09:16:29 Started by upstream project "Trigger" build number 409
09:16:29 originally caused by:
09:16:29 Started by user devspace
09:16:29 Running as SYSTEM
09:16:30 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
09:16:31 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5476382491997605874.sh
09:16:31 + source /home/settings.env
09:16:31 ++ OMERO_DB_HOST=pg
09:16:31 ++ OMERO_DB_USER=postgres
09:16:31 ++ OMERO_DB_PASS=
09:16:31 ++ OMERO_ROOT_PASS=omero
09:16:31 ++ OMERO_DATA_DIR=/OMERO
09:16:31 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:16:31 + OMERO_DB_NAME=OMERO-server
09:16:31 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:16:31 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:16:31 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:16:31 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:16:31 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
09:16:31 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:16:31 ++ deactivate nondestructive
09:16:31 ++ '[' -n '' ']'
09:16:31 ++ '[' -n '' ']'
09:16:31 ++ '[' -n /bin/bash -o -n '' ']'
09:16:31 ++ hash -r
09:16:31 ++ '[' -n '' ']'
09:16:31 ++ unset VIRTUAL_ENV
09:16:31 ++ '[' '!' nondestructive = nondestructive ']'
09:16:31 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:16:31 ++ export VIRTUAL_ENV
09:16:31 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:16:31 ++ 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
09:16:31 ++ export PATH
09:16:31 ++ '[' -n '' ']'
09:16:31 ++ '[' -z '' ']'
09:16:31 ++ _OLD_VIRTUAL_PS1=
09:16:31 ++ PS1='(.venv3) '
09:16:31 ++ export PS1
09:16:31 ++ '[' -n /bin/bash -o -n '' ']'
09:16:31 ++ hash -r
09:16:31 + omero admin stop
09:17:08 Server not running
09:17:08 + echo not running
09:17:08 not running
09:17:08 + sleep 5
09:17:13 + deactivate
09:17:13 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:17:13 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:17:13 + export PATH
09:17:13 + unset _OLD_VIRTUAL_PATH
09:17:13 + '[' -n '' ']'
09:17:13 + '[' -n /bin/bash -o -n '' ']'
09:17:13 + hash -r
09:17:13 + '[' -n '' ']'
09:17:13 + unset VIRTUAL_ENV
09:17:13 + '[' '!' '' = nondestructive ']'
09:17:13 + unset -f deactivate
09:17:13 + rm -rf /home/omero/workspace/OMERO-server/.venv3
09:17:14 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
09:17:18 + '[' false = true ']'
09:17:18 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
09:17:18 Skipping PURGE_DATA:CleanDbAndRepo
09:17:18 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.2-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-5.19.7.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.29.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
09:17:21 Copied 1 artifact from "OMERO-build" build number 349
09:17:21 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 345
09:17:21 Copied 2 artifacts from "OMERO-build-build" build number 372
09:17:21 [OMERO-server] $ /bin/bash -xe /tmp/jenkins9365870458902618630.sh
09:17:21 + source /home/settings.env
09:17:21 ++ OMERO_DB_HOST=pg
09:17:21 ++ OMERO_DB_USER=postgres
09:17:21 ++ OMERO_DB_PASS=
09:17:21 ++ OMERO_ROOT_PASS=omero
09:17:21 ++ OMERO_DATA_DIR=/OMERO
09:17:21 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:17:21 + OMERO_DB_NAME=OMERO-server
09:17:21 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:17:21 + mkdir -p /home/omero/omero-server-data
09:17:21 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:17:21 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:17:21 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:17:21 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:17:21 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:17:21 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:17:21 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:17:21 ++ ls OMERO.server-5.6.3-548-a51b5a3b38-ice36.zip
09:17:21 + ZIP=OMERO.server-5.6.3-548-a51b5a3b38-ice36.zip
09:17:21 + '[' '!' -z '' ']'
09:17:21 + DIST=OMERO.server-5.6.3-548-a51b5a3b38-ice36
09:17:21 + unzip OMERO.server-5.6.3-548-a51b5a3b38-ice36.zip
09:17:21 Archive: OMERO.server-5.6.3-548-a51b5a3b38-ice36.zip
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/blitz/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/grid/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/profiles/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/error/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/grid/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/luts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/luts/janelia/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/luts/matplotlib/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/luts/ncsa_paledit/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/luts/seaborn/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/luts/wcif/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/analysis_scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/annotation_scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/export_scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/figure_scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/import_scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/scripts/omero/util_scripts/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/server/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/share/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/share/licenses/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/misc/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__1/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__10/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__11/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__2/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__3/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__4/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__5/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__6/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__7/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__8/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3A__9/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3__4/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3__5/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3__6/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO3__7/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO4.1__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO4.2__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO4.2__0/t/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO4.3__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO4.4__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO4__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.0__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.1__1/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.2__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.3__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4DEV__1/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4DEV__2/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4DEV__3/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/
09:17:21 creating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/var/
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/LICENSE.txt
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/backup.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/blitz/mail-senders.example
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/blitz/mail-server.example
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/build.properties
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/env.bat
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/env.sh
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/hibernate.properties
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/ice.config
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/logback-cli.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/logback-indexing-cli.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/logback-indexing.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/logback.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/mime.types
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/node1.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/node2.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/omero.properties
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/profiles/psql
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/rollover.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/Windows.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/error/maintainance.html
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/grid/README
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/grid/default.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/grid/templates.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/grid/windefault.xml
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/ice.config
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/internal.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/master.cfg
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/templates/robot.template
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/etc/testdropbox.config
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/history.rst
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/OMEZarrReader.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/activation.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/aggdesigner-algorithm.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/aircompressor.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/annotations.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/antlr.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/aopalliance.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/avatica-core.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/avatica-metrics.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/aws-java-sdk-core.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/aws-java-sdk-kms.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/aws-java-sdk-s3.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/base.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-all.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-anim.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-awt-util.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-bridge.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-codec.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-constants.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-css.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-dom.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-ext.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-extension.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-gui-util.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-gvt.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-i18n.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-parser.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-rasterizer-ext.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-rasterizer.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-script.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-slideshow.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-squiggle-ext.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-squiggle.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-svg-dom.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-svgbrowser.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-svggen.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-svgpp.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-svgrasterizer.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-swing.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-transcoder.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-ttf2svg.jar
09:17:21 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/lib/client/batik-util.jar
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09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/psql-header.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/schema.sql
09:17:23 inflating: OMERO.server-5.6.3-548-a51b5a3b38-ice36/sql/psql/OMERO5.4__0/views.sql
09:17:23 + rm -f OMERO.server-5.6.3-548-a51b5a3b38-ice36.zip
09:17:23 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-548-a51b5a3b38-ice36 /home/omero/workspace/OMERO-server/OMERO.server
09:17:23 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:17:23 ++ deactivate nondestructive
09:17:23 ++ '[' -n '' ']'
09:17:23 ++ '[' -n '' ']'
09:17:23 ++ '[' -n /bin/bash -o -n '' ']'
09:17:23 ++ hash -r
09:17:23 ++ '[' -n '' ']'
09:17:23 ++ unset VIRTUAL_ENV
09:17:23 ++ '[' '!' nondestructive = nondestructive ']'
09:17:23 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:17:23 ++ export VIRTUAL_ENV
09:17:23 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:17:23 ++ 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
09:17:23 ++ export PATH
09:17:23 ++ '[' -n '' ']'
09:17:23 ++ '[' -z '' ']'
09:17:23 ++ _OLD_VIRTUAL_PS1=
09:17:23 ++ PS1='(.venv3) '
09:17:23 ++ export PS1
09:17:23 ++ '[' -n /bin/bash -o -n '' ']'
09:17:23 ++ hash -r
09:17:23 + 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
09:17:24 Collecting zeroc-ice==3.6.5
09:17:25 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)
09:17:26 Installing collected packages: zeroc-ice
09:17:27 Successfully installed zeroc-ice-3.6.5
09:17:27 + pip install -U pip future
09:17:27 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
09:17:27 Collecting pip
09:17:28 Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
09:17:28 Collecting future
09:17:28 Using cached future-1.0.0-py3-none-any.whl (491 kB)
09:17:28 Installing collected packages: pip, future
09:17:28 Attempting uninstall: pip
09:17:28 Found existing installation: pip 21.2.3
09:17:28 Uninstalling pip-21.2.3:
09:17:28 Successfully uninstalled pip-21.2.3
09:17:29 Successfully installed future-1.0.0 pip-25.0.1
09:17:29 + pip install markdown
09:17:30 Collecting markdown
09:17:30 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
09:17:30 Collecting importlib-metadata>=4.4 (from markdown)
09:17:30 Using cached importlib_metadata-8.6.1-py3-none-any.whl.metadata (4.7 kB)
09:17:30 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
09:17:30 Using cached zipp-3.21.0-py3-none-any.whl.metadata (3.7 kB)
09:17:30 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
09:17:30 Using cached importlib_metadata-8.6.1-py3-none-any.whl (26 kB)
09:17:30 Using cached zipp-3.21.0-py3-none-any.whl (9.6 kB)
09:17:30 Installing collected packages: zipp, importlib-metadata, markdown
09:17:30 Successfully installed importlib-metadata-8.6.1 markdown-3.7 zipp-3.21.0
09:17:30 + pip install reportlab
09:17:31 Collecting reportlab
09:17:31 Using cached reportlab-4.3.1-py3-none-any.whl.metadata (1.7 kB)
09:17:31 Collecting pillow>=9.0.0 (from reportlab)
09:17:31 Using cached pillow-11.1.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.1 kB)
09:17:31 Collecting chardet (from reportlab)
09:17:31 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
09:17:32 Using cached reportlab-4.3.1-py3-none-any.whl (1.9 MB)
09:17:32 Using cached pillow-11.1.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
09:17:32 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
09:17:32 Installing collected packages: pillow, chardet, reportlab
09:17:33 Successfully installed chardet-5.2.0 pillow-11.1.0 reportlab-4.3.1
09:17:33 + pip install omego
09:17:34 Collecting omego
09:17:34 Using cached omego-0.7.0-py3-none-any.whl
09:17:34 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
09:17:34 Collecting yaclifw>=0.1.1 (from omego)
09:17:34 Using cached yaclifw-0.2.0-py3-none-any.whl
09:17:34 Collecting six (from yaclifw>=0.1.1->omego)
09:17:34 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
09:17:35 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
09:17:35 Installing collected packages: six, yaclifw, omego
09:17:35 Successfully installed omego-0.7.0 six-1.17.0 yaclifw-0.2.0
09:17:35 + pip install tables
09:17:35 Collecting tables
09:17:35 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
09:17:36 Collecting numpy>=1.19.0 (from tables)
09:17:36 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
09:17:36 Collecting numexpr>=2.6.2 (from tables)
09:17:36 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
09:17:36 Collecting packaging (from tables)
09:17:36 Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
09:17:36 Collecting py-cpuinfo (from tables)
09:17:36 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
09:17:36 Collecting blosc2>=2.3.0 (from tables)
09:17:36 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
09:17:37 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
09:17:37 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
09:17:37 Collecting msgpack (from blosc2>=2.3.0->tables)
09:17:37 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
09:17:37 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
09:17:37 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
09:17:37 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (396 kB)
09:17:37 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
09:17:38 Using cached packaging-24.2-py3-none-any.whl (65 kB)
09:17:38 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
09:17:38 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
09:17:38 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
09:17:38 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
09:17:41 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.0.2 packaging-24.2 py-cpuinfo-9.0.0 tables-3.9.2
09:17:41 + pip install jinja2
09:17:42 Collecting jinja2
09:17:42 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
09:17:42 Collecting MarkupSafe>=2.0 (from jinja2)
09:17:42 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
09:17:42 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
09:17:42 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB)
09:17:42 Installing collected packages: MarkupSafe, jinja2
09:17:42 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.6
09:17:43 + pip install omero-py
09:17:43 Collecting omero-py
09:17:43 Using cached omero_py-5.19.6-py3-none-any.whl.metadata (6.4 kB)
09:17:43 Collecting urllib3<2 (from omero-py)
09:17:43 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
09:17:43 Collecting appdirs (from omero-py)
09:17:43 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
09:17:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
09:17:44 Collecting numpy<2 (from omero-py)
09:17:44 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
09:17:44 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (11.1.0)
09:17:44 Collecting PyYAML (from omero-py)
09:17:44 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
09:17:44 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
09:17:44 Collecting requests (from omero-py)
09:17:44 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
09:17:44 Collecting portalocker (from omero-py)
09:17:44 Using cached portalocker-3.1.1-py3-none-any.whl.metadata (8.6 kB)
09:17:44 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
09:17:45 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
09:17:45 Collecting idna<4,>=2.5 (from requests->omero-py)
09:17:45 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
09:17:45 Collecting certifi>=2017.4.17 (from requests->omero-py)
09:17:45 Using cached certifi-2025.1.31-py3-none-any.whl.metadata (2.5 kB)
09:17:45 Using cached omero_py-5.19.6-py3-none-any.whl (2.8 MB)
09:17:45 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
09:17:45 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
09:17:45 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
09:17:45 Using cached portalocker-3.1.1-py3-none-any.whl (19 kB)
09:17:45 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
09:17:46 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
09:17:46 Using cached certifi-2025.1.31-py3-none-any.whl (166 kB)
09:17:46 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (146 kB)
09:17:46 Using cached idna-3.10-py3-none-any.whl (70 kB)
09:17:46 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
09:17:46 Attempting uninstall: numpy
09:17:46 Found existing installation: numpy 2.0.2
09:17:46 Uninstalling numpy-2.0.2:
09:17:46 Successfully uninstalled numpy-2.0.2
09:17:50 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2025.1.31 charset-normalizer-3.4.1 idna-3.10 numpy-1.26.4 omero-py-5.19.6 portalocker-3.1.1 requests-2.32.3 urllib3-1.26.20
09:17:50 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
09:17:51 Collecting omero-metadata
09:17:51 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-m4dzx04d/omero-metadata_9cecb3d1cbbf44b3b5b54d7123b132a1
09:17:51 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-m4dzx04d/omero-metadata_9cecb3d1cbbf44b3b5b54d7123b132a1
09:17:53 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit f2fa6977d8d46a4c09de3879821eb7a3830af179
09:17:53 Installing build dependencies: started
09:17:54 Installing build dependencies: finished with status 'done'
09:17:54 Getting requirements to build wheel: started
09:17:54 Getting requirements to build wheel: finished with status 'done'
09:17:54 Preparing metadata (pyproject.toml): started
09:17:55 Preparing metadata (pyproject.toml): finished with status 'done'
09:17:55 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.6)
09:17:55 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
09:17:55 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.6)
09:17:55 Collecting pandas (from omero-metadata)
09:17:55 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
09:17:55 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
09:17:55 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
09:17:55 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
09:17:55 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
09:17:55 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (11.1.0)
09:17:55 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)
09:17:55 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
09:17:55 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.1.1)
09:17:55 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (3.0.2)
09:17:55 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
09:17:55 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
09:17:55 Collecting pytz>=2020.1 (from pandas->omero-metadata)
09:17:56 Using cached pytz-2025.1-py2.py3-none-any.whl.metadata (22 kB)
09:17:56 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
09:17:56 Using cached tzdata-2025.1-py2.py3-none-any.whl.metadata (1.4 kB)
09:17:56 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
09:17:56 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.1)
09:17:56 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
09:17:56 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.1.31)
09:17:56 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
09:17:56 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
09:17:56 Using cached pytz-2025.1-py2.py3-none-any.whl (507 kB)
09:17:56 Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
09:17:57 Building wheels for collected packages: omero-metadata
09:17:57 Building wheel for omero-metadata (pyproject.toml): started
09:17:57 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
09:17:57 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39281 sha256=93fa722e532478d6c62d0ba919aeec91c897cab8d147c2c02edf05f6121f98d6
09:17:57 Stored in directory: /tmp/pip-ephem-wheel-cache-6ukl1ldd/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
09:17:57 Successfully built omero-metadata
09:17:57 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
09:18:02 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2025.1 tzdata-2025.1
09:18:02 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
09:18:02 Collecting omero-cli-render
09:18:02 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-ic27pfuk/omero-cli-render_e86ba037ba9c4c76a66c59782f5a2042
09:18:02 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-ic27pfuk/omero-cli-render_e86ba037ba9c4c76a66c59782f5a2042
09:18:03 Running command git checkout -b merge_ci --track origin/merge_ci
09:18:03 Switched to a new branch 'merge_ci'
09:18:03 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:18:03 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 29111b8d83e015eb437a2b937538549a0dbc8b7d
09:18:03 Installing build dependencies: started
09:18:05 Installing build dependencies: finished with status 'done'
09:18:05 Getting requirements to build wheel: started
09:18:05 Getting requirements to build wheel: finished with status 'done'
09:18:05 Preparing metadata (pyproject.toml): started
09:18:05 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:05 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
09:18:05 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.6)
09:18:05 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
09:18:05 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
09:18:05 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
09:18:05 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
09:18:05 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.1.0)
09:18:05 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
09:18:05 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
09:18:05 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.1.1)
09:18:05 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.1)
09:18:05 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
09:18:05 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.1.31)
09:18:05 Building wheels for collected packages: omero-cli-render
09:18:05 Building wheel for omero-cli-render (pyproject.toml): started
09:18:05 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
09:18:05 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19594 sha256=3c1628710fe3b56b7d3a3fb5befa9a9269b4816ae8196e2718e852896ebb17a9
09:18:05 Stored in directory: /tmp/pip-ephem-wheel-cache-62nyoe0d/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
09:18:05 Successfully built omero-cli-render
09:18:05 Installing collected packages: omero-cli-render
09:18:06 Successfully installed omero-cli-render-0.8.2.dev0
09:18:06 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
09:18:06 Collecting omero-cli-duplicate
09:18:06 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-5u4x7fiz/omero-cli-duplicate_4e707651b5c94b2eb9bb50bfe99bb504
09:18:06 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-5u4x7fiz/omero-cli-duplicate_4e707651b5c94b2eb9bb50bfe99bb504
09:18:07 Running command git checkout -b merge_ci --track origin/merge_ci
09:18:07 Switched to a new branch 'merge_ci'
09:18:07 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:18:07 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit e201abc0db318079b30f4f69ce8fa9a35b3537ec
09:18:07 Installing build dependencies: started
09:18:09 Installing build dependencies: finished with status 'done'
09:18:09 Getting requirements to build wheel: started
09:18:09 Getting requirements to build wheel: finished with status 'done'
09:18:09 Preparing metadata (pyproject.toml): started
09:18:09 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:09 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.6)
09:18:09 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
09:18:09 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
09:18:09 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
09:18:09 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
09:18:09 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.1.0)
09:18:09 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
09:18:09 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)
09:18:09 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
09:18:09 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.1.1)
09:18:09 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.1)
09:18:09 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
09:18:09 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.1.31)
09:18:09 Building wheels for collected packages: omero-cli-duplicate
09:18:09 Building wheel for omero-cli-duplicate (pyproject.toml): started
09:18:09 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
09:18:09 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=b089ceeee82c2ff165440a28d7fddf99535d8445854731ebc4287a1c44193978
09:18:09 Stored in directory: /tmp/pip-ephem-wheel-cache-0annq48k/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
09:18:09 Successfully built omero-cli-duplicate
09:18:09 Installing collected packages: omero-cli-duplicate
09:18:09 Successfully installed omero-cli-duplicate-0.4.1.dev0
09:18:09 + pip install omero-certificates
09:18:10 Collecting omero-certificates
09:18:10 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
09:18:10 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.6)
09:18:10 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
09:18:10 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
09:18:10 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
09:18:10 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
09:18:10 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (11.1.0)
09:18:10 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
09:18:10 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)
09:18:10 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
09:18:10 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.1.1)
09:18:10 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.1)
09:18:10 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
09:18:10 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.1.31)
09:18:10 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
09:18:10 Installing collected packages: omero-certificates
09:18:10 Successfully installed omero-certificates-0.4.0
09:18:10 + for x in *.tar.gz
09:18:10 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
09:18:11 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
09:18:11 Installing build dependencies: started
09:18:12 Installing build dependencies: finished with status 'done'
09:18:12 Getting requirements to build wheel: started
09:18:12 Getting requirements to build wheel: finished with status 'done'
09:18:12 Preparing metadata (pyproject.toml): started
09:18:13 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:13 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.6)
09:18:13 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
09:18:13 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
09:18:13 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
09:18:13 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
09:18:13 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.1.0)
09:18:13 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
09:18:13 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)
09:18:13 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
09:18:13 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.1.1)
09:18:13 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.1)
09:18:13 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
09:18:13 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.1.31)
09:18:13 Building wheels for collected packages: omero-dropbox
09:18:13 Building wheel for omero-dropbox (pyproject.toml): started
09:18:13 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
09:18:13 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=148294c97cbcef54df911507f5395789d583f0732fd476a596b6c0c765da5b75
09:18:13 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
09:18:13 Successfully built omero-dropbox
09:18:13 Installing collected packages: omero-dropbox
09:18:13 Successfully installed omero-dropbox-5.7.1.dev0
09:18:13 + for x in *.tar.gz
09:18:13 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
09:18:13 Processing ./omero_marshal-0.9.1.dev0.tar.gz
09:18:14 Installing build dependencies: started
09:18:15 Installing build dependencies: finished with status 'done'
09:18:15 Getting requirements to build wheel: started
09:18:15 Getting requirements to build wheel: finished with status 'done'
09:18:15 Preparing metadata (pyproject.toml): started
09:18:16 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:16 Building wheels for collected packages: omero_marshal
09:18:16 Building wheel for omero_marshal (pyproject.toml): started
09:18:16 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
09:18:16 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88126 sha256=0f4f331f9583cc87639537ff688b1f9fab7a9f3de5a701e1ecd94dd41639c877
09:18:16 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
09:18:16 Successfully built omero_marshal
09:18:16 Installing collected packages: omero_marshal
09:18:16 Successfully installed omero_marshal-0.9.1.dev0
09:18:16 + for x in *.tar.gz
09:18:16 + pip install -U omero_py-5.19.7.dev0.tar.gz
09:18:17 Processing ./omero_py-5.19.7.dev0.tar.gz
09:18:17 Installing build dependencies: started
09:18:19 Installing build dependencies: finished with status 'done'
09:18:19 Getting requirements to build wheel: started
09:18:19 Getting requirements to build wheel: finished with status 'done'
09:18:19 Preparing metadata (pyproject.toml): started
09:18:19 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:19 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.26.20)
09:18:19 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.4.4)
09:18:19 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.0.0)
09:18:19 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (1.26.4)
09:18:19 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (11.1.0)
09:18:19 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (6.0.2)
09:18:19 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (3.6.5)
09:18:19 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (2.32.3)
09:18:19 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.7.dev0) (3.1.1)
09:18:19 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.7.dev0) (3.4.1)
09:18:19 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.7.dev0) (3.10)
09:18:19 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.7.dev0) (2025.1.31)
09:18:19 Building wheels for collected packages: omero-py
09:18:19 Building wheel for omero-py (pyproject.toml): started
09:18:20 Building wheel for omero-py (pyproject.toml): finished with status 'done'
09:18:20 Created wheel for omero-py: filename=omero_py-5.19.7.dev0-py3-none-any.whl size=2783527 sha256=b4502e91f07ded53c0f8dac6703f0701e555501a01143c67deec5dacb79a2041
09:18:20 Stored in directory: /home/omero/.cache/pip/wheels/f7/4b/64/80f70975ab0fd7430ae6a8e09a093688abe603abcb5090fc1b
09:18:20 Successfully built omero-py
09:18:20 Installing collected packages: omero-py
09:18:20 Attempting uninstall: omero-py
09:18:20 Found existing installation: omero-py 5.19.6
09:18:20 Uninstalling omero-py-5.19.6:
09:18:21 Successfully uninstalled omero-py-5.19.6
09:18:23 Successfully installed omero-py-5.19.7.dev0
09:18:23 + for x in *.tar.gz
09:18:23 + pip install -U omero_scripts-5.9.1.dev0.tar.gz
09:18:23 Processing ./omero_scripts-5.9.1.dev0.tar.gz
09:18:23 Installing build dependencies: started
09:18:25 Installing build dependencies: finished with status 'done'
09:18:25 Getting requirements to build wheel: started
09:18:26 Getting requirements to build wheel: finished with status 'done'
09:18:26 Preparing metadata (pyproject.toml): started
09:18:26 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:26 Building wheels for collected packages: omero-scripts
09:18:26 Building wheel for omero-scripts (pyproject.toml): started
09:18:26 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
09:18:26 Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136849 sha256=6232212d581627b4a79aa7c802f8d3a473c5421dac4090cbe8954b54a081cc0b
09:18:26 Stored in directory: /home/omero/.cache/pip/wheels/4d/ea/13/654c1b7c00351342c84d3e545702a0063ab8e12d260d83323c
09:18:26 Successfully built omero-scripts
09:18:26 Installing collected packages: omero-scripts
09:18:26 Successfully installed omero-scripts-5.9.1.dev0
09:18:26 + for x in *.tar.gz
09:18:26 + pip install -U omero_web-5.29.1.dev0.tar.gz
09:18:27 Processing ./omero_web-5.29.1.dev0.tar.gz
09:18:27 Installing build dependencies: started
09:18:29 Installing build dependencies: finished with status 'done'
09:18:29 Getting requirements to build wheel: started
09:18:29 Getting requirements to build wheel: finished with status 'done'
09:18:29 Preparing metadata (pyproject.toml): started
09:18:29 Preparing metadata (pyproject.toml): finished with status 'done'
09:18:29 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (5.19.7.dev0)
09:18:29 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.29.1.dev0)
09:18:29 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
09:18:30 Collecting Django<4.3,>=4.2.3 (from omero-web==5.29.1.dev0)
09:18:30 Using cached Django-4.2.20-py3-none-any.whl.metadata (4.1 kB)
09:18:30 Collecting django-pipeline (from omero-web==5.29.1.dev0)
09:18:30 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
09:18:30 Collecting django-cors-headers==3.7.0 (from omero-web==5.29.1.dev0)
09:18:30 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
09:18:30 Collecting django-csp (from omero-web==5.29.1.dev0)
09:18:30 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
09:18:30 Collecting whitenoise>=5.3.0 (from omero-web==5.29.1.dev0)
09:18:30 Using cached whitenoise-6.9.0-py3-none-any.whl.metadata (3.6 kB)
09:18:30 Collecting gunicorn>=19.3 (from omero-web==5.29.1.dev0)
09:18:30 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
09:18:30 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (0.9.1.dev0)
09:18:30 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (11.1.0)
09:18:30 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (2025.1)
09:18:30 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (3.1.1)
09:18:30 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.29.1.dev0) (24.2)
09:18:30 Collecting importlib-resources (from omero-web==5.29.1.dev0)
09:18:30 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
09:18:30 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
09:18:30 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
09:18:30 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
09:18:30 Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
09:18:30 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.20)
09:18:30 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.4.4)
09:18:30 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.0.0)
09:18:30 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.4)
09:18:30 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (6.0.2)
09:18:30 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==5.29.1.dev0) (3.6.5)
09:18:30 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.32.3)
09:18:30 Requirement already satisfied: setuptools in ./.venv3/lib/python3.9/site-packages (from django-pipeline->omero-web==5.29.1.dev0) (53.0.0)
09:18:30 Collecting wheel (from django-pipeline->omero-web==5.29.1.dev0)
09:18:30 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
09:18:30 Requirement already satisfied: zipp>=3.1.0 in ./.venv3/lib/python3.9/site-packages (from importlib-resources->omero-web==5.29.1.dev0) (3.21.0)
09:18:30 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
09:18:31 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
09:18:31 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.4.1)
09:18:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.10)
09:18:31 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (2025.1.31)
09:18:31 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
09:18:31 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
09:18:31 Using cached Django-4.2.20-py3-none-any.whl (8.0 MB)
09:18:31 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
09:18:31 Using cached whitenoise-6.9.0-py3-none-any.whl (20 kB)
09:18:31 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
09:18:31 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
09:18:31 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
09:18:31 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
09:18:31 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
09:18:32 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
09:18:32 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
09:18:32 Building wheels for collected packages: omero-web
09:18:32 Building wheel for omero-web (pyproject.toml): started
09:18:33 Building wheel for omero-web (pyproject.toml): finished with status 'done'
09:18:33 Created wheel for omero-web: filename=omero_web-5.29.1.dev0-py3-none-any.whl size=2817949 sha256=44e93408cb52afbf66b09e75d0dffa14eaa246ce9b00a62b77fd50b3782b29c2
09:18:33 Stored in directory: /home/omero/.cache/pip/wheels/20/6a/be/a0eb92c362960a201e1b2f293382a92507134b48bed64ccadd
09:18:33 Successfully built omero-web
09:18:33 Installing collected packages: whitenoise, wheel, typing-extensions, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, django-pipeline, asgiref, Django, django-csp, django-cors-headers, omero-web
09:18:36 Successfully installed Django-4.2.20 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.29.1.dev0 sqlparse-0.5.3 typing-extensions-4.12.2 wheel-0.45.1 whitenoise-6.9.0
09:18:36 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:18:37 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:18:37 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:18:37 --2025-03-21 09:18:37-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:18:37 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.110.133, 185.199.108.133, ...
09:18:37 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
09:18:37 HTTP request sent, awaiting response... 200 OK
09:18:37 Length: 115659 (113K) [text/plain]
09:18:37 Saving to: ‘Figure_To_Pdf.py’
09:18:37
09:18:37 0K .......... .......... .......... .......... .......... 44% 3.32M 0s
09:18:37 50K .......... .......... .......... .......... .......... 88% 5.20M 0s
09:18:37 100K .......... .. 100% 276M=0.02s
09:18:37
09:18:37 2025-03-21 09:18:37 (4.57 MB/s) - ‘Figure_To_Pdf.py’ saved [115659/115659]
09:18:37
09:18:37 + chmod 755 Figure_To_Pdf.py
09:18:37 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
09:18:37 + omero config set omero.db.name OMERO-server
09:18:39 + omero config set omero.db.host pg
09:18:40 + omero config set omero.db.user postgres
09:18:41 + omero config set omero.data.dir /home/omero/omero-server-data
09:18:42 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
09:18:44 + omero config set omero.db.poolsize 25
09:18:45 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
09:18:46 + omero config set omero.security.trustStorePassword changeit
09:18:47 + omero config set omero.mail.config true
09:18:49 + omero config set omero.mail.from qa@openmicroscopy.org.uk
09:18:50 + omero config set omero.mail.host smtp.dundee.ac.uk
09:18:51 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
09:18:52 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
09:18:53 + omero certificates
09:18:55 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
09:18:55 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
09:18:55 + '[' false = true ']'
09:18:55 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
09:18:55 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
09:18:55 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
09:18:55 2025-03-21 09:18:55,590 [ omego.db] DEBUG dbcommand => upgrade
09:18:55 2025-03-21 09:18:55,590 [ omego.db] DEBUG dbhost => localhost
09:18:55 2025-03-21 09:18:55,590 [ omego.db] DEBUG dbname => OMERO-server
09:18:55 2025-03-21 09:18:55,590 [ omego.db] DEBUG dbpass => omero
09:18:55 2025-03-21 09:18:55,590 [ omego.db] DEBUG dbuser => omero
09:18:55 2025-03-21 09:18:55,591 [ omego.db] DEBUG rootpass => omero
09:18:55 2025-03-21 09:18:55,591 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
09:18:55 2025-03-21 09:18:55,591 [omego.extern] INFO Executing : omero version
09:18:56 OMERO.py version:
09:18:56 OMERO.server version:
09:18:56 5.6.3-548-a51b5a3b38-ice36
09:18:56 5.19.7.dev0
09:18:56 2025-03-21 09:18:56,944 [omego.extern] INFO Completed [1.354 s]
09:18:56 2025-03-21 09:18:56,945 [omego.extern] DEBUG Using omero CLI from omero
09:18:56 2025-03-21 09:18:56,945 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
09:18:56 2025-03-21 09:18:56,945 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:18:56 2025-03-21 09:18:56,945 [omego.extern] INFO Executing : omero config get --show-password
09:18:58 2025-03-21 09:18:58,182 [omego.extern] INFO Completed [1.237 s]
09:18:58 2025-03-21 09:18:58,182 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:18:58 2025-03-21 09:18:58,182 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
09:18:58 2025-03-21 09:18:58,473 [omego.extern] INFO Completed [0.290 s]
09:18:58 2025-03-21 09:18:58,473 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
09:18:58 2025-03-21 09:18:58,473 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4
09:18:58
09:18:58 2025-03-21 09:18:58,473 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:18:58 2025-03-21 09:18:58,473 [omego.extern] INFO Executing : omero config get --show-password
09:18:59 2025-03-21 09:18:59,728 [omego.extern] INFO Completed [1.255 s]
09:18:59 2025-03-21 09:18:59,729 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:18:59 2025-03-21 09:18:59,729 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
09:19:00 2025-03-21 09:19:00,038 [omego.extern] INFO Completed [0.309 s]
09:19:00 2025-03-21 09:19:00,038 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.5") at port "5432".\n'
09:19:00 2025-03-21 09:19:00,038 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
09:19:00 2025-03-21 09:19:00,038 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:19:00 2025-03-21 09:19:00,038 [omego.extern] INFO Executing : omero config get --show-password
09:19:01 2025-03-21 09:19:01,318 [omego.extern] INFO Completed [1.280 s]
09:19:01 2025-03-21 09:19:01,319 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:19:01 2025-03-21 09:19:01,319 [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
09:19:02 2025-03-21 09:19:02,161 [omego.extern] INFO Completed [0.842 s]
09:19:02 2025-03-21 09:19:02,161 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
09:19:02 2025-03-21 09:19:02,161 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
09:19:02 2025-03-21 09:19:02,163 [ omego.db] INFO Database is already at OMERO5.4__0
09:19:02 + export LANG=en_US.UTF-8
09:19:02 + LANG=en_US.UTF-8
09:19:02 + export LANGUAGE=en_US:en
09:19:02 + LANGUAGE=en_US:en
09:19:02 + export LC_ALL=en_US.UTF-8
09:19:02 + LC_ALL=en_US.UTF-8
09:19:02 + BUILD_ID=DONT_KILL_ME
09:19:02 + omero admin start
09:19:13 WARNING: lock files in /home/omero/omero-server-data
09:19:13 ----------------------------------------
09:19:13 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
09:19:13 ----------------------------------------
09:19:13
09:19:13 You may want to stop all server processes and remove
09:19:13 these files manually. Lock files can remain after an
09:19:13 abrupt server outage and are especially frequent on
09:19:13 remotely mounted filesystems like NFS.
09:19:13
09:19:13 No descriptor given. Using etc/grid/default.xml
09:19:27 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
09:19:27 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
09:19:27 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
09:19:27 Waiting on startup. Use CTRL-C to exit
09:19:27 + omero admin waitup
09:19:28 Waiting on startup. Use CTRL-C to exit
09:19:28 + omero admin diagnostics
09:19:30
09:19:30 ================================================================================
09:19:30 OMERO Diagnostics (admin)
09:19:30 ================================================================================
09:19:30
09:19:30 Commands: java -version 11.0.24 (/usr/bin/java)
09:19:30 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
09:19:30 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
09:19:30 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
09:19:30 Commands: psql --version 16.4 (/usr/bin/psql)
09:19:30 Commands: openssl version 3.0.71 (/usr/bin/openssl)
09:19:30
09:19:30 Component: OMERO.py 5.19.7.dev0
09:19:30 Component: OMERO.server 5.6.3-548-a51b5a3b38-ice36
09:19:30
09:19:30 Server: icegridnode running
09:19:30 Server: Blitz-0 active (pid = 2578, enabled)
09:19:30 Server: Indexer-0 active (pid = 2599, enabled)
09:19:30 Server: OMERO.Glacier2 active (pid = 2602, enabled)
09:19:30 Server: OMERO.IceStorm active (pid = 2632, enabled)
09:19:30 Server: Processor-0 activating (enabled)
09:19:30 Server: Tables-0 activating (enabled)
09:19:30
09:19:30 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
09:19:30 Log files: Blitz-0.log 16.6 KB errors=0 warnings=1
09:19:30 Log files: DropBox.log n/a
09:19:30 Log files: FileServer.log n/a
09:19:30 Log files: Indexer-0.log 2.4 KB
09:19:30 Log files: MonitorServer.log n/a
09:19:30 Log files: Processor-0.log 592 B
09:19:30 Log files: Tables-0.log 841 B
09:19:30 Log files: TestDropBox.log n/a
09:19:30 Log files: master.err 25.6 KB
09:19:30 Log files: master.out 30.5 KB
09:19:30 Log files: Total size 0.08 MB
09:19:30
09:19:30
09:19:30 Environment:OMERO_HOME=(unset)
09:19:30 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:19:30 Environment:OMERO_NODE=(unset)
09:19:30 Environment:OMERO_MASTER=(unset)
09:19:30 Environment:OMERO_USERDIR=(unset)
09:19:30 Environment:OMERO_TMPDIR=(unset)
09:19:30 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
09:19:30 Environment:PYTHONPATH=(unset)
09:19:30 Environment:ICE_HOME=/opt/ice-3.6.5
09:19:30 Environment:LD_LIBRARY_PATH=(unset)
09:19:30 Environment:DYLD_LIBRARY_PATH=(unset)
09:19:30
09:19:30 OMERO SSL port:4064
09:19:30 OMERO TCP port:4063
09:19:30 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
09:19:30 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
09:19:30
09:19:30 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:19:30 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:19:30 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:19:30 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
09:19:30
09:19:30 Jar: lib/server/formats-api.jar Bio-Formats API 8.2.0-SNAPSHOT 21 March 2025 3fa520d1ad7f6e57ffbe02b026ea30be27c06ef1
09:19:30 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.2.0-SNAPSHOT 21 March 2025 3fa520d1ad7f6e57ffbe02b026ea30be27c06ef1
09:19:30 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.2.0-SNAPSHOT 21 March 2025 3fa520d1ad7f6e57ffbe02b026ea30be27c06ef1
09:19:30 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 21 March 2025 4f2b076b91e5f639fc25b1b1768c820c0cfb50cd
09:19:30 Jar: lib/server/ome-common.jar OME Common Java 6.0.26-SNAPSHOT 21 March 2025 4f2b076b91e5f639fc25b1b1768c820c0cfb50cd
09:19:30 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 21 March 2025 4f2b076b91e5f639fc25b1b1768c820c0cfb50cd
09:19:30 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 21 March 2025 4f2b076b91e5f639fc25b1b1768c820c0cfb50cd
09:19:30 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 21 March 2025 4f2b076b91e5f639fc25b1b1768c820c0cfb50cd
09:19:30 Jar: lib/server/ome-xml.jar OME XML library 6.5.0-SNAPSHOT 21 March 2025 4f2b076b91e5f639fc25b1b1768c820c0cfb50cd
09:19:30 Jar: lib/server/omero-blitz.jar jar 5.8.2-SNAPSHOT
09:19:30 Jar: lib/server/omero-common.jar jar 5.7.2-SNAPSHOT
09:19:30 Jar: lib/server/omero-gateway.jar jar 5.10.2-SNAPSHOT
09:19:30 Jar: lib/server/omero-model.jar jar 5.7.2-SNAPSHOT
09:19:30 Jar: lib/server/omero-renderer.jar jar 5.6.2-SNAPSHOT
09:19:30 Jar: lib/server/omero-romio.jar jar 5.8.2-SNAPSHOT
09:19:30 Jar: lib/server/omero-server.jar jar 5.7.2-SNAPSHOT
09:19:30 + deactivate
09:19:30 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:19:30 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:19:30 + export PATH
09:19:30 + unset _OLD_VIRTUAL_PATH
09:19:30 + '[' -n '' ']'
09:19:30 + '[' -n /bin/bash -o -n '' ']'
09:19:30 + hash -r
09:19:30 + '[' -n '' ']'
09:19:30 + unset VIRTUAL_ENV
09:19:30 + '[' '!' '' = nondestructive ']'
09:19:30 + unset -f deactivate
09:19:31 Finished: SUCCESS
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