00:58:24 Started by upstream project "Trigger" build number 463
00:58:24 originally caused by:
00:58:24 Started by timer
00:58:24 Running as SYSTEM
00:58:24 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:58:25 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14796180730334833022.sh
00:58:25 + source /home/settings.env
00:58:25 ++ OMERO_DB_HOST=pg
00:58:25 ++ OMERO_DB_USER=postgres
00:58:25 ++ OMERO_DB_PASS=
00:58:25 ++ OMERO_ROOT_PASS=omero
00:58:25 ++ OMERO_DATA_DIR=/OMERO
00:58:25 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:58:25 + OMERO_DB_NAME=OMERO-server
00:58:25 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:58:25 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:58:25 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:58:25 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:58:25 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:58:25 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:58:25 ++ deactivate nondestructive
00:58:25 ++ '[' -n '' ']'
00:58:25 ++ '[' -n '' ']'
00:58:25 ++ hash -r
00:58:25 ++ '[' -n '' ']'
00:58:25 ++ unset VIRTUAL_ENV
00:58:25 ++ unset VIRTUAL_ENV_PROMPT
00:58:25 ++ '[' '!' nondestructive = nondestructive ']'
00:58:25 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:58:25 ++ export VIRTUAL_ENV
00:58:25 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:58:25 ++ 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
00:58:25 ++ export PATH
00:58:25 ++ '[' -n '' ']'
00:58:25 ++ '[' -z '' ']'
00:58:25 ++ _OLD_VIRTUAL_PS1=
00:58:25 ++ PS1='(.venv3) '
00:58:25 ++ export PS1
00:58:25 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:58:25 ++ export VIRTUAL_ENV_PROMPT
00:58:25 ++ hash -r
00:58:25 + omero admin stop
00:59:19 Server not running
00:59:19 + echo not running
00:59:19 not running
00:59:19 + sleep 5
00:59:24 + deactivate
00:59:24 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:59:24 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:59:24 + export PATH
00:59:24 + unset _OLD_VIRTUAL_PATH
00:59:24 + '[' -n '' ']'
00:59:24 + hash -r
00:59:24 + '[' -n '' ']'
00:59:24 + unset VIRTUAL_ENV
00:59:24 + unset VIRTUAL_ENV_PROMPT
00:59:24 + '[' '!' '' = nondestructive ']'
00:59:24 + unset -f deactivate
00:59:24 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:59:25 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
00:59:35 + '[' false = true ']'
00:59:35 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:59:35 Skipping PURGE_DATA:CleanDbAndRepo
00:59:35 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.3-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-5.20.1.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
00:59:37 Copied 1 artifact from "OMERO-build" build number 403
00:59:37 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 395
00:59:37 Copied 2 artifacts from "OMERO-build-build" build number 420
00:59:37 [OMERO-server] $ /bin/bash -xe /tmp/jenkins16683344305421400618.sh
00:59:37 + source /home/settings.env
00:59:37 ++ OMERO_DB_HOST=pg
00:59:37 ++ OMERO_DB_USER=postgres
00:59:37 ++ OMERO_DB_PASS=
00:59:37 ++ OMERO_ROOT_PASS=omero
00:59:37 ++ OMERO_DATA_DIR=/OMERO
00:59:37 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:59:37 + OMERO_DB_NAME=OMERO-server
00:59:37 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:59:37 + mkdir -p /home/omero/omero-server-data
00:59:38 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:59:38 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:59:38 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:59:38 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:59:38 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:59:38 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:59:38 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:59:38 ++ ls OMERO.server-5.6.3-552-09a99dcf82-ice36-b403.zip
00:59:38 + ZIP=OMERO.server-5.6.3-552-09a99dcf82-ice36-b403.zip
00:59:38 + '[' '!' -z '' ']'
00:59:38 + DIST=OMERO.server-5.6.3-552-09a99dcf82-ice36-b403
00:59:38 + unzip OMERO.server-5.6.3-552-09a99dcf82-ice36-b403.zip
00:59:38 Archive: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403.zip
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/blitz/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/grid/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/profiles/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/error/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/grid/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/luts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/luts/janelia/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/luts/matplotlib/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/luts/ncsa_paledit/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/luts/seaborn/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/luts/wcif/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/analysis_scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/annotation_scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/export_scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/figure_scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/import_scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/scripts/omero/util_scripts/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/server/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/share/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/share/licenses/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/misc/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__1/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__10/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__11/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__2/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__3/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__4/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__5/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__6/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__7/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__8/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3A__9/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3__4/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3__5/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3__6/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO3__7/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO4.1__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO4.2__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO4.2__0/t/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO4.3__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO4.4__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO4__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.0__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.1__1/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.2__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4DEV__1/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4DEV__2/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4DEV__3/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/
00:59:38 creating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/var/
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/LICENSE.txt
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/backup.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/blitz/mail-senders.example
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/blitz/mail-server.example
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/build.properties
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/env.bat
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/env.sh
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/hibernate.properties
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/ice.config
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/logback-cli.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/logback-indexing-cli.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/logback-indexing.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/logback.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/mime.types
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/node1.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/node2.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/omero.properties
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/profiles/psql
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/rollover.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/Windows.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/error/maintainance.html
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/grid/README
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/grid/default.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/grid/templates.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/grid/windefault.xml
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/ice.config
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/internal.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/master.cfg
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/templates/robot.template
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/etc/testdropbox.config
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/history.rst
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/OMEZarrReader.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/activation.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/aggdesigner-algorithm.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/aircompressor.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/annotations.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/antlr.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/aopalliance.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/avatica-core.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/avatica-metrics.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/aws-java-sdk-core.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/aws-java-sdk-kms.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/aws-java-sdk-s3.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/base.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-all.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-anim.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-awt-util.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-bridge.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-codec.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-constants.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-css.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-dom.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-ext.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-extension.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-gui-util.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-gvt.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-i18n.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-parser.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-rasterizer-ext.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-rasterizer.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-script.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-slideshow.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-squiggle-ext.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-squiggle.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-svg-dom.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-svgbrowser.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-svggen.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-svgpp.jar
00:59:38 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/lib/client/batik-svgrasterizer.jar
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00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/psql-footer.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/psql-header.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/schema.sql
00:59:40 inflating: OMERO.server-5.6.3-552-09a99dcf82-ice36-b403/sql/psql/OMERO5.4__0/views.sql
00:59:40 + rm -f OMERO.server-5.6.3-552-09a99dcf82-ice36-b403.zip
00:59:40 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-552-09a99dcf82-ice36-b403 /home/omero/workspace/OMERO-server/OMERO.server
00:59:40 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:59:40 ++ deactivate nondestructive
00:59:40 ++ '[' -n '' ']'
00:59:40 ++ '[' -n '' ']'
00:59:40 ++ hash -r
00:59:40 ++ '[' -n '' ']'
00:59:40 ++ unset VIRTUAL_ENV
00:59:40 ++ unset VIRTUAL_ENV_PROMPT
00:59:40 ++ '[' '!' nondestructive = nondestructive ']'
00:59:40 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:59:40 ++ export VIRTUAL_ENV
00:59:40 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:59:40 ++ 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
00:59:40 ++ export PATH
00:59:40 ++ '[' -n '' ']'
00:59:40 ++ '[' -z '' ']'
00:59:40 ++ _OLD_VIRTUAL_PS1=
00:59:40 ++ PS1='(.venv3) '
00:59:40 ++ export PS1
00:59:40 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:59:40 ++ export VIRTUAL_ENV_PROMPT
00:59:40 ++ hash -r
00:59:40 + pip install -U pip
00:59:41 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
00:59:41 Collecting pip
00:59:41 Using cached pip-25.1.1-py3-none-any.whl (1.8 MB)
00:59:41 Installing collected packages: pip
00:59:41 Attempting uninstall: pip
00:59:41 Found existing installation: pip 22.3.1
00:59:42 Uninstalling pip-22.3.1:
00:59:42 Successfully uninstalled pip-22.3.1
00:59:43 Successfully installed pip-25.1.1
00:59:43 WARNING: There was an error checking the latest version of pip.
00:59:43 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
00:59:44 Collecting zeroc-ice==3.6.5
00:59:44 Downloading https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
00:59:47 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 15.1 MB/s eta 0:00:00
00:59:47 Installing collected packages: zeroc-ice
00:59:48 Successfully installed zeroc-ice-3.6.5
00:59:48 + pip install markdown
00:59:48 Collecting markdown
00:59:48 Using cached markdown-3.8-py3-none-any.whl.metadata (5.1 kB)
00:59:48 Using cached markdown-3.8-py3-none-any.whl (106 kB)
00:59:48 Installing collected packages: markdown
00:59:48 Successfully installed markdown-3.8
00:59:48 + pip install reportlab
00:59:49 Collecting reportlab
00:59:49 Using cached reportlab-4.4.0-py3-none-any.whl.metadata (1.8 kB)
00:59:49 Collecting pillow>=9.0.0 (from reportlab)
00:59:49 Using cached pillow-11.2.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (8.9 kB)
00:59:49 Collecting chardet (from reportlab)
00:59:49 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:59:49 Using cached reportlab-4.4.0-py3-none-any.whl (2.0 MB)
00:59:49 Using cached pillow-11.2.1-cp311-cp311-manylinux_2_28_x86_64.whl (4.6 MB)
00:59:50 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:59:50 Installing collected packages: pillow, chardet, reportlab
00:59:51
00:59:51 Successfully installed chardet-5.2.0 pillow-11.2.1 reportlab-4.4.0
00:59:51 + pip install omego
00:59:52 Collecting omego
00:59:52 Using cached omego-0.7.0-py3-none-any.whl
00:59:52 Collecting future (from omego)
00:59:52 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
00:59:53 Collecting yaclifw>=0.1.1 (from omego)
00:59:53 Using cached yaclifw-0.2.0-py3-none-any.whl
00:59:53 Collecting six (from yaclifw>=0.1.1->omego)
00:59:53 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:59:53 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:59:53 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:59:53 Installing collected packages: six, future, yaclifw, omego
00:59:54
00:59:54 Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:59:54 + pip install tables
00:59:54 Collecting tables
00:59:54 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB)
00:59:55 Collecting numpy>=1.20.0 (from tables)
00:59:55 Using cached numpy-2.2.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
00:59:55 Collecting numexpr>=2.6.2 (from tables)
00:59:55 Using cached numexpr-2.10.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:59:55 Collecting packaging (from tables)
00:59:55 Using cached packaging-25.0-py3-none-any.whl.metadata (3.3 kB)
00:59:55 Collecting py-cpuinfo (from tables)
00:59:55 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:59:55 Collecting blosc2>=2.3.0 (from tables)
00:59:55 Using cached blosc2-3.3.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.9 kB)
00:59:55 Collecting typing-extensions>=4.4.0 (from tables)
00:59:55 Using cached typing_extensions-4.13.2-py3-none-any.whl.metadata (3.0 kB)
00:59:56 Collecting ndindex (from blosc2>=2.3.0->tables)
00:59:56 Using cached ndindex-1.9.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
00:59:56 Collecting msgpack (from blosc2>=2.3.0->tables)
00:59:56 Using cached msgpack-1.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:59:56 Collecting platformdirs (from blosc2>=2.3.0->tables)
00:59:56 Using cached platformdirs-4.3.7-py3-none-any.whl.metadata (11 kB)
00:59:56 Collecting requests (from blosc2>=2.3.0->tables)
00:59:56 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:59:56 Collecting charset-normalizer<4,>=2 (from requests->blosc2>=2.3.0->tables)
00:59:56 Using cached charset_normalizer-3.4.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
00:59:56 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
00:59:56 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:59:56 Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables)
00:59:56 Using cached urllib3-2.4.0-py3-none-any.whl.metadata (6.5 kB)
00:59:57 Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables)
00:59:57 Using cached certifi-2025.4.26-py3-none-any.whl.metadata (2.5 kB)
00:59:57 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:59:57 Using cached blosc2-3.3.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:59:57 Using cached numexpr-2.10.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (398 kB)
00:59:57 Using cached numpy-2.2.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.4 MB)
00:59:58 Using cached typing_extensions-4.13.2-py3-none-any.whl (45 kB)
00:59:58 Using cached msgpack-1.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (403 kB)
00:59:58 Using cached ndindex-1.9.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (506 kB)
00:59:58 Using cached packaging-25.0-py3-none-any.whl (66 kB)
00:59:58 Using cached platformdirs-4.3.7-py3-none-any.whl (18 kB)
00:59:58 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:59:58 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:59:58 Using cached charset_normalizer-3.4.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (147 kB)
00:59:58 Using cached idna-3.10-py3-none-any.whl (70 kB)
00:59:58 Using cached urllib3-2.4.0-py3-none-any.whl (128 kB)
00:59:58 Using cached certifi-2025.4.26-py3-none-any.whl (159 kB)
00:59:58 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, charset-normalizer, certifi, requests, numexpr, blosc2, tables
01:00:02
01:00:02 Successfully installed blosc2-3.3.2 certifi-2025.4.26 charset-normalizer-3.4.2 idna-3.10 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.2.5 packaging-25.0 platformdirs-4.3.7 py-cpuinfo-9.0.0 requests-2.32.3 tables-3.10.2 typing-extensions-4.13.2 urllib3-2.4.0
01:00:02 + pip install jinja2
01:00:03 Collecting jinja2
01:00:03 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
01:00:03 Collecting MarkupSafe>=2.0 (from jinja2)
01:00:03 Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
01:00:03 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
01:00:04 Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (23 kB)
01:00:04 Installing collected packages: MarkupSafe, jinja2
01:00:04
01:00:04 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.6
01:00:04 + pip install omero-py
01:00:04 Collecting omero-py
01:00:04 Using cached omero_py-5.20.0-py3-none-any.whl.metadata (6.5 kB)
01:00:04 Collecting urllib3<2 (from omero-py)
01:00:04 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
01:00:04 Collecting appdirs (from omero-py)
01:00:04 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
01:00:04 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
01:00:04 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.2.5)
01:00:04 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (11.2.1)
01:00:05 Collecting PyYAML (from omero-py)
01:00:05 Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
01:00:05 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
01:00:05 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.3)
01:00:05 Collecting portalocker (from omero-py)
01:00:05 Using cached portalocker-3.1.1-py3-none-any.whl.metadata (8.6 kB)
01:00:05 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.2)
01:00:05 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.10)
01:00:05 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2025.4.26)
01:00:05 Using cached omero_py-5.20.0-py3-none-any.whl (2.8 MB)
01:00:05 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
01:00:05 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
01:00:05 Using cached portalocker-3.1.1-py3-none-any.whl (19 kB)
01:00:05 Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (762 kB)
01:00:05 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, omero-py
01:00:05 Attempting uninstall: urllib3
01:00:05 Found existing installation: urllib3 2.4.0
01:00:05 Uninstalling urllib3-2.4.0:
01:00:05 Successfully uninstalled urllib3-2.4.0
01:00:07
01:00:07 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 omero-py-5.20.0 portalocker-3.1.1 urllib3-1.26.20
01:00:08 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
01:00:08 Collecting omero-metadata
01:00:08 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-3zmdclz1/omero-metadata_df3200f70f8a42deadaa0f6da784330f
01:00:08 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-3zmdclz1/omero-metadata_df3200f70f8a42deadaa0f6da784330f
01:00:09 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit ffe114662327b1236acd2769d4c020fabf7fb020
01:00:09 Installing build dependencies: started
01:00:11 Installing build dependencies: finished with status 'done'
01:00:11 Getting requirements to build wheel: started
01:00:11 Getting requirements to build wheel: finished with status 'done'
01:00:11 Preparing metadata (pyproject.toml): started
01:00:11 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:11 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.20.0)
01:00:11 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.2)
01:00:11 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
01:00:12 Collecting pandas (from omero-metadata)
01:00:12 Using cached pandas-2.2.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
01:00:12 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
01:00:12 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
01:00:12 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
01:00:12 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.2.5)
01:00:12 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (11.2.1)
01:00:12 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
01:00:12 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
01:00:12 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.1.1)
01:00:12 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.2)
01:00:12 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
01:00:12 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
01:00:12 Collecting pytz>=2020.1 (from pandas->omero-metadata)
01:00:12 Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
01:00:12 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
01:00:12 Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
01:00:12 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
01:00:12 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.2)
01:00:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
01:00:12 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.4.26)
01:00:12 Using cached pandas-2.2.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
01:00:12 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
01:00:12 Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
01:00:12 Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
01:00:13 Building wheels for collected packages: omero-metadata
01:00:13 Building wheel for omero-metadata (pyproject.toml): started
01:00:13 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
01:00:13 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39279 sha256=a7c1957a808810a32ebe09766863863393e670f849fb983247c333d47bf4c808
01:00:13 Stored in directory: /tmp/pip-ephem-wheel-cache-vgywdoal/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
01:00:13 Successfully built omero-metadata
01:00:13 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
01:00:19
01:00:19 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2025.2 tzdata-2025.2
01:00:19 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
01:00:19 Collecting omero-cli-render
01:00:19 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-z3zofimh/omero-cli-render_ab71e122917949f7abb9a0c902722969
01:00:19 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-z3zofimh/omero-cli-render_ab71e122917949f7abb9a0c902722969
01:00:21 Running command git checkout -b merge_ci --track origin/merge_ci
01:00:21 Switched to a new branch 'merge_ci'
01:00:21 branch 'merge_ci' set up to track 'origin/merge_ci'.
01:00:21 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 11c52d4f72a907da35bdb1c2bb31129f6ff71b93
01:00:21 Installing build dependencies: started
01:00:22 Installing build dependencies: finished with status 'done'
01:00:22 Getting requirements to build wheel: started
01:00:22 Getting requirements to build wheel: finished with status 'done'
01:00:22 Preparing metadata (pyproject.toml): started
01:00:22 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:22 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.2)
01:00:22 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.20.0)
01:00:22 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
01:00:22 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
01:00:22 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
01:00:22 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.2.5)
01:00:22 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.2.1)
01:00:22 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
01:00:22 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
01:00:22 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.1.1)
01:00:23 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.2)
01:00:23 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
01:00:23 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.4.26)
01:00:23 Building wheels for collected packages: omero-cli-render
01:00:23 Building wheel for omero-cli-render (pyproject.toml): started
01:00:23 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
01:00:23 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19694 sha256=d52525350e5b62d197d1d8685d3469ec06ae5edee1c1e840b07e15533be10ed5
01:00:23 Stored in directory: /tmp/pip-ephem-wheel-cache-guf5ysq6/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
01:00:23 Successfully built omero-cli-render
01:00:23 Installing collected packages: omero-cli-render
01:00:23 Successfully installed omero-cli-render-0.8.2.dev0
01:00:23 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
01:00:23 Collecting omero-cli-duplicate
01:00:23 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-lkvyqyvo/omero-cli-duplicate_6bd6bffe2ec84d5fa6bb3b71f5abe103
01:00:23 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-lkvyqyvo/omero-cli-duplicate_6bd6bffe2ec84d5fa6bb3b71f5abe103
01:00:24 Running command git checkout -b merge_ci --track origin/merge_ci
01:00:24 Switched to a new branch 'merge_ci'
01:00:24 branch 'merge_ci' set up to track 'origin/merge_ci'.
01:00:24 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit b97faba3e0852fd8c7c53ad97a23afae6016f544
01:00:24 Installing build dependencies: started
01:00:25 Installing build dependencies: finished with status 'done'
01:00:25 Getting requirements to build wheel: started
01:00:26 Getting requirements to build wheel: finished with status 'done'
01:00:26 Preparing metadata (pyproject.toml): started
01:00:26 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:26 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.20.0)
01:00:26 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
01:00:26 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
01:00:26 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
01:00:26 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.2.5)
01:00:26 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.2.1)
01:00:26 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
01:00:26 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
01:00:26 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
01:00:26 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.1.1)
01:00:26 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.2)
01:00:26 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
01:00:26 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.4.26)
01:00:26 Building wheels for collected packages: omero-cli-duplicate
01:00:26 Building wheel for omero-cli-duplicate (pyproject.toml): started
01:00:26 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
01:00:26 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11538 sha256=f317dbd83c40e57a1255052d0ef9e0369a2edbfceefa2fe72b93cac0b578d5ba
01:00:26 Stored in directory: /tmp/pip-ephem-wheel-cache-ikvj8507/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
01:00:26 Successfully built omero-cli-duplicate
01:00:26 Installing collected packages: omero-cli-duplicate
01:00:26 Successfully installed omero-cli-duplicate-0.4.1.dev0
01:00:26 + pip install omero-certificates
01:00:27 Collecting omero-certificates
01:00:27 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
01:00:27 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.20.0)
01:00:27 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
01:00:27 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
01:00:27 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
01:00:27 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.2.5)
01:00:27 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (11.2.1)
01:00:27 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
01:00:27 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
01:00:27 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
01:00:27 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.1.1)
01:00:27 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.2)
01:00:27 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
01:00:27 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.4.26)
01:00:27 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
01:00:27 Installing collected packages: omero-certificates
01:00:27 Successfully installed omero-certificates-0.4.0
01:00:27 + for x in *.tar.gz
01:00:27 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
01:00:27 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
01:00:27 Installing build dependencies: started
01:00:28 Installing build dependencies: finished with status 'done'
01:00:28 Getting requirements to build wheel: started
01:00:29 Getting requirements to build wheel: finished with status 'done'
01:00:29 Preparing metadata (pyproject.toml): started
01:00:29 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:29 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.20.0)
01:00:29 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
01:00:29 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
01:00:29 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
01:00:29 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.2.5)
01:00:29 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.2.1)
01:00:29 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
01:00:29 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
01:00:29 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
01:00:29 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.1.1)
01:00:29 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.2)
01:00:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
01:00:29 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.4.26)
01:00:29 Building wheels for collected packages: omero-dropbox
01:00:29 Building wheel for omero-dropbox (pyproject.toml): started
01:00:29 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
01:00:29 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=093e94af742367738fe0cc606419b2b4a51711595902edc6d7023689764d7db6
01:00:29 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
01:00:29 Successfully built omero-dropbox
01:00:29 Installing collected packages: omero-dropbox
01:00:29 Successfully installed omero-dropbox-5.7.1.dev0
01:00:29 + for x in *.tar.gz
01:00:29 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
01:00:30 Processing ./omero_marshal-0.9.1.dev0.tar.gz
01:00:30 Installing build dependencies: started
01:00:31 Installing build dependencies: finished with status 'done'
01:00:31 Getting requirements to build wheel: started
01:00:31 Getting requirements to build wheel: finished with status 'done'
01:00:31 Preparing metadata (pyproject.toml): started
01:00:31 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:31 Building wheels for collected packages: omero_marshal
01:00:31 Building wheel for omero_marshal (pyproject.toml): started
01:00:32 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
01:00:32 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88124 sha256=83c958010e26e3a53920762cc19e014ccc78691a1fb642b09b1ca6b43a81e02b
01:00:32 Stored in directory: /home/omero/.cache/pip/wheels/c6/fe/20/4909beb8cad01183b3ea19e12252f8ddec6c22448a9830df18
01:00:32 Successfully built omero_marshal
01:00:32 Installing collected packages: omero_marshal
01:00:32 Successfully installed omero_marshal-0.9.1.dev0
01:00:32 + for x in *.tar.gz
01:00:32 + pip install -U omero_py-5.20.1.dev0.tar.gz
01:00:32 Processing ./omero_py-5.20.1.dev0.tar.gz
01:00:33 Installing build dependencies: started
01:00:34 Installing build dependencies: finished with status 'done'
01:00:34 Getting requirements to build wheel: started
01:00:34 Getting requirements to build wheel: finished with status 'done'
01:00:34 Preparing metadata (pyproject.toml): started
01:00:34 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:34 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.26.20)
01:00:34 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.4.4)
01:00:34 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.0.0)
01:00:34 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (2.2.5)
01:00:34 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (11.2.1)
01:00:34 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (6.0.2)
01:00:34 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (3.6.5)
01:00:34 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (2.32.3)
01:00:34 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (3.1.1)
01:00:34 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (3.4.2)
01:00:34 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (3.10)
01:00:34 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (2025.4.26)
01:00:34 Building wheels for collected packages: omero-py
01:00:34 Building wheel for omero-py (pyproject.toml): started
01:00:35 Building wheel for omero-py (pyproject.toml): finished with status 'done'
01:00:35 Created wheel for omero-py: filename=omero_py-5.20.1.dev0-py3-none-any.whl size=2783232 sha256=dd6561e1fdf1f0286a1166f51f9e34de85e5204e730d3b9f170dbcbfb5ebc265
01:00:35 Stored in directory: /home/omero/.cache/pip/wheels/32/f0/8b/0c9b8cf4f8a22d20fdbdb6d870eee959c7bb16ef86f85fd19c
01:00:35 Successfully built omero-py
01:00:35 Installing collected packages: omero-py
01:00:35 Attempting uninstall: omero-py
01:00:35 Found existing installation: omero-py 5.20.0
01:00:36 Uninstalling omero-py-5.20.0:
01:00:36 Successfully uninstalled omero-py-5.20.0
01:00:38 Successfully installed omero-py-5.20.1.dev0
01:00:38 + for x in *.tar.gz
01:00:38 + pip install -U omero_scripts-5.9.1.dev0.tar.gz
01:00:38 Processing ./omero_scripts-5.9.1.dev0.tar.gz
01:00:38 Installing build dependencies: started
01:00:39 Installing build dependencies: finished with status 'done'
01:00:39 Getting requirements to build wheel: started
01:00:40 Getting requirements to build wheel: finished with status 'done'
01:00:40 Preparing metadata (pyproject.toml): started
01:00:40 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:40 Building wheels for collected packages: omero-scripts
01:00:40 Building wheel for omero-scripts (pyproject.toml): started
01:00:40 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
01:00:40 Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136847 sha256=4496c60315e4d25be601f53257b82e3c3d07b4f42e70a24097457ec7f0d20c07
01:00:40 Stored in directory: /home/omero/.cache/pip/wheels/5d/64/64/66c19773daf66dee2b16f9ebd49fde08680f277d4fff67beed
01:00:40 Successfully built omero-scripts
01:00:40 Installing collected packages: omero-scripts
01:00:41 Successfully installed omero-scripts-5.9.1.dev0
01:00:41 + for x in *.tar.gz
01:00:41 + pip install -U omero_web-5.29.1.dev0.tar.gz
01:00:41 Processing ./omero_web-5.29.1.dev0.tar.gz
01:00:41 Installing build dependencies: started
01:00:42 Installing build dependencies: finished with status 'done'
01:00:42 Getting requirements to build wheel: started
01:00:43 Getting requirements to build wheel: finished with status 'done'
01:00:43 Preparing metadata (pyproject.toml): started
01:00:43 Preparing metadata (pyproject.toml): finished with status 'done'
01:00:43 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (5.20.1.dev0)
01:00:43 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.29.1.dev0)
01:00:43 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
01:00:43 Collecting Django<4.3,>=4.2.3 (from omero-web==5.29.1.dev0)
01:00:43 Using cached Django-4.2.20-py3-none-any.whl.metadata (4.1 kB)
01:00:44 Collecting django-pipeline (from omero-web==5.29.1.dev0)
01:00:44 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
01:00:44 Collecting django-cors-headers==3.7.0 (from omero-web==5.29.1.dev0)
01:00:44 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
01:00:44 Collecting django-csp (from omero-web==5.29.1.dev0)
01:00:44 Using cached django_csp-4.0-py3-none-any.whl.metadata (3.6 kB)
01:00:44 Collecting whitenoise>=5.3.0 (from omero-web==5.29.1.dev0)
01:00:44 Using cached whitenoise-6.9.0-py3-none-any.whl.metadata (3.6 kB)
01:00:44 Collecting gunicorn>=19.3 (from omero-web==5.29.1.dev0)
01:00:44 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
01:00:44 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (0.9.1.dev0)
01:00:44 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (11.2.1)
01:00:44 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (2025.2)
01:00:44 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (3.1.1)
01:00:44 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (25.0)
01:00:44 Collecting importlib-resources (from omero-web==5.29.1.dev0)
01:00:44 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
01:00:45 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
01:00:45 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
01:00:45 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0)
01:00:45 Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
01:00:45 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.20)
01:00:45 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.4.4)
01:00:45 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.0.0)
01:00:45 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.2.5)
01:00:45 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (6.0.2)
01:00:45 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.6.5)
01:00:45 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.32.3)
01:00:45 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.29.1.dev0) (65.5.1)
01:00:45 Collecting wheel (from django-pipeline->omero-web==5.29.1.dev0)
01:00:45 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
01:00:45 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.4.2)
01:00:45 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.10)
01:00:45 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (2025.4.26)
01:00:45 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
01:00:45 Using cached Django-4.2.20-py3-none-any.whl (8.0 MB)
01:00:45 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
01:00:45 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
01:00:45 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
01:00:45 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
01:00:45 Using cached whitenoise-6.9.0-py3-none-any.whl (20 kB)
01:00:45 Using cached django_csp-4.0-py3-none-any.whl (25 kB)
01:00:45 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
01:00:45 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
01:00:45 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
01:00:45 Building wheels for collected packages: omero-web
01:00:45 Building wheel for omero-web (pyproject.toml): started
01:00:47 Building wheel for omero-web (pyproject.toml): finished with status 'done'
01:00:47 Created wheel for omero-web: filename=omero_web-5.29.1.dev0-py3-none-any.whl size=2817975 sha256=ef4eb53f9dab01141080433636b6b007e413f5680c582ba7a7ec0c156a6fc6a5
01:00:47 Stored in directory: /home/omero/.cache/pip/wheels/b6/72/73/a29488e9ae7a2242fcfdc532a2c6f9884a34cc378eb261962a
01:00:47 Successfully built omero-web
01:00:47 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-csp, django-cors-headers, omero-web
01:00:50
01:00:50 Successfully installed Django-4.2.20 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-4.0 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.29.1.dev0 sqlparse-0.5.3 wheel-0.45.1 whitenoise-6.9.0
01:00:50 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
01:00:51 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
01:00:51 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
01:00:51 --2025-05-07 01:00:51-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
01:00:51 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.111.133, 185.199.110.133, ...
01:00:51 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
01:00:51 HTTP request sent, awaiting response... 200 OK
01:00:51 Length: 122144 (119K) [text/plain]
01:00:51 Saving to: ‘Figure_To_Pdf.py’
01:00:51
01:00:51 0K .......... .......... .......... .......... .......... 41% 3.49M 0s
01:00:51 50K .......... .......... .......... .......... .......... 83% 5.07M 0s
01:00:51 100K .......... ......... 100% 26.4M=0.02s
01:00:51
01:00:51 2025-05-07 01:00:51 (4.78 MB/s) - ‘Figure_To_Pdf.py’ saved [122144/122144]
01:00:51
01:00:51 + chmod 755 Figure_To_Pdf.py
01:00:51 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
01:00:51 + omero config set omero.db.name OMERO-server
01:00:53 + omero config set omero.db.host pg
01:00:54 + omero config set omero.db.user postgres
01:00:55 + omero config set omero.data.dir /home/omero/omero-server-data
01:00:56 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
01:00:58 + omero config set omero.db.poolsize 25
01:00:59 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
01:01:00 + omero config set omero.security.trustStorePassword changeit
01:01:02 + omero config set omero.mail.config true
01:01:03 + omero config set omero.mail.from qa@openmicroscopy.org.uk
01:01:04 + omero config set omero.mail.host smtp.dundee.ac.uk
01:01:06 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
01:01:07 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
01:01:08 + omero certificates
01:01:10 OpenSSL 3.2.2 4 Jun 2024 (Library: OpenSSL 3.2.2 4 Jun 2024)
01:01:10 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
01:01:10 + '[' false = true ']'
01:01:10 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
01:01:10 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
01:01:10 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG dbcommand => upgrade
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG dbhost => localhost
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG dbname => OMERO-server
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG dbpass => omero
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG dbuser => omero
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG rootpass => omero
01:01:10 2025-05-07 01:01:10,982 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
01:01:10 2025-05-07 01:01:10,982 [omego.extern] INFO Executing : omero version
01:01:12 OMERO.py version:
01:01:12 OMERO.server version:
01:01:12 5.6.3-552-09a99dcf82-ice36-b403
01:01:12 5.20.1.dev0
01:01:12 2025-05-07 01:01:12,381 [omego.extern] INFO Completed [1.399 s]
01:01:12 2025-05-07 01:01:12,381 [omego.extern] DEBUG Using omero CLI from omero
01:01:12 2025-05-07 01:01:12,381 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
01:01:12 2025-05-07 01:01:12,382 [omego.extern] INFO Running [current environment]: omero config get --show-password
01:01:12 2025-05-07 01:01:12,382 [omego.extern] INFO Executing : omero config get --show-password
01:01:13 2025-05-07 01:01:13,819 [omego.extern] INFO Completed [1.438 s]
01:01:13 2025-05-07 01:01:13,819 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
01:01:13 2025-05-07 01:01:13,819 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
01:01:14 2025-05-07 01:01:14,217 [omego.extern] INFO Completed [0.397 s]
01:01:14 2025-05-07 01:01:14,217 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.8\n'
01:01:14 2025-05-07 01:01:14,217 [ omego.db] INFO psql version: psql (PostgreSQL) 16.8
01:01:14
01:01:14 2025-05-07 01:01:14,217 [omego.extern] INFO Running [current environment]: omero config get --show-password
01:01:14 2025-05-07 01:01:14,217 [omego.extern] INFO Executing : omero config get --show-password
01:01:15 2025-05-07 01:01:15,669 [omego.extern] INFO Completed [1.452 s]
01:01:15 2025-05-07 01:01:15,670 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
01:01:15 2025-05-07 01:01:15,670 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
01:01:16 2025-05-07 01:01:16,963 [omego.extern] INFO Completed [1.293 s]
01:01:16 2025-05-07 01:01:16,963 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.8") at port "5432".\n'
01:01:16 2025-05-07 01:01:16,963 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
01:01:16 2025-05-07 01:01:16,963 [omego.extern] INFO Running [current environment]: omero config get --show-password
01:01:16 2025-05-07 01:01:16,963 [omego.extern] INFO Executing : omero config get --show-password
01:01:18 2025-05-07 01:01:18,433 [omego.extern] INFO Completed [1.470 s]
01:01:18 2025-05-07 01:01:18,433 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
01:01:18 2025-05-07 01:01:18,433 [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
01:01:19 2025-05-07 01:01:19,165 [omego.extern] INFO Completed [0.731 s]
01:01:19 2025-05-07 01:01:19,165 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
01:01:19 2025-05-07 01:01:19,165 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
01:01:19 2025-05-07 01:01:19,167 [ omego.db] INFO Database is already at OMERO5.4__0
01:01:19 + export LANG=en_US.UTF-8
01:01:19 + LANG=en_US.UTF-8
01:01:19 + export LANGUAGE=en_US:en
01:01:19 + LANGUAGE=en_US:en
01:01:19 + export LC_ALL=en_US.UTF-8
01:01:19 + LC_ALL=en_US.UTF-8
01:01:19 + BUILD_ID=DONT_KILL_ME
01:01:19 + omero admin start
01:01:25 No descriptor given. Using etc/grid/default.xml
01:01:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
01:01:39 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
01:01:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
01:01:39 Waiting on startup. Use CTRL-C to exit
01:01:40 + omero admin waitup
01:01:41 Waiting on startup. Use CTRL-C to exit
01:01:41 + omero admin diagnostics
01:01:44
01:01:44 ================================================================================
01:01:44 OMERO Diagnostics (admin)
01:01:44 ================================================================================
01:01:44
01:01:44 Commands: java -version 11.0.25 (/usr/bin/java)
01:01:44 Commands: python -V 3.11.9 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
01:01:44 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
01:01:44 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
01:01:44 Commands: psql --version 16.8 (/usr/bin/psql)
01:01:44 Commands: openssl version 3.2.24 (/usr/bin/openssl)
01:01:44
01:01:44 Component: OMERO.py 5.20.1.dev0
01:01:44 Component: OMERO.server 5.6.3-552-09a99dcf82-ice36-b403
01:01:44
01:01:44 Server: icegridnode running
01:01:44 Server: Blitz-0 active (pid = 2322, enabled)
01:01:44 Server: Indexer-0 active (pid = 2343, enabled)
01:01:44 Server: OMERO.Glacier2 active (pid = 2348, enabled)
01:01:44 Server: OMERO.IceStorm active (pid = 2379, enabled)
01:01:44 Server: Processor-0 activating (enabled)
01:01:44 Server: Tables-0 activating (enabled)
01:01:44
01:01:44 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
01:01:44 Log files: Blitz-0.log 23.5 KB errors=0 warnings=1
01:01:44 Log files: DropBox.log n/a
01:01:44 Log files: FileServer.log n/a
01:01:44 Log files: Indexer-0.log 2.4 KB
01:01:44 Log files: MonitorServer.log n/a
01:01:44 Log files: Processor-0.log 592 B
01:01:44 Log files: Tables-0.log 841 B
01:01:44 Log files: TestDropBox.log n/a
01:01:44 Log files: master.err 25.5 KB
01:01:44 Log files: master.out 30.5 KB
01:01:44 Log files: Total size 0.08 MB
01:01:44
01:01:44
01:01:44 Environment:OMERO_HOME=(unset)
01:01:44 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:01:44 Environment:OMERO_NODE=(unset)
01:01:44 Environment:OMERO_MASTER=(unset)
01:01:44 Environment:OMERO_USERDIR=(unset)
01:01:44 Environment:OMERO_TMPDIR=(unset)
01:01:44 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
01:01:44 Environment:PYTHONPATH=(unset)
01:01:44 Environment:ICE_HOME=/opt/ice-3.6.5
01:01:44 Environment:LD_LIBRARY_PATH=(unset)
01:01:44 Environment:DYLD_LIBRARY_PATH=(unset)
01:01:44
01:01:44 OMERO SSL port:4064
01:01:44 OMERO TCP port:4063
01:01:44 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
01:01:44 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
01:01:44
01:01:44 JVM settings: Blitz-${index} -Xmx7200m
01:01:44 JVM settings: Indexer-${index} -Xmx4800m
01:01:44 JVM settings: PixelData-${index} -Xmx7200m
01:01:44 JVM settings: Repository-${index} -Xmx4800m
01:01:44
01:01:44 Jar: lib/server/formats-api.jar Bio-Formats API 8.2.0-SNAPSHOT 7 May 2025 2af8f90f3003cee478d58c70d535043c0b63a41c
01:01:44 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.2.0-SNAPSHOT 7 May 2025 2af8f90f3003cee478d58c70d535043c0b63a41c
01:01:44 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.2.0-SNAPSHOT 7 May 2025 2af8f90f3003cee478d58c70d535043c0b63a41c
01:01:44 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 7 May 2025 ae2fb1df8330e4fc1d9bbbe0b9d84cc78d4d528b
01:01:44 Jar: lib/server/ome-common.jar OME Common Java 6.0.26-SNAPSHOT 7 May 2025 ae2fb1df8330e4fc1d9bbbe0b9d84cc78d4d528b
01:01:44 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 7 May 2025 ae2fb1df8330e4fc1d9bbbe0b9d84cc78d4d528b
01:01:44 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 7 May 2025 ae2fb1df8330e4fc1d9bbbe0b9d84cc78d4d528b
01:01:44 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 7 May 2025 ae2fb1df8330e4fc1d9bbbe0b9d84cc78d4d528b
01:01:44 Jar: lib/server/ome-xml.jar OME XML library 6.5.0-SNAPSHOT 7 May 2025 ae2fb1df8330e4fc1d9bbbe0b9d84cc78d4d528b
01:01:44 Jar: lib/server/omero-blitz.jar jar 5.8.3-SNAPSHOT
01:01:44 Jar: lib/server/omero-common.jar jar 5.7.3-SNAPSHOT
01:01:44 Jar: lib/server/omero-gateway.jar jar 5.10.3-SNAPSHOT
01:01:44 Jar: lib/server/omero-model.jar jar 5.7.3-SNAPSHOT
01:01:44 Jar: lib/server/omero-renderer.jar jar 5.6.3-SNAPSHOT
01:01:44 Jar: lib/server/omero-romio.jar jar 5.8.3-SNAPSHOT
01:01:44 Jar: lib/server/omero-server.jar jar 5.7.3-SNAPSHOT
01:01:44 + deactivate
01:01:44 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
01:01:44 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:01:44 + export PATH
01:01:44 + unset _OLD_VIRTUAL_PATH
01:01:44 + '[' -n '' ']'
01:01:44 + hash -r
01:01:44 + '[' -n '' ']'
01:01:44 + unset VIRTUAL_ENV
01:01:44 + unset VIRTUAL_ENV_PROMPT
01:01:44 + '[' '!' '' = nondestructive ']'
01:01:44 + unset -f deactivate
01:01:45 Finished: SUCCESS
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