27 00:50:53,423 [    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'
00:50:53 2024-12-27 00:50:53,423 [    omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:50:53 2024-12-27 00:50:53,423 [omego.extern] INFO  Running [current environment]: omero config get --show-password
00:50:53 2024-12-27 00:50:53,423 [omego.extern] INFO  Executing : omero config get --show-password
00:50:55 2024-12-27 00:50:55,020 [omego.extern] INFO  Completed [1.596 s]
00:50:55 2024-12-27 00:50:55,020 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
00:50:55 2024-12-27 00:50:55,020 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:50:55 2024-12-27 00:50:55,109 [omego.extern] INFO  Completed [0.089 s]
00:50:55 2024-12-27 00:50:55,109 [    omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:50:55 2024-12-27 00:50:55,109 [    omego.db] INFO  Current omero db version: ('OMERO5.4', '0')
00:50:55 2024-12-27 00:50:55,111 [    omego.db] INFO  Database is already at OMERO5.4__0
00:50:55 + export LANG=en_US.UTF-8
00:50:55 + LANG=en_US.UTF-8
00:50:55 + export LANGUAGE=en_US:en
00:50:55 + LANGUAGE=en_US:en
00:50:55 + export LC_ALL=en_US.UTF-8
00:50:55 + LC_ALL=en_US.UTF-8
00:50:55 + BUILD_ID=DONT_KILL_ME
00:50:55 + omero admin start
00:51:07 No descriptor given. Using etc/grid/default.xml
00:51:19 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:51:19 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:51:19 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:51:19 Waiting on startup. Use CTRL-C to exit
00:51:19 + omero admin waitup
00:51:20 Waiting on startup. Use CTRL-C to exit
00:51:20 + omero admin diagnostics
00:51:22 
00:51:22 ================================================================================
00:51:22 OMERO Diagnostics (admin)
00:51:22 ================================================================================
00:51:22         
00:51:22 Commands:   java -version                  11.0.24   (/usr/bin/java)
00:51:22 Commands:   python -V                      3.9.18    (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:51:22 Commands:   icegridnode --version          3.6.5     (/opt/ice-3.6.5/bin/icegridnode)
00:51:22 Commands:   icegridadmin --version         3.6.5     (/opt/ice-3.6.5/bin/icegridadmin)
00:51:22 Commands:   psql --version                 16.4      (/usr/bin/psql)
00:51:22 Commands:   openssl version                3.0.71    (/usr/bin/openssl)
00:51:22 
00:51:22 Component:  OMERO.py                       5.19.6.dev0
00:51:22 Component:  OMERO.server                   5.6.3-531-07a144c9ad-ice36
00:51:22 
00:51:22 Server:     icegridnode                    running
00:51:22 Server:     Blitz-0                        active (pid = 24138, enabled)
00:51:22 Server:     Indexer-0                      activating (enabled)
00:51:22 Server:     OMERO.Glacier2                 active (pid = 24156, enabled)
00:51:22 Server:     OMERO.IceStorm                 active (pid = 24185, enabled)
00:51:22 Server:     Processor-0                    active (pid = 24178, enabled)
00:51:22 Server:     Tables-0                       active (pid = 24187, enabled)
00:51:22 
00:51:22 Log dir:    /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:51:22 Log files:  Blitz-0.log                    30.6 KB       errors=0    warnings=1   
00:51:22 Log files:  DropBox.log                    n/a
00:51:22 Log files:  FileServer.log                 n/a
00:51:22 Log files:  Indexer-0.log                  598 B        
00:51:22 Log files:  MonitorServer.log              n/a
00:51:22 Log files:  Processor-0.log                735 B        
00:51:22 Log files:  Tables-0.log                   961 B        
00:51:22 Log files:  TestDropBox.log                n/a
00:51:22 Log files:  master.err                     180 B        
00:51:22 Log files:  master.out                     30.1 KB      
00:51:22 Log files:  Total size                     0.06 MB
00:51:22 
00:51:22 
00:51:22 Environment:OMERO_HOME=(unset)             
00:51:22 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 
00:51:22 Environment:OMERO_NODE=(unset)             
00:51:22 Environment:OMERO_MASTER=(unset)           
00:51:22 Environment:OMERO_USERDIR=(unset)          
00:51:22 Environment:OMERO_TMPDIR=(unset)           
00:51:22 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 
00:51:22 Environment:PYTHONPATH=(unset)             
00:51:22 Environment:ICE_HOME=/opt/ice-3.6.5        
00:51:22 Environment:LD_LIBRARY_PATH=(unset)        
00:51:22 Environment:DYLD_LIBRARY_PATH=(unset)      
00:51:22 
00:51:22 OMERO SSL port:4064                           
00:51:22 OMERO TCP port:4063                           
00:51:22 OMERO data dir:'/home/omero/omero-server-data' Exists? True	Is writable? True
00:51:22 OMERO temp dir:'/home/omero/omero/tmp'        Exists? True	Is writable? True   (Size: 0)
00:51:22 
00:51:22 JVM settings: Blitz-${index}                -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:51:22 JVM settings: Indexer-${index}              -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:51:22 JVM settings: PixelData-${index}            -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:51:22 JVM settings: Repository-${index}           -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:51:22 
00:51:22 Jar:        lib/server/formats-api.jar     Bio-Formats API	8.1.0-SNAPSHOT	27 December 2024	d27bdacfeac8a13e75246ff7f840478b9c8e81c7
00:51:22 Jar:        lib/server/formats-bsd.jar     BSD Bio-Formats readers and writers	8.1.0-SNAPSHOT	27 December 2024	d27bdacfeac8a13e75246ff7f840478b9c8e81c7
00:51:22 Jar:        lib/server/formats-gpl.jar     Bio-Formats library	8.1.0-SNAPSHOT	27 December 2024	d27bdacfeac8a13e75246ff7f840478b9c8e81c7
00:51:22 Jar:        lib/server/ome-codecs.jar      OME Codecs	1.1.1-SNAPSHOT	27 December 2024	d2233ce6861d99500f859b7f972c5c9020e45be4
00:51:22 Jar:        lib/server/ome-common.jar      OME Common Java	6.0.25-SNAPSHOT	27 December 2024	d2233ce6861d99500f859b7f972c5c9020e45be4
00:51:22 Jar:        lib/server/ome-jai.jar         OME JAI	0.1.5-SNAPSHOT	27 December 2024	d2233ce6861d99500f859b7f972c5c9020e45be4
00:51:22 Jar:        lib/server/ome-mdbtools.jar    MDB Tools (Java port)	5.3.4-SNAPSHOT	27 December 2024	d2233ce6861d99500f859b7f972c5c9020e45be4
00:51:22 Jar:        lib/server/ome-poi.jar         OME POI	5.3.10-SNAPSHOT	27 December 2024	d2233ce6861d99500f859b7f972c5c9020e45be4
00:51:22 Jar:        lib/server/ome-xml.jar         OME XML library	6.3.7-SNAPSHOT	27 December 2024	d2233ce6861d99500f859b7f972c5c9020e45be4
00:51:22 Jar:        lib/server/omero-blitz.jar     jar	5.8.1-SNAPSHOT		
00:51:22 Jar:        lib/server/omero-common.jar    jar	5.7.1-SNAPSHOT		
00:51:22 Jar:        lib/server/omero-gateway.jar   jar	5.10.1-SNAPSHOT		
00:51:22 Jar:        lib/server/omero-model.jar     jar	5.7.1-SNAPSHOT		
00:51:22 Jar:        lib/server/omero-renderer.jar  jar	5.6.1-SNAPSHOT		
00:51:22 Jar:        lib/server/omero-romio.jar     jar	5.8.1-SNAPSHOT		
00:51:22 Jar:        lib/server/omero-server.jar    jar	5.7.1-SNAPSHOT		
00:51:23 + deactivate
00:51:23 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:51:23 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:51:23 + export PATH
00:51:23 + unset _OLD_VIRTUAL_PATH
00:51:23 + '[' -n '' ']'
00:51:23 + '[' -n /bin/bash -o -n '' ']'
00:51:23 + hash -r
00:51:23 + '[' -n '' ']'
00:51:23 + unset VIRTUAL_ENV
00:51:23 + '[' '!' '' = nondestructive ']'
00:51:23 + unset -f deactivate
00:51:23 Finished: SUCCESS