00:45:00 Started by upstream project "Trigger" build number 85
00:45:00 originally caused by:
00:45:00 Started by timer
00:45:00 Running as SYSTEM
00:45:01 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:45:01 [OMERO-server] $ /bin/bash -xe /tmp/jenkins15927459128018218931.sh
00:45:01 + source /home/settings.env
00:45:01 ++ OMERO_DB_HOST=pg
00:45:01 ++ OMERO_DB_USER=postgres
00:45:01 ++ OMERO_DB_PASS=
00:45:01 ++ OMERO_ROOT_PASS=omero
00:45:01 ++ OMERO_DATA_DIR=/OMERO
00:45:01 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:45:01 + OMERO_DB_NAME=OMERO-server
00:45:01 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:45:01 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:01 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:01 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:45:01 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:45:01 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:45:01 ++ deactivate nondestructive
00:45:01 ++ '[' -n '' ']'
00:45:01 ++ '[' -n '' ']'
00:45:01 ++ '[' -n /bin/bash -o -n '' ']'
00:45:01 ++ hash -r
00:45:01 ++ '[' -n '' ']'
00:45:01 ++ unset VIRTUAL_ENV
00:45:01 ++ '[' '!' nondestructive = nondestructive ']'
00:45:01 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:45:01 ++ export VIRTUAL_ENV
00:45:01 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:01 ++ 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
00:45:01 ++ export PATH
00:45:01 ++ '[' -n '' ']'
00:45:01 ++ '[' -z '' ']'
00:45:01 ++ _OLD_VIRTUAL_PS1=
00:45:01 ++ PS1='(.venv3) '
00:45:01 ++ export PS1
00:45:01 ++ '[' -n /bin/bash -o -n '' ']'
00:45:01 ++ hash -r
00:45:01 + omero admin stop
00:45:08 Waiting on shutdown. Use CTRL-C to exit
00:45:08 .+ sleep 5
00:45:23 + deactivate
00:45:23 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:45:23 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:23 + export PATH
00:45:23 + unset _OLD_VIRTUAL_PATH
00:45:23 + '[' -n '' ']'
00:45:23 + '[' -n /bin/bash -o -n '' ']'
00:45:23 + hash -r
00:45:23 + '[' -n '' ']'
00:45:23 + unset VIRTUAL_ENV
00:45:23 + '[' '!' '' = nondestructive ']'
00:45:23 + unset -f deactivate
00:45:23 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:45:24 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:45:27 + '[' false = true ']'
00:45:27 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:45:27 Skipping PURGE_DATA:CleanDbAndRepo
00:45:27 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.4-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-5.19.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.26.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:45:32 Copied 1 artifact from "OMERO-build" build number 76
00:45:32 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 75
00:45:32 Copied 2 artifacts from "OMERO-build-build" build number 76
00:45:32 [OMERO-server] $ /bin/bash -xe /tmp/jenkins4077618762902414482.sh
00:45:32 + source /home/settings.env
00:45:32 ++ OMERO_DB_HOST=pg
00:45:32 ++ OMERO_DB_USER=postgres
00:45:32 ++ OMERO_DB_PASS=
00:45:32 ++ OMERO_ROOT_PASS=omero
00:45:32 ++ OMERO_DATA_DIR=/OMERO
00:45:32 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:45:32 + OMERO_DB_NAME=OMERO-server
00:45:32 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:45:32 + mkdir -p /home/omero/omero-server-data
00:45:32 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:45:32 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:32 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:32 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:45:32 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:45:32 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:45:32 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:45:32 ++ ls OMERO.server-5.6.3-467-c5b2ec945a-ice36.zip
00:45:32 + ZIP=OMERO.server-5.6.3-467-c5b2ec945a-ice36.zip
00:45:32 + '[' '!' -z '' ']'
00:45:32 + DIST=OMERO.server-5.6.3-467-c5b2ec945a-ice36
00:45:32 + unzip OMERO.server-5.6.3-467-c5b2ec945a-ice36.zip
00:45:32 Archive: OMERO.server-5.6.3-467-c5b2ec945a-ice36.zip
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/blitz/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/grid/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/profiles/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/error/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/grid/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/luts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/luts/janelia/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/luts/ncsa_paledit/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/luts/wcif/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/analysis_scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/annotation_scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/export_scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/figure_scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/import_scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/scripts/omero/util_scripts/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/server/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/share/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/share/licenses/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/misc/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__1/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__10/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__11/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__2/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__3/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__4/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__5/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__6/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__7/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__8/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3A__9/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3__4/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3__5/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3__6/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO3__7/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO4.1__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO4.2__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO4.2__0/t/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO4.3__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO4.4__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO4__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.0__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.1__1/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.2__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4DEV__1/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4DEV__2/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4DEV__3/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/
00:45:32 creating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/var/
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/LICENSE.txt
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/backup.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/blitz/mail-senders.example
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/blitz/mail-server.example
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/build.properties
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/env.bat
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/env.sh
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/hibernate.properties
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/ice.config
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/logback-cli.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/logback-indexing-cli.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/logback-indexing.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/logback.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/mime.types
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/node1.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/node2.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/omero.properties
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/profiles/psql
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/rollover.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/Windows.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/error/maintainance.html
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/grid/README
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/grid/default.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/grid/templates.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/grid/windefault.xml
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/ice.config
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/internal.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/master.cfg
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/templates/robot.template
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/etc/testdropbox.config
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/history.rst
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/OMEZarrReader.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/activation.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/aggdesigner-algorithm.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/aircompressor.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/annotations.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/antlr.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/aopalliance.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/avatica-core.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/avatica-metrics.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/aws-java-sdk-core.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/aws-java-sdk-kms.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/aws-java-sdk-s3.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/base.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-all.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-anim.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-awt-util.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-bridge.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-codec.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-constants.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-css.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-dom.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-ext.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-extension.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-gui-util.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-gvt.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-i18n.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-parser.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-rasterizer-ext.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-rasterizer.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-script.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-slideshow.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-squiggle-ext.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-squiggle.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-svg-dom.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-svgbrowser.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-svggen.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-svgpp.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-svgrasterizer.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-swing.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-transcoder.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-ttf2svg.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-util.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/batik-xml.jar
00:45:32 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/lib/client/btm.jar
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00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/schema.sql
00:45:35 inflating: OMERO.server-5.6.3-467-c5b2ec945a-ice36/sql/psql/OMERO5.4__0/views.sql
00:45:35 + rm -f OMERO.server-5.6.3-467-c5b2ec945a-ice36.zip
00:45:35 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-467-c5b2ec945a-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:45:35 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:45:35 ++ deactivate nondestructive
00:45:35 ++ '[' -n '' ']'
00:45:35 ++ '[' -n '' ']'
00:45:35 ++ '[' -n /bin/bash -o -n '' ']'
00:45:35 ++ hash -r
00:45:35 ++ '[' -n '' ']'
00:45:35 ++ unset VIRTUAL_ENV
00:45:35 ++ '[' '!' nondestructive = nondestructive ']'
00:45:35 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:45:35 ++ export VIRTUAL_ENV
00:45:35 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:35 ++ 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
00:45:35 ++ export PATH
00:45:35 ++ '[' -n '' ']'
00:45:35 ++ '[' -z '' ']'
00:45:35 ++ _OLD_VIRTUAL_PS1=
00:45:35 ++ PS1='(.venv3) '
00:45:35 ++ export PS1
00:45:35 ++ '[' -n /bin/bash -o -n '' ']'
00:45:35 ++ hash -r
00:45:35 + 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
00:45:35 Collecting zeroc-ice==3.6.5
00:45:36 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)
00:45:38 Installing collected packages: zeroc-ice
00:45:38 Successfully installed zeroc-ice-3.6.5
00:45:39 + pip install -U pip future
00:45:39 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:45:39 Collecting pip
00:45:39 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
00:45:39 Collecting future
00:45:39 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:45:39 Installing collected packages: pip, future
00:45:39 Attempting uninstall: pip
00:45:39 Found existing installation: pip 21.2.3
00:45:39 Uninstalling pip-21.2.3:
00:45:39 Successfully uninstalled pip-21.2.3
00:45:41 Successfully installed future-1.0.0 pip-24.0
00:45:41 + pip install markdown
00:45:42 Collecting markdown
00:45:42 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
00:45:42 Collecting importlib-metadata>=4.4 (from markdown)
00:45:42 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
00:45:42 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
00:45:42 Using cached zipp-3.19.0-py3-none-any.whl.metadata (3.5 kB)
00:45:42 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
00:45:42 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
00:45:42 Using cached zipp-3.19.0-py3-none-any.whl (8.3 kB)
00:45:42 Installing collected packages: zipp, importlib-metadata, markdown
00:45:42 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.19.0
00:45:42 + pip install reportlab
00:45:43 Collecting reportlab
00:45:43 Using cached reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
00:45:43 Collecting pillow>=9.0.0 (from reportlab)
00:45:43 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
00:45:43 Collecting chardet (from reportlab)
00:45:43 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:45:43 Using cached reportlab-4.2.0-py3-none-any.whl (1.9 MB)
00:45:43 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
00:45:43 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:45:43 Installing collected packages: pillow, chardet, reportlab
00:45:46 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
00:45:46 + pip install omego
00:45:46 Collecting omego
00:45:46 Using cached omego-0.7.0-py3-none-any.whl
00:45:46 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:45:46 Collecting yaclifw>=0.1.1 (from omego)
00:45:46 Using cached yaclifw-0.2.0-py3-none-any.whl
00:45:46 Collecting six (from yaclifw>=0.1.1->omego)
00:45:46 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:45:46 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:45:47 Installing collected packages: six, yaclifw, omego
00:45:47 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:45:47 + pip install tables
00:45:47 Collecting tables
00:45:47 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:45:48 Collecting numpy>=1.19.0 (from tables)
00:45:48 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:45:48 Collecting numexpr>=2.6.2 (from tables)
00:45:48 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
00:45:48 Collecting packaging (from tables)
00:45:48 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
00:45:48 Collecting py-cpuinfo (from tables)
00:45:48 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:45:48 Collecting blosc2>=2.3.0 (from tables)
00:45:48 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:45:48 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:45:48 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:45:48 Collecting msgpack (from blosc2>=2.3.0->tables)
00:45:48 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
00:45:48 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:45:48 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:45:48 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
00:45:48 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:45:48 Using cached packaging-24.0-py3-none-any.whl (53 kB)
00:45:48 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:45:48 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:45:48 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
00:45:49 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:45:52 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
00:45:52 + pip install jinja2
00:45:53 Collecting jinja2
00:45:53 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
00:45:53 Collecting MarkupSafe>=2.0 (from jinja2)
00:45:53 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
00:45:53 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
00:45:53 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
00:45:54 Installing collected packages: MarkupSafe, jinja2
00:45:54 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
00:45:54 + pip install omero-py
00:45:55 Collecting omero-py
00:45:55 Using cached omero_py-5.19.2-py3-none-any.whl.metadata (6.6 kB)
00:45:55 Collecting urllib3<2 (from omero-py)
00:45:55 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
00:45:55 Collecting appdirs (from omero-py)
00:45:55 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:45:55 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:45:55 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
00:45:55 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
00:45:55 Collecting PyYAML (from omero-py)
00:45:55 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:45:55 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:45:55 Collecting requests (from omero-py)
00:45:55 Using cached requests-2.32.2-py3-none-any.whl.metadata (4.6 kB)
00:45:56 Collecting portalocker (from omero-py)
00:45:56 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
00:45:56 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:45:56 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:45:56 Collecting idna<4,>=2.5 (from requests->omero-py)
00:45:56 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
00:45:56 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:45:56 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
00:45:56 Using cached omero_py-5.19.2-py3-none-any.whl (2.8 MB)
00:45:56 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
00:45:56 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:45:56 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
00:45:56 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
00:45:56 Using cached requests-2.32.2-py3-none-any.whl (63 kB)
00:45:56 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
00:45:56 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:45:56 Using cached idna-3.7-py3-none-any.whl (66 kB)
00:45:56 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
00:46:00 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.2 portalocker-2.8.2 requests-2.32.2 urllib3-1.26.18
00:46:00 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:46:00 Collecting omero-metadata
00:46:00 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-oejwygg2/omero-metadata_89830e21d9a547e88b01f4f1ee106fed
00:46:00 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-oejwygg2/omero-metadata_89830e21d9a547e88b01f4f1ee106fed
00:46:02 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit c978373f0821bc29cbedc560675a505c479a2fc3
00:46:02 Installing build dependencies: started
00:46:03 Installing build dependencies: finished with status 'done'
00:46:03 Getting requirements to build wheel: started
00:46:04 Getting requirements to build wheel: finished with status 'done'
00:46:04 Installing backend dependencies: started
00:46:05 Installing backend dependencies: finished with status 'done'
00:46:05 Preparing metadata (pyproject.toml): started
00:46:05 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:05 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.2)
00:46:05 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
00:46:05 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
00:46:05 Collecting pandas (from omero-metadata)
00:46:05 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:46:05 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
00:46:05 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:46:05 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:46:05 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:46:05 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.3.0)
00:46:05 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)
00:46:05 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.2)
00:46:05 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
00:46:05 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:46:05 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:46:05 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:46:06 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:46:06 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
00:46:06 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:46:06 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:46:06 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
00:46:06 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
00:46:06 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
00:46:06 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
00:46:06 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:46:06 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:46:06 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
00:46:06 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:46:06 Building wheels for collected packages: omero-metadata
00:46:06 Building wheel for omero-metadata (pyproject.toml): started
00:46:06 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:46:06 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=a7e2594955cedaa431f57bd9c273de34a2334a531e936b582d0e94feb8f9251c
00:46:06 Stored in directory: /tmp/pip-ephem-wheel-cache-w_m6tl0a/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:46:06 Successfully built omero-metadata
00:46:07 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:46:18 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
00:46:18 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:46:18 Collecting omero-cli-render
00:46:18 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-wzsn0zxg/omero-cli-render_03a3ce96b06f474bbc4f3660387036d1
00:46:18 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-wzsn0zxg/omero-cli-render_03a3ce96b06f474bbc4f3660387036d1
00:46:19 Running command git checkout -b merge_ci --track origin/merge_ci
00:46:20 Switched to a new branch 'merge_ci'
00:46:20 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:46:20 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 4cc816aebf7e08f7d230e3e3991896c58b0ed8c2
00:46:20 Installing build dependencies: started
00:46:22 Installing build dependencies: finished with status 'done'
00:46:22 Getting requirements to build wheel: started
00:46:22 Getting requirements to build wheel: finished with status 'done'
00:46:22 Installing backend dependencies: started
00:46:23 Installing backend dependencies: finished with status 'done'
00:46:23 Preparing metadata (pyproject.toml): started
00:46:23 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:23 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
00:46:23 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.2)
00:46:23 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
00:46:23 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
00:46:23 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:46:23 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:46:23 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.3.0)
00:46:23 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)
00:46:23 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.2)
00:46:23 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
00:46:23 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
00:46:23 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
00:46:23 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
00:46:23 Building wheels for collected packages: omero-cli-render
00:46:23 Building wheel for omero-cli-render (pyproject.toml): started
00:46:23 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:46:23 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=c8e83c9f43afb4df6050c2a4451375c34e090b7507eb09241289a28930d57ecd
00:46:23 Stored in directory: /tmp/pip-ephem-wheel-cache-avmvdnxz/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:46:23 Successfully built omero-cli-render
00:46:24 Installing collected packages: omero-cli-render
00:46:24 Successfully installed omero-cli-render-0.8.1.dev0
00:46:24 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:46:24 Collecting omero-cli-duplicate
00:46:24 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-atwu2_og/omero-cli-duplicate_f76f6895de9345cc870936503d9dac35
00:46:24 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-atwu2_og/omero-cli-duplicate_f76f6895de9345cc870936503d9dac35
00:46:25 Running command git checkout -b merge_ci --track origin/merge_ci
00:46:26 Switched to a new branch 'merge_ci'
00:46:26 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:46:26 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit d3b243ad9d9869ba9550495888b3df8ce1c635d9
00:46:26 Installing build dependencies: started
00:46:28 Installing build dependencies: finished with status 'done'
00:46:28 Getting requirements to build wheel: started
00:46:28 Getting requirements to build wheel: finished with status 'done'
00:46:28 Installing backend dependencies: started
00:46:30 Installing backend dependencies: finished with status 'done'
00:46:30 Preparing metadata (pyproject.toml): started
00:46:30 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:30 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.2)
00:46:30 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
00:46:30 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:46:30 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:46:30 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:46:30 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.3.0)
00:46:30 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
00:46:30 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)
00:46:30 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.2)
00:46:30 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
00:46:30 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
00:46:30 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
00:46:30 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
00:46:30 Building wheels for collected packages: omero-cli-duplicate
00:46:30 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:46:30 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:46:30 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=7835c471bf7c05efc0341b6320449ace965df8cc5499d357fce2a98cdbb5844b
00:46:30 Stored in directory: /tmp/pip-ephem-wheel-cache-a9uum2eu/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:46:30 Successfully built omero-cli-duplicate
00:46:31 Installing collected packages: omero-cli-duplicate
00:46:31 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:46:31 + pip install omero-certificates
00:46:31 Collecting omero-certificates
00:46:31 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:46:31 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.2)
00:46:31 Collecting distro==1.8.0 (from omero-certificates)
00:46:31 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:46:31 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
00:46:31 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:46:31 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:46:31 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:46:31 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.3.0)
00:46:31 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
00:46:31 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)
00:46:31 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.2)
00:46:31 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
00:46:31 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
00:46:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
00:46:31 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
00:46:31 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:46:32 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:46:32 Installing collected packages: distro, omero-certificates
00:46:32 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:46:32 + for x in *.tar.gz
00:46:32 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:46:32 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:46:33 Installing build dependencies: started
00:46:35 Installing build dependencies: finished with status 'done'
00:46:35 Getting requirements to build wheel: started
00:46:35 Getting requirements to build wheel: finished with status 'done'
00:46:35 Installing backend dependencies: started
00:46:36 Installing backend dependencies: finished with status 'done'
00:46:36 Preparing metadata (pyproject.toml): started
00:46:37 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:37 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.2)
00:46:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.18)
00:46:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:46:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:46:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
00:46:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.3.0)
00:46:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.1)
00:46:37 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)
00:46:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.2)
00:46:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.8.2)
00:46:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.3.2)
00:46:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.7)
00:46:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.2.2)
00:46:37 Building wheels for collected packages: omero-dropbox
00:46:37 Building wheel for omero-dropbox (pyproject.toml): started
00:46:37 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:46:37 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=094b0a4f8bf2b6f04dfce6216cc6422e6461f226ee741ef520d347c98fc1e3e1
00:46:37 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
00:46:37 Successfully built omero-dropbox
00:46:37 Installing collected packages: omero-dropbox
00:46:37 Successfully installed omero-dropbox-5.7.1.dev0
00:46:37 + for x in *.tar.gz
00:46:37 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:46:38 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:46:38 Installing build dependencies: started
00:46:40 Installing build dependencies: finished with status 'done'
00:46:40 Getting requirements to build wheel: started
00:46:40 Getting requirements to build wheel: finished with status 'done'
00:46:40 Installing backend dependencies: started
00:46:41 Installing backend dependencies: finished with status 'done'
00:46:41 Preparing metadata (pyproject.toml): started
00:46:42 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:42 Building wheels for collected packages: omero_marshal
00:46:42 Building wheel for omero_marshal (pyproject.toml): started
00:46:42 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:46:42 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=769ab2556a70e82c9849853c7c39e5292d19a2989c4157af2b2afec0ef0ad349
00:46:42 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:46:42 Successfully built omero_marshal
00:46:42 Installing collected packages: omero_marshal
00:46:42 Successfully installed omero_marshal-0.9.1.dev0
00:46:43 + for x in *.tar.gz
00:46:43 + pip install -U omero_py-5.19.3.dev0.tar.gz
00:46:43 Processing ./omero_py-5.19.3.dev0.tar.gz
00:46:43 Installing build dependencies: started
00:46:47 Installing build dependencies: finished with status 'done'
00:46:47 Getting requirements to build wheel: started
00:46:47 Getting requirements to build wheel: finished with status 'done'
00:46:47 Installing backend dependencies: started
00:46:48 Installing backend dependencies: finished with status 'done'
00:46:48 Preparing metadata (pyproject.toml): started
00:46:49 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:49 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.18)
00:46:49 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.4.4)
00:46:49 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.0.0)
00:46:49 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.4)
00:46:49 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (10.3.0)
00:46:49 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (6.0.1)
00:46:49 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (3.6.5)
00:46:49 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.32.2)
00:46:49 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.8.2)
00:46:49 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.3.2)
00:46:49 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.7)
00:46:49 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (2024.2.2)
00:46:49 Building wheels for collected packages: omero-py
00:46:49 Building wheel for omero-py (pyproject.toml): started
00:46:50 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:46:50 Created wheel for omero-py: filename=omero_py-5.19.3.dev0-py3-none-any.whl size=2782819 sha256=d7d2f2d1a6caa596221b0103c103c233590ae9a558bc57c03e9f24bcea8775ec
00:46:50 Stored in directory: /home/omero/.cache/pip/wheels/da/30/d3/f2a83bdd6a0fbad84aa00dad9eb9431eedebb0e1310be5dd41
00:46:50 Successfully built omero-py
00:46:50 Installing collected packages: omero-py
00:46:50 Attempting uninstall: omero-py
00:46:50 Found existing installation: omero-py 5.19.2
00:46:51 Uninstalling omero-py-5.19.2:
00:46:51 Successfully uninstalled omero-py-5.19.2
00:46:53 Successfully installed omero-py-5.19.3.dev0
00:46:54 + for x in *.tar.gz
00:46:54 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
00:46:54 Processing ./omero_scripts-5.8.3.dev0.tar.gz
00:46:54 Installing build dependencies: started
00:46:56 Installing build dependencies: finished with status 'done'
00:46:56 Getting requirements to build wheel: started
00:46:57 Getting requirements to build wheel: finished with status 'done'
00:46:57 Installing backend dependencies: started
00:46:58 Installing backend dependencies: finished with status 'done'
00:46:58 Preparing metadata (pyproject.toml): started
00:46:58 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:58 Building wheels for collected packages: omero-scripts
00:46:58 Building wheel for omero-scripts (pyproject.toml): started
00:46:58 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:46:58 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=c4ccd07bc18e9847b5e5be522b8d6bf9a20103196baf587c8d1573eb27cd10e1
00:46:58 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
00:46:58 Successfully built omero-scripts
00:46:59 Installing collected packages: omero-scripts
00:46:59 Successfully installed omero-scripts-5.8.3.dev0
00:46:59 + for x in *.tar.gz
00:46:59 + pip install -U omero_web-5.26.1.dev0.tar.gz
00:46:59 Processing ./omero_web-5.26.1.dev0.tar.gz
00:47:00 Installing build dependencies: started
00:47:02 Installing build dependencies: finished with status 'done'
00:47:02 Getting requirements to build wheel: started
00:47:02 Getting requirements to build wheel: finished with status 'done'
00:47:02 Installing backend dependencies: started
00:47:03 Installing backend dependencies: finished with status 'done'
00:47:03 Preparing metadata (pyproject.toml): started
00:47:03 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:03 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (5.19.3.dev0)
00:47:03 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.26.1.dev0)
00:47:03 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:47:03 Collecting Django<4.3,>=4.2.3 (from omero-web==5.26.1.dev0)
00:47:03 Using cached Django-4.2.13-py3-none-any.whl.metadata (4.1 kB)
00:47:04 Collecting django-pipeline==2.1.0 (from omero-web==5.26.1.dev0)
00:47:04 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:47:04 Collecting django-cors-headers==3.7.0 (from omero-web==5.26.1.dev0)
00:47:04 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:47:04 Collecting django-csp (from omero-web==5.26.1.dev0)
00:47:04 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:47:04 Collecting whitenoise>=5.3.0 (from omero-web==5.26.1.dev0)
00:47:04 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
00:47:04 Collecting gunicorn>=19.3 (from omero-web==5.26.1.dev0)
00:47:04 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
00:47:04 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (0.9.1.dev0)
00:47:04 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (10.3.0)
00:47:04 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2024.1)
00:47:04 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2.8.2)
00:47:04 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (24.0)
00:47:04 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
00:47:04 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:47:04 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
00:47:04 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
00:47:04 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.18)
00:47:04 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.4.4)
00:47:04 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.0.0)
00:47:04 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.4)
00:47:04 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (6.0.1)
00:47:04 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==5.26.1.dev0) (3.6.5)
00:47:04 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (2.32.2)
00:47:04 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
00:47:04 Using cached typing_extensions-4.12.0-py3-none-any.whl.metadata (3.0 kB)
00:47:04 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.3.2)
00:47:04 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.7)
00:47:04 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (2024.2.2)
00:47:04 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:47:04 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:47:04 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:47:04 Using cached Django-4.2.13-py3-none-any.whl (8.0 MB)
00:47:04 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
00:47:04 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
00:47:04 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:47:04 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:47:04 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
00:47:04 Using cached typing_extensions-4.12.0-py3-none-any.whl (37 kB)
00:47:04 Building wheels for collected packages: omero-web
00:47:04 Building wheel for omero-web (pyproject.toml): started
00:47:06 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:47:06 Created wheel for omero-web: filename=omero_web-5.26.1.dev0-py3-none-any.whl size=2763002 sha256=65e8c645f18dbeaaa520a4dc47ba73a8064bebf15d3734f8add72e8a6a83a758
00:47:06 Stored in directory: /home/omero/.cache/pip/wheels/39/0a/67/1d8a66c1c2b5dc08464077685312666fac69440af8767d0453
00:47:06 Successfully built omero-web
00:47:06 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:47:10 Successfully installed Django-4.2.13 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-22.0.0 omero-web-5.26.1.dev0 sqlparse-0.5.0 typing-extensions-4.12.0 whitenoise-6.6.0
00:47:10 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:47:10 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:47:10 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:47:10 --2024-05-28 00:47:10-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:47:11 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.110.133, ...
00:47:11 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
00:47:11 HTTP request sent, awaiting response... 200 OK
00:47:11 Length: 95703 (93K) [text/plain]
00:47:11 Saving to: ‘Figure_To_Pdf.py’
00:47:11
00:47:11 0K .......... .......... .......... .......... .......... 53% 3.82M 0s
00:47:11 50K .......... .......... .......... .......... ... 100% 4.26M=0.02s
00:47:11
00:47:11 2024-05-28 00:47:11 (4.01 MB/s) - ‘Figure_To_Pdf.py’ saved [95703/95703]
00:47:11
00:47:11 + chmod 755 Figure_To_Pdf.py
00:47:11 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:47:11 + omero config set omero.db.name OMERO-server
00:47:12 + omero config set omero.db.host pg
00:47:14 + omero config set omero.db.user postgres
00:47:16 + omero config set omero.data.dir /home/omero/omero-server-data
00:47:17 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:47:19 + omero config set omero.db.poolsize 25
00:47:21 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:47:22 + omero config set omero.security.trustStorePassword changeit
00:47:24 + omero config set omero.mail.config true
00:47:26 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:47:27 + omero config set omero.mail.host smtp.dundee.ac.uk
00:47:29 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:47:31 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:47:32 + omero certificates
00:47:34 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:47:34 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:47:34 + '[' false = true ']'
00:47:34 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:47:34 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:47:34 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:47:34 2024-05-28 00:47:34,734 [ omego.db] DEBUG dbcommand => upgrade
00:47:34 2024-05-28 00:47:34,735 [ omego.db] DEBUG dbhost => localhost
00:47:34 2024-05-28 00:47:34,735 [ omego.db] DEBUG dbname => OMERO-server
00:47:34 2024-05-28 00:47:34,735 [ omego.db] DEBUG dbpass => omero
00:47:34 2024-05-28 00:47:34,735 [ omego.db] DEBUG dbuser => omero
00:47:34 2024-05-28 00:47:34,735 [ omego.db] DEBUG rootpass => omero
00:47:34 2024-05-28 00:47:34,735 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:47:34 2024-05-28 00:47:34,735 [omego.extern] INFO Executing : omero version
00:47:36 OMERO.py version:
00:47:36 OMERO.server version:
00:47:36 5.6.3-467-c5b2ec945a-ice36
00:47:36 5.19.3.dev0
00:47:36 2024-05-28 00:47:36,327 [omego.extern] INFO Completed [1.592 s]
00:47:36 2024-05-28 00:47:36,327 [omego.extern] DEBUG Using omero CLI from omero
00:47:36 2024-05-28 00:47:36,327 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:47:36 2024-05-28 00:47:36,327 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:47:36 2024-05-28 00:47:36,328 [omego.extern] INFO Executing : omero config get --show-password
00:47:37 2024-05-28 00:47:37,945 [omego.extern] INFO Completed [1.617 s]
00:47:37 2024-05-28 00:47:37,945 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:47:37 2024-05-28 00:47:37,945 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:47:38 2024-05-28 00:47:38,256 [omego.extern] INFO Completed [0.310 s]
00:47:38 2024-05-28 00:47:38,256 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:47:38 2024-05-28 00:47:38,256 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:47:38
00:47:38 2024-05-28 00:47:38,256 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:47:38 2024-05-28 00:47:38,256 [omego.extern] INFO Executing : omero config get --show-password
00:47:39 2024-05-28 00:47:39,927 [omego.extern] INFO Completed [1.671 s]
00:47:39 2024-05-28 00:47:39,928 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:47:39 2024-05-28 00:47:39,928 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:47:40 2024-05-28 00:47:40,171 [omego.extern] INFO Completed [0.243 s]
00:47:40 2024-05-28 00:47:40,172 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.5") at port "5432".\n'
00:47:40 2024-05-28 00:47:40,172 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:47:40 2024-05-28 00:47:40,172 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:47:40 2024-05-28 00:47:40,172 [omego.extern] INFO Executing : omero config get --show-password
00:47:42 2024-05-28 00:47:42,057 [omego.extern] INFO Completed [1.886 s]
00:47:42 2024-05-28 00:47:42,058 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:47:42 2024-05-28 00:47:42,058 [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
00:47:42 2024-05-28 00:47:42,088 [omego.extern] INFO Completed [0.030 s]
00:47:42 2024-05-28 00:47:42,088 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:47:42 2024-05-28 00:47:42,088 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:47:42 2024-05-28 00:47:42,090 [ omego.db] INFO Database is already at OMERO5.4__0
00:47:42 + export LANG=en_US.UTF-8
00:47:42 + LANG=en_US.UTF-8
00:47:42 + export LANGUAGE=en_US:en
00:47:42 + LANGUAGE=en_US:en
00:47:42 + export LC_ALL=en_US.UTF-8
00:47:42 + LC_ALL=en_US.UTF-8
00:47:42 + BUILD_ID=DONT_KILL_ME
00:47:42 + omero admin start
00:47:54 No descriptor given. Using etc/grid/default.xml
00:48:08 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:48:08 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:48:08 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:48:08 Waiting on startup. Use CTRL-C to exit
00:48:08 + omero admin waitup
00:48:10 Waiting on startup. Use CTRL-C to exit
00:48:10 + omero admin diagnostics
00:48:12
00:48:12 ================================================================================
00:48:12 OMERO Diagnostics (admin)
00:48:12 ================================================================================
00:48:12
00:48:12 Commands: java -version 17.0.11 (/usr/bin/java)
00:48:12 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:48:12 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:48:12 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:48:12 Commands: psql --version 16.2 (/usr/bin/psql)
00:48:12 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:48:12
00:48:12 Component: OMERO.py 5.19.3.dev0
00:48:12 Component: OMERO.server 5.6.3-467-c5b2ec945a-ice36
00:48:12
00:48:12 Server: icegridnode running
00:48:12 Server: Blitz-0 active (pid = 65178, enabled)
00:48:12 Server: Indexer-0 activating (enabled)
00:48:12 Server: OMERO.Glacier2 active (pid = 65205, enabled)
00:48:13 Server: OMERO.IceStorm active (pid = 65233, enabled)
00:48:13 Server: Processor-0 activating (enabled)
00:48:13 Server: Tables-0 activating (enabled)
00:48:13
00:48:13 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:48:13 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
00:48:13 Log files: DropBox.log n/a
00:48:13 Log files: FileServer.log n/a
00:48:13 Log files: Indexer-0.log 2.4 KB
00:48:13 Log files: MonitorServer.log n/a
00:48:13 Log files: Processor-0.log 592 B
00:48:13 Log files: Tables-0.log 841 B
00:48:13 Log files: TestDropBox.log n/a
00:48:13 Log files: master.err empty
00:48:13 Log files: master.out 30.1 KB
00:48:13 Log files: Total size 0.06 MB
00:48:13
00:48:13
00:48:13 Environment:OMERO_HOME=(unset)
00:48:13 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:13 Environment:OMERO_NODE=(unset)
00:48:13 Environment:OMERO_MASTER=(unset)
00:48:13 Environment:OMERO_USERDIR=(unset)
00:48:13 Environment:OMERO_TMPDIR=(unset)
00:48:13 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:13 Environment:PYTHONPATH=(unset)
00:48:13 Environment:ICE_HOME=/opt/ice-3.6.5
00:48:13 Environment:LD_LIBRARY_PATH=(unset)
00:48:13 Environment:DYLD_LIBRARY_PATH=(unset)
00:48:13
00:48:13 OMERO SSL port:4064
00:48:13 OMERO TCP port:4063
00:48:13 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:48:13 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:48:13
00:48:13 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:13 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:13 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:13 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:13
00:48:13 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 28 May 2024 dd7fe1e5730a7fb56721399d415fc0ae619f5095
00:48:13 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 28 May 2024 dd7fe1e5730a7fb56721399d415fc0ae619f5095
00:48:13 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 28 May 2024 dd7fe1e5730a7fb56721399d415fc0ae619f5095
00:48:13 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 28 May 2024 f17c332ca3441c7660d31fdc4291a2069f598933
00:48:13 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 28 May 2024 f17c332ca3441c7660d31fdc4291a2069f598933
00:48:13 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 28 May 2024 f17c332ca3441c7660d31fdc4291a2069f598933
00:48:13 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 28 May 2024 f17c332ca3441c7660d31fdc4291a2069f598933
00:48:13 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 28 May 2024 f17c332ca3441c7660d31fdc4291a2069f598933
00:48:13 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 28 May 2024 f17c332ca3441c7660d31fdc4291a2069f598933
00:48:13 Jar: lib/server/omero-blitz.jar jar 5.7.4-SNAPSHOT
00:48:13 Jar: lib/server/omero-common.jar jar 5.6.7-SNAPSHOT
00:48:13 Jar: lib/server/omero-gateway.jar jar 5.9.2-SNAPSHOT
00:48:13 Jar: lib/server/omero-model.jar jar 5.6.15-SNAPSHOT
00:48:13 Jar: lib/server/omero-renderer.jar jar 5.5.17-SNAPSHOT
00:48:13 Jar: lib/server/omero-romio.jar jar 5.7.7-SNAPSHOT
00:48:13 Jar: lib/server/omero-server.jar jar 5.6.12-SNAPSHOT
00:48:13 + deactivate
00:48:13 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:48:13 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:13 + export PATH
00:48:13 + unset _OLD_VIRTUAL_PATH
00:48:13 + '[' -n '' ']'
00:48:13 + '[' -n /bin/bash -o -n '' ']'
00:48:13 + hash -r
00:48:13 + '[' -n '' ']'
00:48:13 + unset VIRTUAL_ENV
00:48:13 + '[' '!' '' = nondestructive ']'
00:48:13 + unset -f deactivate
00:48:13 Finished: SUCCESS
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