00:45:03 Started by upstream project "Trigger" build number 42
00:45:03 originally caused by:
00:45:03 Started by timer
00:45:03 Running as SYSTEM
00:45:03 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:45:03 [OMERO-server] $ /bin/bash -xe /tmp/jenkins3945367305419089050.sh
00:45:03 + source /home/settings.env
00:45:03 ++ OMERO_DB_HOST=pg
00:45:03 ++ OMERO_DB_USER=postgres
00:45:03 ++ OMERO_DB_PASS=
00:45:03 ++ OMERO_ROOT_PASS=omero
00:45:03 ++ OMERO_DATA_DIR=/OMERO
00:45:03 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:45:03 + OMERO_DB_NAME=OMERO-server
00:45:03 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:45:03 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:03 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:03 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:45:03 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:45:03 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:45:03 ++ deactivate nondestructive
00:45:03 ++ '[' -n '' ']'
00:45:03 ++ '[' -n '' ']'
00:45:03 ++ '[' -n /bin/bash -o -n '' ']'
00:45:03 ++ hash -r
00:45:03 ++ '[' -n '' ']'
00:45:03 ++ unset VIRTUAL_ENV
00:45:03 ++ '[' '!' nondestructive = nondestructive ']'
00:45:03 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:45:03 ++ export VIRTUAL_ENV
00:45:03 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:03 ++ 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
00:45:03 ++ export PATH
00:45:03 ++ '[' -n '' ']'
00:45:03 ++ '[' -z '' ']'
00:45:03 ++ _OLD_VIRTUAL_PS1=
00:45:03 ++ PS1='(.venv3) '
00:45:03 ++ export PS1
00:45:03 ++ '[' -n /bin/bash -o -n '' ']'
00:45:03 ++ hash -r
00:45:03 + omero admin stop
00:45:06 Waiting on shutdown. Use CTRL-C to exit
00:45:06 .+ sleep 5
00:45:22 + deactivate
00:45:22 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:45:22 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:22 + export PATH
00:45:22 + unset _OLD_VIRTUAL_PATH
00:45:22 + '[' -n '' ']'
00:45:22 + '[' -n /bin/bash -o -n '' ']'
00:45:22 + hash -r
00:45:22 + '[' -n '' ']'
00:45:22 + unset VIRTUAL_ENV
00:45:22 + '[' '!' '' = nondestructive ']'
00:45:22 + unset -f deactivate
00:45:22 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:45:22 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:45:26 + '[' false = true ']'
00:45:26 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:45:26 Skipping PURGE_DATA:CleanDbAndRepo
00:45:26 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:45:29 Copied 1 artifact from "OMERO-build" build number 36
00:45:29 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 36
00:45:29 Copied 2 artifacts from "OMERO-build-build" build number 37
00:45:29 [OMERO-server] $ /bin/bash -xe /tmp/jenkins17926405072835721767.sh
00:45:29 + source /home/settings.env
00:45:29 ++ OMERO_DB_HOST=pg
00:45:29 ++ OMERO_DB_USER=postgres
00:45:29 ++ OMERO_DB_PASS=
00:45:29 ++ OMERO_ROOT_PASS=omero
00:45:29 ++ OMERO_DATA_DIR=/OMERO
00:45:29 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:45:29 + OMERO_DB_NAME=OMERO-server
00:45:29 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:45:29 + mkdir -p /home/omero/omero-server-data
00:45:29 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:45:29 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:29 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:29 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:45:29 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:45:29 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:45:29 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:45:29 ++ ls OMERO.server-5.6.3-453-b6a142b3c3-ice36.zip
00:45:29 + ZIP=OMERO.server-5.6.3-453-b6a142b3c3-ice36.zip
00:45:29 + '[' '!' -z '' ']'
00:45:29 + DIST=OMERO.server-5.6.3-453-b6a142b3c3-ice36
00:45:29 + unzip OMERO.server-5.6.3-453-b6a142b3c3-ice36.zip
00:45:29 Archive: OMERO.server-5.6.3-453-b6a142b3c3-ice36.zip
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/blitz/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/grid/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/profiles/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/error/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/grid/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/luts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/luts/janelia/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/luts/ncsa_paledit/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/luts/wcif/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/analysis_scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/annotation_scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/export_scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/figure_scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/import_scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/scripts/omero/util_scripts/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/server/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/share/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/share/licenses/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/misc/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__1/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__10/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__11/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__2/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__3/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__4/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__5/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__6/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__7/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__8/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3A__9/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3__4/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3__5/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3__6/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO3__7/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO4.1__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO4.2__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO4.2__0/t/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO4.3__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO4.4__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO4__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.0__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.1__1/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.2__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.3__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4DEV__1/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4DEV__2/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4DEV__3/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/
00:45:29 creating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/var/
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/LICENSE.txt
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/backup.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/blitz/mail-senders.example
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/blitz/mail-server.example
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/build.properties
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/env.bat
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/env.sh
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/hibernate.properties
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/ice.config
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/logback-cli.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/logback-indexing-cli.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/logback-indexing.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/logback.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/mime.types
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/node1.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/node2.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/omero.properties
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/profiles/psql
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/rollover.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/Windows.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/error/maintainance.html
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/grid/README
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/grid/default.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/grid/templates.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/grid/windefault.xml
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/ice.config
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/internal.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/master.cfg
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/templates/robot.template
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/etc/testdropbox.config
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/history.rst
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/OMEZarrReader.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/activation.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/aggdesigner-algorithm.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/aircompressor.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/annotations.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/antlr.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/aopalliance.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/avatica-core.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/avatica-metrics.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/aws-java-sdk-core.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/aws-java-sdk-kms.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/aws-java-sdk-s3.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/base.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-all.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-anim.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-awt-util.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-bridge.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-codec.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-constants.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-css.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-dom.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-ext.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-extension.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-gui-util.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-gvt.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-i18n.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-parser.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-rasterizer-ext.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-rasterizer.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-script.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-slideshow.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-squiggle-ext.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-squiggle.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-svg-dom.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-svgbrowser.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-svggen.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-svgpp.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-svgrasterizer.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-swing.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-transcoder.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-ttf2svg.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-util.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/batik-xml.jar
00:45:29 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/lib/client/btm.jar
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00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/schema.sql
00:45:32 inflating: OMERO.server-5.6.3-453-b6a142b3c3-ice36/sql/psql/OMERO5.4__0/views.sql
00:45:32 + rm -f OMERO.server-5.6.3-453-b6a142b3c3-ice36.zip
00:45:32 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-453-b6a142b3c3-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:45:32 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:45:32 ++ deactivate nondestructive
00:45:32 ++ '[' -n '' ']'
00:45:32 ++ '[' -n '' ']'
00:45:32 ++ '[' -n /bin/bash -o -n '' ']'
00:45:32 ++ hash -r
00:45:32 ++ '[' -n '' ']'
00:45:32 ++ unset VIRTUAL_ENV
00:45:32 ++ '[' '!' nondestructive = nondestructive ']'
00:45:32 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:45:32 ++ export VIRTUAL_ENV
00:45:32 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:32 ++ 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
00:45:32 ++ export PATH
00:45:32 ++ '[' -n '' ']'
00:45:32 ++ '[' -z '' ']'
00:45:32 ++ _OLD_VIRTUAL_PS1=
00:45:32 ++ PS1='(.venv3) '
00:45:32 ++ export PS1
00:45:32 ++ '[' -n /bin/bash -o -n '' ']'
00:45:32 ++ hash -r
00:45:32 + 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
00:45:33 Collecting zeroc-ice==3.6.5
00:45:34 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)
00:45:35 Installing collected packages: zeroc-ice
00:45:36 Successfully installed zeroc-ice-3.6.5
00:45:36 + pip install -U pip future
00:45:37 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:45:37 Collecting pip
00:45:37 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
00:45:37 Collecting future
00:45:37 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:45:37 Installing collected packages: pip, future
00:45:37 Attempting uninstall: pip
00:45:37 Found existing installation: pip 21.2.3
00:45:37 Uninstalling pip-21.2.3:
00:45:37 Successfully uninstalled pip-21.2.3
00:45:39 Successfully installed future-1.0.0 pip-24.0
00:45:39 + pip install markdown
00:45:40 Collecting markdown
00:45:40 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
00:45:40 Collecting importlib-metadata>=4.4 (from markdown)
00:45:40 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
00:45:40 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
00:45:40 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
00:45:40 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
00:45:40 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
00:45:40 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
00:45:40 Installing collected packages: zipp, importlib-metadata, markdown
00:45:40 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
00:45:40 + pip install reportlab
00:45:41 Collecting reportlab
00:45:41 Using cached reportlab-4.1.0-py3-none-any.whl.metadata (1.4 kB)
00:45:41 Collecting pillow>=9.0.0 (from reportlab)
00:45:41 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
00:45:41 Collecting chardet (from reportlab)
00:45:41 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:45:41 Using cached reportlab-4.1.0-py3-none-any.whl (1.9 MB)
00:45:41 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
00:45:41 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:45:41 Installing collected packages: pillow, chardet, reportlab
00:45:43 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.1.0
00:45:43 + pip install omego
00:45:43 Collecting omego
00:45:43 Using cached omego-0.7.0-py3-none-any.whl
00:45:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:45:43 Collecting yaclifw>=0.1.1 (from omego)
00:45:43 Using cached yaclifw-0.2.0-py3-none-any.whl
00:45:44 Collecting six (from yaclifw>=0.1.1->omego)
00:45:44 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:45:44 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:45:44 Installing collected packages: six, yaclifw, omego
00:45:44 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:45:44 + pip install tables
00:45:45 Collecting tables
00:45:45 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:45:45 Collecting numpy>=1.19.0 (from tables)
00:45:45 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:45:45 Collecting numexpr>=2.6.2 (from tables)
00:45:45 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
00:45:45 Collecting packaging (from tables)
00:45:45 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
00:45:46 Collecting py-cpuinfo (from tables)
00:45:46 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:45:46 Collecting blosc2>=2.3.0 (from tables)
00:45:46 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:45:46 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:45:46 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:45:46 Collecting msgpack (from blosc2>=2.3.0->tables)
00:45:47 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
00:45:47 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:45:47 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:45:47 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
00:45:47 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:45:47 Using cached packaging-24.0-py3-none-any.whl (53 kB)
00:45:47 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:45:47 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:45:47 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
00:45:47 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
00:45:52 Collecting jinja2
00:45:52 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 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 Jinja2-3.1.3-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)
00:45:53 Installing collected packages: MarkupSafe, jinja2
00:45:53 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
00:45:53 + pip install omero-py
00:45:54 Collecting omero-py
00:45:54 Using cached omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
00:45:54 Collecting urllib3<2 (from omero-py)
00:45:54 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
00:45:54 Collecting appdirs (from omero-py)
00:45:54 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:45:54 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:45:54 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
00:45:54 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
00:45:54 Collecting PyYAML (from omero-py)
00:45:54 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:45:54 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:45:54 Collecting requests (from omero-py)
00:45:54 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
00:45:54 Collecting portalocker (from omero-py)
00:45:54 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
00:45:54 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:45:54 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:45:54 Collecting idna<4,>=2.5 (from requests->omero-py)
00:45:54 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
00:45:54 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:45:54 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
00:45:54 Using cached omero_py-5.19.1-py3-none-any.whl (2.8 MB)
00:45:54 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
00:45:54 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:45:54 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
00:45:54 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
00:45:54 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
00:45:54 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
00:45:54 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:45:54 Using cached idna-3.7-py3-none-any.whl (66 kB)
00:45:55 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
00:45:57 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
00:45:57 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:45:58 Collecting omero-metadata
00:45:58 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-rj6i1gpj/omero-metadata_611822e766274da8b6d5c872789189f4
00:45:58 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-rj6i1gpj/omero-metadata_611822e766274da8b6d5c872789189f4
00:45:59 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 1c6d8b21f64df58655125a4217cd2e5e7ce38c0f
00:45:59 Installing build dependencies: started
00:46:01 Installing build dependencies: finished with status 'done'
00:46:01 Getting requirements to build wheel: started
00:46:01 Getting requirements to build wheel: finished with status 'done'
00:46:01 Installing backend dependencies: started
00:46:02 Installing backend dependencies: finished with status 'done'
00:46:02 Preparing metadata (pyproject.toml): started
00:46:02 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:02 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
00:46:02 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
00:46:02 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
00:46:03 Collecting pandas (from omero-metadata)
00:46:03 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:46:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
00:46:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:46:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:46:03 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:46:03 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)
00:46:03 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)
00:46:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
00:46:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
00:46:03 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:46:03 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:46:03 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:46:03 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:46:03 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
00:46:03 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:46:03 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:46:03 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)
00:46:03 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)
00:46:03 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)
00:46:03 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)
00:46:03 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:46:03 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:46:03 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
00:46:03 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:46:03 Building wheels for collected packages: omero-metadata
00:46:03 Building wheel for omero-metadata (pyproject.toml): started
00:46:03 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:46:03 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=a388c5f0a7bdc34ada12441eb1a9593e162bdd3a499bd9b57d309aa6e6349505
00:46:03 Stored in directory: /tmp/pip-ephem-wheel-cache-dy4seec3/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:46:03 Successfully built omero-metadata
00:46:04 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:46:10 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
00:46:10 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:46:11 Collecting omero-cli-render
00:46:11 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-ojevrhf3/omero-cli-render_eab8e284b08241fd8bf173afa1604d7b
00:46:11 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-ojevrhf3/omero-cli-render_eab8e284b08241fd8bf173afa1604d7b
00:46:12 Running command git checkout -b merge_ci --track origin/merge_ci
00:46:12 Switched to a new branch 'merge_ci'
00:46:12 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:46:12 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 7cf5f0d80006d486eda5b113ae4d7bea003015e7
00:46:12 Installing build dependencies: started
00:46:14 Installing build dependencies: finished with status 'done'
00:46:14 Getting requirements to build wheel: started
00:46:15 Getting requirements to build wheel: finished with status 'done'
00:46:15 Installing backend dependencies: started
00:46:16 Installing backend dependencies: finished with status 'done'
00:46:16 Preparing metadata (pyproject.toml): started
00:46:17 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:17 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
00:46:17 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
00:46:17 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
00:46:17 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
00:46:17 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:46:17 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:46:17 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)
00:46:17 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)
00:46:17 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
00:46:17 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
00:46:17 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)
00:46:17 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)
00:46:17 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)
00:46:17 Building wheels for collected packages: omero-cli-render
00:46:17 Building wheel for omero-cli-render (pyproject.toml): started
00:46:17 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:46:17 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=4d6fc1521f966ded2f9fe8f011ee8aa53a1157e6e59f855807e37fa9eff1136e
00:46:17 Stored in directory: /tmp/pip-ephem-wheel-cache-wfye9min/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:46:17 Successfully built omero-cli-render
00:46:17 Installing collected packages: omero-cli-render
00:46:17 Successfully installed omero-cli-render-0.8.1.dev0
00:46:17 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:46:18 Collecting omero-cli-duplicate
00:46:18 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-xm_mmrjb/omero-cli-duplicate_7e0aa8303f7948739f3ff2896c8a8a32
00:46:18 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-xm_mmrjb/omero-cli-duplicate_7e0aa8303f7948739f3ff2896c8a8a32
00:46:19 Running command git checkout -b merge_ci --track origin/merge_ci
00:46:19 Switched to a new branch 'merge_ci'
00:46:19 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:46:19 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 7b421126f62e4d390c61ebabfd0e3d56b4fbe812
00:46:19 Installing build dependencies: started
00:46:21 Installing build dependencies: finished with status 'done'
00:46:21 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: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
00:46:23 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
00:46:23 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:46:23 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:46:23 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:46:23 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)
00:46:23 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
00:46:23 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)
00:46:23 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
00:46:23 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
00:46:23 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
00:46:23 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
00:46:23 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)
00:46:23 Building wheels for collected packages: omero-cli-duplicate
00:46:23 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:46:23 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:46:23 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=71952938d2c20c9666880df631814d7086cf8b166a0da747d2a6ffc9909b0071
00:46:23 Stored in directory: /tmp/pip-ephem-wheel-cache-0ye1sy_i/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:46:23 Successfully built omero-cli-duplicate
00:46:23 Installing collected packages: omero-cli-duplicate
00:46:23 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:46:24 + pip install omero-certificates
00:46:24 Collecting omero-certificates
00:46:24 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:46:24 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
00:46:24 Collecting distro==1.8.0 (from omero-certificates)
00:46:24 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:46:24 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
00:46:24 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:46:24 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:46:24 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:46:24 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)
00:46:24 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
00:46:24 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)
00:46:24 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
00:46:24 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
00:46:24 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)
00:46:24 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)
00:46:24 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)
00:46:24 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:46:24 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:46:25 Installing collected packages: distro, omero-certificates
00:46:25 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:46:25 + for x in *.tar.gz
00:46:25 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
00:46:25 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
00:46:25 Installing build dependencies: started
00:46:27 Installing build dependencies: finished with status 'done'
00:46:27 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
00:46:29 Installing backend dependencies: finished with status 'done'
00:46:29 Preparing metadata (pyproject.toml): started
00:46:29 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:29 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
00:46:29 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
00:46:29 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
00:46:29 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
00:46:29 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
00:46:29 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.3.0)
00:46:29 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
00:46:29 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
00:46:29 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
00:46:29 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
00:46:29 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
00:46:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.7)
00:46:29 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
00:46:29 Building wheels for collected packages: omero-dropbox
00:46:29 Building wheel for omero-dropbox (pyproject.toml): started
00:46:29 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:46:29 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=530943e550f66312418d9810493496def8f652807d7e410aed4844f9ba8eb2ad
00:46:29 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
00:46:29 Successfully built omero-dropbox
00:46:30 Installing collected packages: omero-dropbox
00:46:30 Successfully installed omero-dropbox-5.6.3.dev0
00:46:30 + for x in *.tar.gz
00:46:30 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:46:30 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:46:30 Installing build dependencies: started
00:46:33 Installing build dependencies: finished with status 'done'
00:46:33 Getting requirements to build wheel: started
00:46:33 Getting requirements to build wheel: finished with status 'done'
00:46:33 Installing backend dependencies: started
00:46:34 Installing backend dependencies: finished with status 'done'
00:46:34 Preparing metadata (pyproject.toml): started
00:46:34 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:34 Building wheels for collected packages: omero_marshal
00:46:34 Building wheel for omero_marshal (pyproject.toml): started
00:46:34 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:46:34 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=84b72a30553de20888c18a92d83107636f76db8c9e3d55f9ce1d3b5d2a063983
00:46:34 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:46:34 Successfully built omero_marshal
00:46:35 Installing collected packages: omero_marshal
00:46:35 Successfully installed omero_marshal-0.9.1.dev0
00:46:35 + for x in *.tar.gz
00:46:35 + pip install -U omero_py-5.19.2.dev0.tar.gz
00:46:35 Processing ./omero_py-5.19.2.dev0.tar.gz
00:46:36 Installing build dependencies: started
00:46:38 Installing build dependencies: finished with status 'done'
00:46:38 Getting requirements to build wheel: started
00:46:38 Getting requirements to build wheel: finished with status 'done'
00:46:38 Installing backend dependencies: started
00:46:39 Installing backend dependencies: finished with status 'done'
00:46:39 Preparing metadata (pyproject.toml): started
00:46:39 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:39 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
00:46:39 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
00:46:39 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
00:46:39 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
00:46:39 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.3.0)
00:46:39 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
00:46:39 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (3.6.5)
00:46:39 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
00:46:39 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
00:46:40 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.3.2)
00:46:40 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.7)
00:46:40 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (2024.2.2)
00:46:40 Building wheels for collected packages: omero-py
00:46:40 Building wheel for omero-py (pyproject.toml): started
00:46:41 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:46:41 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2782056 sha256=062883b0cfc1ea566e5cec62a2312265084415f123a6795dd74839401522be8a
00:46:41 Stored in directory: /home/omero/.cache/pip/wheels/ea/20/e5/a97f3d9612c4992136d63e55f22641013e62a9095142003978
00:46:41 Successfully built omero-py
00:46:41 Installing collected packages: omero-py
00:46:41 Attempting uninstall: omero-py
00:46:41 Found existing installation: omero-py 5.19.1
00:46:41 Uninstalling omero-py-5.19.1:
00:46:41 Successfully uninstalled omero-py-5.19.1
00:46:44 Successfully installed omero-py-5.19.2.dev0
00:46:44 + for x in *.tar.gz
00:46:44 + pip install -U omero_scripts-5.8.1.dev0.tar.gz
00:46:44 Processing ./omero_scripts-5.8.1.dev0.tar.gz
00:46:44 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
00:46:48 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:48 Building wheels for collected packages: omero-scripts
00:46:48 Building wheel for omero-scripts (pyproject.toml): started
00:46:48 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:46:48 Created wheel for omero-scripts: filename=omero_scripts-5.8.1.dev0-py3-none-any.whl size=116570 sha256=bc8717e19079eacd133677ceb41af9afa3ea9ba2a37e1d0af8720ffd722bdb13
00:46:48 Stored in directory: /home/omero/.cache/pip/wheels/a8/91/14/9f09f5cd22683712c3152aca8a47db0c74bc66dbf3240b737a
00:46:48 Successfully built omero-scripts
00:46:49 Installing collected packages: omero-scripts
00:46:49 Successfully installed omero-scripts-5.8.1.dev0
00:46:49 + for x in *.tar.gz
00:46:49 + pip install -U omero_web-5.25.1.dev0.tar.gz
00:46:49 Processing ./omero_web-5.25.1.dev0.tar.gz
00:46:50 Installing build dependencies: started
00:46:52 Installing build dependencies: finished with status 'done'
00:46:52 Getting requirements to build wheel: started
00:46:52 Getting requirements to build wheel: finished with status 'done'
00:46:52 Installing backend dependencies: started
00:46:53 Installing backend dependencies: finished with status 'done'
00:46:53 Preparing metadata (pyproject.toml): started
00:46:54 Preparing metadata (pyproject.toml): finished with status 'done'
00:46:54 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.2.dev0)
00:46:54 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
00:46:54 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:46:54 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
00:46:54 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
00:46:54 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
00:46:54 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:46:54 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
00:46:54 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:46:54 Collecting django-csp (from omero-web==5.25.1.dev0)
00:46:54 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:46:54 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
00:46:54 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
00:46:54 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
00:46:54 Downloading gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
00:46:54 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
00:46:54 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
00:46:54 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
00:46:54 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
00:46:54 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
00:46:54 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:46:54 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:46:54 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:46:54 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
00:46:54 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
00:46:54 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
00:46:54 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
00:46:54 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
00:46:54 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
00:46:54 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==5.25.1.dev0) (3.6.5)
00:46:54 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
00:46:55 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:46:55 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
00:46:55 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
00:46:55 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.7)
00:46:55 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
00:46:55 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:46:55 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:46:55 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:46:55 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
00:46:55 Downloading gunicorn-22.0.0-py3-none-any.whl (84 kB)
00:46:55 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 84.4/84.4 kB 3.6 MB/s eta 0:00:00
00:46:55 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
00:46:55 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:46:55 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:46:55 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
00:46:55 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
00:46:55 Building wheels for collected packages: omero-web
00:46:55 Building wheel for omero-web (pyproject.toml): started
00:46:56 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:46:56 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2772197 sha256=de9dd7d30bb47511c4e0bac951ef6995e1d5f8383d269e2fd433076c60948f6b
00:46:56 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
00:46:56 Successfully built omero-web
00:46:57 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:47:00 Successfully installed Django-4.2.11 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-5.25.1.dev0 sqlparse-0.5.0 typing-extensions-4.11.0 whitenoise-6.6.0
00:47:00 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:47:00 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:47:00 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:47:00 --2024-04-18 00:47:00-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:47:00 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.110.133, 185.199.109.133, ...
00:47:00 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
00:47:00 HTTP request sent, awaiting response... 200 OK
00:47:00 Length: 94614 (92K) [text/plain]
00:47:00 Saving to: ‘Figure_To_Pdf.py’
00:47:00
00:47:00 0K .......... .......... .......... .......... .......... 54% 3.73M 0s
00:47:00 50K .......... .......... .......... .......... .. 100% 19.0M=0.02s
00:47:00
00:47:00 2024-04-18 00:47:00 (5.91 MB/s) - ‘Figure_To_Pdf.py’ saved [94614/94614]
00:47:00
00:47:00 + chmod 755 Figure_To_Pdf.py
00:47:00 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:47:00 + omero config set omero.db.name OMERO-server
00:47:02 + omero config set omero.db.host pg
00:47:04 + omero config set omero.db.user postgres
00:47:06 + omero config set omero.data.dir /home/omero/omero-server-data
00:47:08 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:47:10 + omero config set omero.db.poolsize 25
00:47:12 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:47:14 + omero config set omero.security.trustStorePassword changeit
00:47:16 + omero config set omero.mail.config true
00:47:18 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:47:20 + omero config set omero.mail.host smtp.dundee.ac.uk
00:47:22 + omero certificates
00:47:24 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:47:24 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:47:25 + '[' false = true ']'
00:47:25 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:47:25 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:47:25 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:47:25 2024-04-18 00:47:25,318 [ omego.db] DEBUG dbcommand => upgrade
00:47:25 2024-04-18 00:47:25,319 [ omego.db] DEBUG dbhost => localhost
00:47:25 2024-04-18 00:47:25,319 [ omego.db] DEBUG dbname => OMERO-server
00:47:25 2024-04-18 00:47:25,319 [ omego.db] DEBUG dbpass => omero
00:47:25 2024-04-18 00:47:25,319 [ omego.db] DEBUG dbuser => omero
00:47:25 2024-04-18 00:47:25,319 [ omego.db] DEBUG rootpass => omero
00:47:25 2024-04-18 00:47:25,319 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:47:25 2024-04-18 00:47:25,319 [omego.extern] INFO Executing : omero version
00:47:26 OMERO.py version:
00:47:26 OMERO.server version:
00:47:26 5.6.3-453-b6a142b3c3-ice36
00:47:26 5.19.2.dev0
00:47:27 2024-04-18 00:47:27,314 [omego.extern] INFO Completed [1.995 s]
00:47:27 2024-04-18 00:47:27,314 [omego.extern] DEBUG Using omero CLI from omero
00:47:27 2024-04-18 00:47:27,315 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:47:27 2024-04-18 00:47:27,315 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:47:27 2024-04-18 00:47:27,315 [omego.extern] INFO Executing : omero config get --show-password
00:47:29 2024-04-18 00:47:29,662 [omego.extern] INFO Completed [2.347 s]
00:47:29 2024-04-18 00:47:29,662 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:47:29 2024-04-18 00:47:29,662 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:47:29 2024-04-18 00:47:29,727 [omego.extern] INFO Completed [0.065 s]
00:47:29 2024-04-18 00:47:29,727 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:47:29 2024-04-18 00:47:29,728 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:47:29
00:47:29 2024-04-18 00:47:29,728 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:47:29 2024-04-18 00:47:29,728 [omego.extern] INFO Executing : omero config get --show-password
00:47:31 2024-04-18 00:47:31,751 [omego.extern] INFO Completed [2.023 s]
00:47:31 2024-04-18 00:47:31,752 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:47:31 2024-04-18 00:47:31,752 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:47:31 2024-04-18 00:47:31,782 [omego.extern] INFO Completed [0.030 s]
00:47:31 2024-04-18 00:47:31,782 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.7") at port "5432".\n'
00:47:31 2024-04-18 00:47:31,782 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:47:31 2024-04-18 00:47:31,783 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:47:31 2024-04-18 00:47:31,783 [omego.extern] INFO Executing : omero config get --show-password
00:47:34 2024-04-18 00:47:34,052 [omego.extern] INFO Completed [2.269 s]
00:47:34 2024-04-18 00:47:34,053 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:47:34 2024-04-18 00:47:34,053 [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
00:47:34 2024-04-18 00:47:34,096 [omego.extern] INFO Completed [0.043 s]
00:47:34 2024-04-18 00:47:34,097 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:47:34 2024-04-18 00:47:34,097 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:47:34 2024-04-18 00:47:34,101 [ omego.db] INFO Database is already at OMERO5.4__0
00:47:34 + export LANG=en_US.UTF-8
00:47:34 + LANG=en_US.UTF-8
00:47:34 + export LANGUAGE=en_US:en
00:47:34 + LANGUAGE=en_US:en
00:47:34 + export LC_ALL=en_US.UTF-8
00:47:34 + LC_ALL=en_US.UTF-8
00:47:34 + BUILD_ID=DONT_KILL_ME
00:47:34 + omero admin start
00:47:48 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
00:48:09 + omero admin waitup
00:48:11 Waiting on startup. Use CTRL-C to exit
00:48:12 + omero admin diagnostics
00:48:14
00:48:14 ================================================================================
00:48:14 OMERO Diagnostics (admin)
00:48:14 ================================================================================
00:48:14
00:48:14 Commands: java -version 11.0.22 (/usr/bin/java)
00:48:15 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:48:15 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:48:15 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:48:15 Commands: psql --version 16.2 (/usr/bin/psql)
00:48:15 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:48:15
00:48:15 Component: OMERO.py 5.19.2.dev0
00:48:15 Component: OMERO.server 5.6.3-453-b6a142b3c3-ice36
00:48:15
00:48:15 Server: icegridnode running
00:48:15 Server: Blitz-0 active (pid = 16483, enabled)
00:48:15 Server: DropBox active (pid = 16520, enabled)
00:48:15 Server: FileServer active (pid = 16504, enabled)
00:48:15 Server: Indexer-0 active (pid = 16514, enabled)
00:48:15 Server: MonitorServer active (pid = 16515, enabled)
00:48:15 Server: OMERO.Glacier2 active (pid = 16537, enabled)
00:48:15 Server: OMERO.IceStorm active (pid = 16532, enabled)
00:48:15 Server: PixelData-0 active (pid = 16539, enabled)
00:48:15 Server: Processor-0 activating (enabled)
00:48:15 Server: Tables-0 activating (enabled)
00:48:15 Server: TestDropBox inactive (enabled)
00:48:15
00:48:15 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:48:15 Log files: Blitz-0.log 25.3 KB errors=0 warnings=1
00:48:15 Log files: DropBox.log 1.2 KB
00:48:15 Log files: FileServer.log 114 B
00:48:15 Log files: Indexer-0.log 2.6 KB
00:48:15 Log files: MonitorServer.log 1.1 KB
00:48:15 Log files: PixelData-0.log 3.2 KB
00:48:15 Log files: Processor-0.log 592 B
00:48:15 Log files: Tables-0.log 841 B
00:48:15 Log files: TestDropBox.log n/a
00:48:15 Log files: master.err 2.1 KB
00:48:15 Log files: master.out 41.5 KB
00:48:15 Log files: Total size 0.08 MB
00:48:15
00:48:15
00:48:15 Environment:OMERO_HOME=(unset)
00:48:15 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:15 Environment:OMERO_NODE=(unset)
00:48:15 Environment:OMERO_MASTER=(unset)
00:48:15 Environment:OMERO_USERDIR=(unset)
00:48:15 Environment:OMERO_TMPDIR=(unset)
00:48:15 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
00:48:15 Environment:PYTHONPATH=(unset)
00:48:15 Environment:ICE_HOME=/opt/ice-3.6.5
00:48:15 Environment:LD_LIBRARY_PATH=(unset)
00:48:15 Environment:DYLD_LIBRARY_PATH=(unset)
00:48:15
00:48:15 OMERO SSL port:4064
00:48:15 OMERO TCP port:4063
00:48:15 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:48:15 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:48:15
00:48:15 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:15 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:15 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:15 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:48:15
00:48:15 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 18 April 2024 6c789ad2a933e982911e3d66e604bc0dee46de4a
00:48:15 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 18 April 2024 6c789ad2a933e982911e3d66e604bc0dee46de4a
00:48:15 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 18 April 2024 6c789ad2a933e982911e3d66e604bc0dee46de4a
00:48:15 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 18 April 2024 0cffe8cbaf6ae97ff0f5674ed4a4e6f73ddb92a3
00:48:15 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 18 April 2024 0cffe8cbaf6ae97ff0f5674ed4a4e6f73ddb92a3
00:48:15 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 18 April 2024 0cffe8cbaf6ae97ff0f5674ed4a4e6f73ddb92a3
00:48:15 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 18 April 2024 0cffe8cbaf6ae97ff0f5674ed4a4e6f73ddb92a3
00:48:15 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 18 April 2024 0cffe8cbaf6ae97ff0f5674ed4a4e6f73ddb92a3
00:48:15 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 18 April 2024 0cffe8cbaf6ae97ff0f5674ed4a4e6f73ddb92a3
00:48:15 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
00:48:15 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
00:48:15 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
00:48:15 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
00:48:15 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
00:48:15 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
00:48:15 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
00:48:16 + deactivate
00:48:16 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:48:16 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:16 + export PATH
00:48:16 + unset _OLD_VIRTUAL_PATH
00:48:16 + '[' -n '' ']'
00:48:16 + '[' -n /bin/bash -o -n '' ']'
00:48:16 + hash -r
00:48:16 + '[' -n '' ']'
00:48:16 + unset VIRTUAL_ENV
00:48:16 + '[' '!' '' = nondestructive ']'
00:48:16 + unset -f deactivate
00:48:16 Finished: SUCCESS
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