00:49:04 Started by upstream project "Trigger" build number 15
00:49:04 originally caused by:
00:49:04 Started by timer
00:49:04 Running as SYSTEM
00:49:04 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:49:04 [OMERO-server] $ /bin/bash -xe /tmp/jenkins9386966055347358610.sh
00:49:04 + source /home/settings.env
00:49:04 ++ OMERO_DB_HOST=pg
00:49:04 ++ OMERO_DB_USER=postgres
00:49:04 ++ OMERO_DB_PASS=
00:49:04 ++ OMERO_ROOT_PASS=omero
00:49:04 ++ OMERO_DATA_DIR=/OMERO
00:49:04 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:49:04 + OMERO_DB_NAME=OMERO-server
00:49:04 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:49:04 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:04 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:04 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:49:04 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:49:04 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:49:04 ++ deactivate nondestructive
00:49:04 ++ '[' -n '' ']'
00:49:04 ++ '[' -n '' ']'
00:49:04 ++ '[' -n /bin/bash -o -n '' ']'
00:49:04 ++ hash -r
00:49:04 ++ '[' -n '' ']'
00:49:04 ++ unset VIRTUAL_ENV
00:49:04 ++ '[' '!' nondestructive = nondestructive ']'
00:49:04 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:49:04 ++ export VIRTUAL_ENV
00:49:04 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:04 ++ 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
00:49:04 ++ export PATH
00:49:04 ++ '[' -n '' ']'
00:49:04 ++ '[' -z '' ']'
00:49:04 ++ _OLD_VIRTUAL_PS1=
00:49:04 ++ PS1='(.venv3) '
00:49:04 ++ export PS1
00:49:04 ++ '[' -n /bin/bash -o -n '' ']'
00:49:04 ++ hash -r
00:49:04 + omero admin stop
00:49:08 Waiting on shutdown. Use CTRL-C to exit
00:49:08 .+ sleep 5
00:49:24 + deactivate
00:49:24 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:49:24 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:24 + export PATH
00:49:24 + unset _OLD_VIRTUAL_PATH
00:49:24 + '[' -n '' ']'
00:49:24 + '[' -n /bin/bash -o -n '' ']'
00:49:24 + hash -r
00:49:24 + '[' -n '' ']'
00:49:24 + unset VIRTUAL_ENV
00:49:24 + '[' '!' '' = nondestructive ']'
00:49:24 + unset -f deactivate
00:49:24 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:49:29 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:49:33 + '[' false = true ']'
00:49:33 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:49:33 Skipping PURGE_DATA:CleanDbAndRepo
00:49:33 + rm -rf '/home/omero/workspace/OMERO-server/create_users?token=GHSAT0AAAAAAB5BT7TL3OJ6TGMIOOHAQWMKZQBS2LA' /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero-dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero-py-5.19.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero-scripts-5.8.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero-web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:49:37 Copied 1 artifact from "OMERO-build" build number 12
00:49:37 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 12
00:49:37 Copied 2 artifacts from "OMERO-build-build" build number 12
00:49:37 [OMERO-server] $ /bin/bash -xe /tmp/jenkins6280349305620511025.sh
00:49:37 + source /home/settings.env
00:49:37 ++ OMERO_DB_HOST=pg
00:49:37 ++ OMERO_DB_USER=postgres
00:49:37 ++ OMERO_DB_PASS=
00:49:37 ++ OMERO_ROOT_PASS=omero
00:49:37 ++ OMERO_DATA_DIR=/OMERO
00:49:37 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:49:37 + OMERO_DB_NAME=OMERO-server
00:49:37 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:49:37 + mkdir -p /home/omero/omero-server-data
00:49:37 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:49:37 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:37 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:37 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:49:37 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:49:37 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:49:37 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:49:37 ++ ls OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
00:49:37 + ZIP=OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
00:49:37 + '[' '!' -z '' ']'
00:49:37 + DIST=OMERO.server-5.6.3-437-ef9fea1806-ice36
00:49:37 + unzip OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
00:49:37 Archive: OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/blitz/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/grid/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/profiles/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/error/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/janelia/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/ncsa_paledit/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/wcif/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/analysis_scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/annotation_scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/export_scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/figure_scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/import_scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/util_scripts/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/server/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/share/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/share/licenses/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/misc/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__1/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__10/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__11/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__2/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__3/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__4/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__5/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__6/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__7/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__8/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__9/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__4/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__5/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__6/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__7/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.1__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.2__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.2__0/t/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.3__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.4__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.0__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__1/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__2/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__3/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/
00:49:37 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/var/
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/LICENSE.txt
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/backup.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/blitz/mail-senders.example
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/blitz/mail-server.example
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/build.properties
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/env.bat
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/env.sh
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/hibernate.properties
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/ice.config
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback-cli.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback-indexing-cli.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback-indexing.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/mime.types
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/node1.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/node2.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/omero.properties
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/profiles/psql
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/rollover.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/Windows.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/error/maintainance.html
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/README
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/default.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/templates.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/windefault.xml
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/ice.config
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/internal.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/master.cfg
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/robot.template
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/testdropbox.config
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/history.rst
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/OMEZarrReader.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/activation.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aggdesigner-algorithm.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aircompressor.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/annotations.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/antlr.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aopalliance.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/apache-client.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/arns.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/auth.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/avatica-core.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/avatica-metrics.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aws-core.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aws-query-protocol.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aws-xml-protocol.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/base.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-all.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-anim.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-awt-util.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-bridge.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-codec.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-constants.jar
00:49:37 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-css.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-dom.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-ext.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-extension.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-gui-util.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-gvt.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-i18n.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-parser.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-rasterizer-ext.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-rasterizer.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-script.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-slideshow.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-squiggle-ext.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-squiggle.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svg-dom.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svgbrowser.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svggen.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svgpp.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svgrasterizer.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-swing.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-transcoder.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-ttf2svg.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-util.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-xml.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/btm.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/bufr.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/c3p0.jar
00:49:38 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/calcite-core.jar
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00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/schema.sql
00:49:40 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/views.sql
00:49:40 + rm -f OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
00:49:40 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-437-ef9fea1806-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:49:40 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:49:40 ++ deactivate nondestructive
00:49:40 ++ '[' -n '' ']'
00:49:40 ++ '[' -n '' ']'
00:49:40 ++ '[' -n /bin/bash -o -n '' ']'
00:49:40 ++ hash -r
00:49:40 ++ '[' -n '' ']'
00:49:40 ++ unset VIRTUAL_ENV
00:49:40 ++ '[' '!' nondestructive = nondestructive ']'
00:49:40 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:49:40 ++ export VIRTUAL_ENV
00:49:40 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:40 ++ 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
00:49:40 ++ export PATH
00:49:40 ++ '[' -n '' ']'
00:49:40 ++ '[' -z '' ']'
00:49:40 ++ _OLD_VIRTUAL_PS1=
00:49:40 ++ PS1='(.venv3) '
00:49:40 ++ export PS1
00:49:40 ++ '[' -n /bin/bash -o -n '' ']'
00:49:40 ++ hash -r
00:49:40 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
00:49:41 Collecting zeroc-ice==3.6.5
00:49:41 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
00:49:44 Installing collected packages: zeroc-ice
00:49:45 Successfully installed zeroc-ice-3.6.5
00:49:45 + pip install -U pip future
00:49:45 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:49:46 Collecting pip
00:49:46 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
00:49:46 Collecting future
00:49:46 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:49:46 Installing collected packages: pip, future
00:49:46 Attempting uninstall: pip
00:49:46 Found existing installation: pip 21.2.3
00:49:46 Uninstalling pip-21.2.3:
00:49:46 Successfully uninstalled pip-21.2.3
00:49:48 Successfully installed future-1.0.0 pip-24.0
00:49:48 + pip install markdown
00:49:49 Collecting markdown
00:49:49 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
00:49:49 Collecting importlib-metadata>=4.4 (from markdown)
00:49:49 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
00:49:49 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
00:49:49 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
00:49:49 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
00:49:49 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
00:49:49 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
00:49:49 Installing collected packages: zipp, importlib-metadata, markdown
00:49:49 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
00:49:49 + pip install reportlab
00:49:50 Collecting reportlab
00:49:50 Using cached reportlab-4.1.0-py3-none-any.whl.metadata (1.4 kB)
00:49:50 Collecting pillow>=9.0.0 (from reportlab)
00:49:50 Using cached pillow-10.2.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.7 kB)
00:49:51 Collecting chardet (from reportlab)
00:49:51 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:49:51 Using cached reportlab-4.1.0-py3-none-any.whl (1.9 MB)
00:49:51 Using cached pillow-10.2.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
00:49:51 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:49:51 Installing collected packages: pillow, chardet, reportlab
00:49:52 Successfully installed chardet-5.2.0 pillow-10.2.0 reportlab-4.1.0
00:49:52 + pip install omego
00:49:53 Collecting omego
00:49:53 Using cached omego-0.7.0-py3-none-any.whl
00:49:53 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:49:53 Collecting yaclifw>=0.1.1 (from omego)
00:49:53 Using cached yaclifw-0.2.0-py3-none-any.whl
00:49:53 Collecting six (from yaclifw>=0.1.1->omego)
00:49:53 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:49:53 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:49:53 Installing collected packages: six, yaclifw, omego
00:49:53 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:49:53 + pip install tables
00:49:54 Collecting tables
00:49:54 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:49:55 Collecting numpy>=1.19.0 (from tables)
00:49:55 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:49:55 Collecting numexpr>=2.6.2 (from tables)
00:49:55 Using cached numexpr-2.9.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
00:49:55 Collecting packaging (from tables)
00:49:55 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
00:49:55 Collecting py-cpuinfo (from tables)
00:49:55 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:49:55 Collecting blosc2>=2.3.0 (from tables)
00:49:55 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:49:55 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:49:55 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:49:55 Collecting msgpack (from blosc2>=2.3.0->tables)
00:49:55 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
00:49:55 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:49:55 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:49:55 Using cached numexpr-2.9.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (374 kB)
00:49:56 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:49:56 Using cached packaging-24.0-py3-none-any.whl (53 kB)
00:49:56 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:49:56 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:49:56 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
00:49:56 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:50:00 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.9.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
00:50:00 + pip install jinja2
00:50:01 Collecting jinja2
00:50:01 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
00:50:01 Collecting MarkupSafe>=2.0 (from jinja2)
00:50:01 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
00:50:01 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
00:50:01 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
00:50:01 Installing collected packages: MarkupSafe, jinja2
00:50:01 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
00:50:01 + pip install omero-py
00:50:02 Collecting omero-py
00:50:03 Downloading omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
00:50:03 Collecting urllib3<2 (from omero-py)
00:50:03 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
00:50:03 Collecting appdirs (from omero-py)
00:50:03 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:50:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:50:03 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
00:50:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.2.0)
00:50:03 Collecting PyYAML (from omero-py)
00:50:03 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:50:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:50:03 Collecting requests (from omero-py)
00:50:03 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
00:50:03 Collecting portalocker (from omero-py)
00:50:03 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
00:50:03 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:50:03 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:50:03 Collecting idna<4,>=2.5 (from requests->omero-py)
00:50:03 Using cached idna-3.6-py3-none-any.whl.metadata (9.9 kB)
00:50:04 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:50:04 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
00:50:04 Downloading omero_py-5.19.1-py3-none-any.whl (2.8 MB)
00:50:04 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.8/2.8 MB 15.7 MB/s eta 0:00:00
00:50:04 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
00:50:04 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:50:04 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
00:50:04 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
00:50:04 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
00:50:04 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
00:50:04 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:50:04 Using cached idna-3.6-py3-none-any.whl (61 kB)
00:50:04 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
00:50:07 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.6 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
00:50:07 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:50:08 Collecting omero-metadata
00:50:08 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-iu8frmmi/omero-metadata_b2219e84ead541869b8342a6df91e5f5
00:50:08 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-iu8frmmi/omero-metadata_b2219e84ead541869b8342a6df91e5f5
00:50:09 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit e618d0642e0162fa87b982fa3e77fd0d3c93cba2
00:50:09 Installing build dependencies: started
00:50:12 Installing build dependencies: finished with status 'done'
00:50:12 Getting requirements to build wheel: started
00:50:12 Getting requirements to build wheel: finished with status 'done'
00:50:12 Installing backend dependencies: started
00:50:13 Installing backend dependencies: finished with status 'done'
00:50:13 Preparing metadata (pyproject.toml): started
00:50:13 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:14 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
00:50:14 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
00:50:14 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
00:50:14 Collecting pandas (from omero-metadata)
00:50:14 Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:50:14 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
00:50:14 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:50:14 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:50:14 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:50:14 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.2.0)
00:50:14 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:50:14 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
00:50:14 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
00:50:14 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:50:14 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:50:14 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:50:14 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:50:14 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
00:50:14 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:50:14 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:50:14 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
00:50:14 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
00:50:14 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.6)
00:50:14 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
00:50:14 Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.0 MB)
00:50:14 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:50:14 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
00:50:15 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:50:15 Building wheels for collected packages: omero-metadata
00:50:15 Building wheel for omero-metadata (pyproject.toml): started
00:50:15 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:50:15 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=d611209a3d7f36677300ba37a34d54735b280b44d5b1eef58a1d713dbdbe9144
00:50:15 Stored in directory: /tmp/pip-ephem-wheel-cache-psw516fe/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:50:15 Successfully built omero-metadata
00:50:15 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:50:21 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.1 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
00:50:21 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:50:22 Collecting omero-cli-render
00:50:22 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-1laj1p1r/omero-cli-render_98d2e6cd2daa438381780d3339710a51
00:50:22 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-1laj1p1r/omero-cli-render_98d2e6cd2daa438381780d3339710a51
00:50:23 Running command git checkout -b merge_ci --track origin/merge_ci
00:50:24 Switched to a new branch 'merge_ci'
00:50:24 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:50:24 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit df87d9a78c619e2a60a86ce603456f9656c016bc
00:50:24 Installing build dependencies: started
00:50:26 Installing build dependencies: finished with status 'done'
00:50:26 Getting requirements to build wheel: started
00:50:26 Getting requirements to build wheel: finished with status 'done'
00:50:26 Installing backend dependencies: started
00:50:28 Installing backend dependencies: finished with status 'done'
00:50:28 Preparing metadata (pyproject.toml): started
00:50:28 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:28 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
00:50:28 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
00:50:28 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
00:50:28 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
00:50:28 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:50:28 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:50:28 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.2.0)
00:50:28 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:50:28 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
00:50:28 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
00:50:28 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
00:50:28 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.6)
00:50:28 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
00:50:28 Building wheels for collected packages: omero-cli-render
00:50:28 Building wheel for omero-cli-render (pyproject.toml): started
00:50:28 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:50:28 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=7dcc4508c74fb1aed988a6d6bcece30108622d1bc972cdd9eb3077e46a42415a
00:50:28 Stored in directory: /tmp/pip-ephem-wheel-cache-tqy2ckxq/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:50:28 Successfully built omero-cli-render
00:50:29 Installing collected packages: omero-cli-render
00:50:29 Successfully installed omero-cli-render-0.8.1.dev0
00:50:29 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:50:30 Collecting omero-cli-duplicate
00:50:30 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-33dahdav/omero-cli-duplicate_ccbb4257f9c445549f3464c0293b0204
00:50:30 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-33dahdav/omero-cli-duplicate_ccbb4257f9c445549f3464c0293b0204
00:50:31 Running command git checkout -b merge_ci --track origin/merge_ci
00:50:31 Switched to a new branch 'merge_ci'
00:50:31 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:50:31 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 51e0fa428acc62a372d0252a74a04765383575c2
00:50:31 Installing build dependencies: started
00:50:33 Installing build dependencies: finished with status 'done'
00:50:33 Getting requirements to build wheel: started
00:50:34 Getting requirements to build wheel: finished with status 'done'
00:50:34 Installing backend dependencies: started
00:50:35 Installing backend dependencies: finished with status 'done'
00:50:35 Preparing metadata (pyproject.toml): started
00:50:35 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:35 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
00:50:35 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
00:50:35 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:50:35 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:50:35 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:50:35 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.2.0)
00:50:35 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
00:50:35 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:50:35 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
00:50:35 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
00:50:35 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
00:50:35 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.6)
00:50:35 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
00:50:35 Building wheels for collected packages: omero-cli-duplicate
00:50:35 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:50:35 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:50:35 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=5aec090d8ed69770e358040d743b575a0f181b3bc0a3364eac2556a3f78ddd5b
00:50:35 Stored in directory: /tmp/pip-ephem-wheel-cache-3q187u1z/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:50:35 Successfully built omero-cli-duplicate
00:50:36 Installing collected packages: omero-cli-duplicate
00:50:36 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:50:36 + pip install omero-certificates
00:50:37 Collecting omero-certificates
00:50:37 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:50:37 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
00:50:37 Collecting distro==1.8.0 (from omero-certificates)
00:50:37 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:50:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
00:50:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:50:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:50:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:50:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.2.0)
00:50:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
00:50:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:50:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
00:50:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
00:50:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
00:50:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.6)
00:50:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
00:50:37 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:50:37 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:50:37 Installing collected packages: distro, omero-certificates
00:50:37 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:50:37 + for x in *.tar.gz
00:50:37 + pip install -U omero-dropbox-5.6.3.dev0.tar.gz
00:50:38 Processing ./omero-dropbox-5.6.3.dev0.tar.gz
00:50:38 Installing build dependencies: started
00:50:40 Installing build dependencies: finished with status 'done'
00:50:40 Getting requirements to build wheel: started
00:50:40 Getting requirements to build wheel: finished with status 'done'
00:50:40 Installing backend dependencies: started
00:50:42 Installing backend dependencies: finished with status 'done'
00:50:42 Preparing metadata (pyproject.toml): started
00:50:42 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:42 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
00:50:42 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
00:50:42 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
00:50:42 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
00:50:42 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
00:50:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.2.0)
00:50:42 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
00:50:42 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
00:50:42 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
00:50:42 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
00:50:42 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
00:50:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.6)
00:50:42 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
00:50:42 Building wheels for collected packages: omero-dropbox
00:50:42 Building wheel for omero-dropbox (pyproject.toml): started
00:50:42 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:50:42 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=3d0c97f3d5d7fbbf3c9e2cd77a077c780c34c364224544263c0ed55a508b0d01
00:50:42 Stored in directory: /home/omero/.cache/pip/wheels/a5/63/29/4452e52704e5ad491f397a0013b20ebb9d413ceb110f8101d1
00:50:42 Successfully built omero-dropbox
00:50:43 Installing collected packages: omero-dropbox
00:50:43 Successfully installed omero-dropbox-5.6.3.dev0
00:50:43 + for x in *.tar.gz
00:50:43 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:50:43 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:50:44 Installing build dependencies: started
00:50:47 Installing build dependencies: finished with status 'done'
00:50:47 Getting requirements to build wheel: started
00:50:47 Getting requirements to build wheel: finished with status 'done'
00:50:47 Installing backend dependencies: started
00:50:48 Installing backend dependencies: finished with status 'done'
00:50:48 Preparing metadata (pyproject.toml): started
00:50:48 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:48 Building wheels for collected packages: omero_marshal
00:50:48 Building wheel for omero_marshal (pyproject.toml): started
00:50:49 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:50:49 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=824862ac8ef5d9f4124a0107cd54a10e74729ecbdbf028de7115a03890aae79d
00:50:49 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:50:49 Successfully built omero_marshal
00:50:49 Installing collected packages: omero_marshal
00:50:49 Successfully installed omero_marshal-0.9.1.dev0
00:50:49 + for x in *.tar.gz
00:50:49 + pip install -U omero-py-5.19.2.dev0.tar.gz
00:50:50 Processing ./omero-py-5.19.2.dev0.tar.gz
00:50:50 Installing build dependencies: started
00:50:52 Installing build dependencies: finished with status 'done'
00:50:52 Getting requirements to build wheel: started
00:50:53 Getting requirements to build wheel: finished with status 'done'
00:50:53 Installing backend dependencies: started
00:50:54 Installing backend dependencies: finished with status 'done'
00:50:54 Preparing metadata (pyproject.toml): started
00:50:54 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:54 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
00:50:54 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
00:50:54 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
00:50:54 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
00:50:54 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.2.0)
00:50:54 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
00:50:54 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (3.6.5)
00:50:54 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
00:50:54 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
00:50:54 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.3.2)
00:50:54 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.6)
00:50:54 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (2024.2.2)
00:50:54 Building wheels for collected packages: omero-py
00:50:54 Building wheel for omero-py (pyproject.toml): started
00:50:55 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:50:55 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2781853 sha256=7958739570e426457ac4df3f493e50dc5a0aca65868b6e4a02d9ae7a060ec048
00:50:55 Stored in directory: /home/omero/.cache/pip/wheels/9c/89/be/2493ce5a19b07550997c567708af9d7056cfee1f4f39ac699d
00:50:55 Successfully built omero-py
00:50:55 Installing collected packages: omero-py
00:50:55 Attempting uninstall: omero-py
00:50:56 Found existing installation: omero-py 5.19.1
00:50:56 Uninstalling omero-py-5.19.1:
00:50:56 Successfully uninstalled omero-py-5.19.1
00:50:58 Successfully installed omero-py-5.19.2.dev0
00:50:58 + for x in *.tar.gz
00:50:58 + pip install -U omero-scripts-5.8.1.dev0.tar.gz
00:50:59 Processing ./omero-scripts-5.8.1.dev0.tar.gz
00:50:59 Installing build dependencies: started
00:51:01 Installing build dependencies: finished with status 'done'
00:51:01 Getting requirements to build wheel: started
00:51:01 Getting requirements to build wheel: finished with status 'done'
00:51:01 Installing backend dependencies: started
00:51:02 Installing backend dependencies: finished with status 'done'
00:51:02 Preparing metadata (pyproject.toml): started
00:51:02 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:02 Building wheels for collected packages: omero-scripts
00:51:02 Building wheel for omero-scripts (pyproject.toml): started
00:51:03 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:51:03 Created wheel for omero-scripts: filename=omero_scripts-5.8.1.dev0-py3-none-any.whl size=116570 sha256=cfae56392283b9375059d6de8a5b9e8168668e3a6a05903c2adda21a79488aca
00:51:03 Stored in directory: /home/omero/.cache/pip/wheels/ef/a0/80/e3393129cedc64a3ad2b8c2fa437d83a3d318cba65d425f5cf
00:51:03 Successfully built omero-scripts
00:51:03 Installing collected packages: omero-scripts
00:51:03 Successfully installed omero-scripts-5.8.1.dev0
00:51:03 + for x in *.tar.gz
00:51:03 + pip install -U omero-web-5.25.1.dev0.tar.gz
00:51:04 Processing ./omero-web-5.25.1.dev0.tar.gz
00:51:04 Installing build dependencies: started
00:51:06 Installing build dependencies: finished with status 'done'
00:51:06 Getting requirements to build wheel: started
00:51:06 Getting requirements to build wheel: finished with status 'done'
00:51:06 Installing backend dependencies: started
00:51:07 Installing backend dependencies: finished with status 'done'
00:51:07 Preparing metadata (pyproject.toml): started
00:51:08 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:08 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.2.dev0)
00:51:08 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
00:51:08 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:51:08 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
00:51:08 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
00:51:08 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
00:51:08 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:51:09 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
00:51:09 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:51:09 Collecting django-csp (from omero-web==5.25.1.dev0)
00:51:09 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:51:09 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
00:51:09 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
00:51:09 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
00:51:09 Using cached gunicorn-21.2.0-py3-none-any.whl.metadata (4.1 kB)
00:51:09 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
00:51:09 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.2.0)
00:51:09 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
00:51:09 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
00:51:09 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
00:51:09 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:51:09 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:51:09 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:51:09 Using cached sqlparse-0.4.4-py3-none-any.whl.metadata (4.0 kB)
00:51:09 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
00:51:09 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
00:51:09 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
00:51:09 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
00:51:09 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
00:51:09 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6.5)
00:51:09 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
00:51:10 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:51:10 Using cached typing_extensions-4.10.0-py3-none-any.whl.metadata (3.0 kB)
00:51:10 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
00:51:10 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6)
00:51:10 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
00:51:10 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:51:10 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:51:10 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:51:10 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
00:51:10 Using cached gunicorn-21.2.0-py3-none-any.whl (80 kB)
00:51:10 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
00:51:10 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:51:10 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:51:10 Using cached sqlparse-0.4.4-py3-none-any.whl (41 kB)
00:51:10 Using cached typing_extensions-4.10.0-py3-none-any.whl (33 kB)
00:51:10 Building wheels for collected packages: omero-web
00:51:10 Building wheel for omero-web (pyproject.toml): started
00:51:11 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:51:11 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2770069 sha256=fced9f0c4927c6d2dee24bab24f43628847f0e2aa131d7b0059d0172ccbc9b50
00:51:11 Stored in directory: /home/omero/.cache/pip/wheels/c5/4f/aa/011f4ecfdcda915571d213b068a736fbddf1b36b2e590de11a
00:51:11 Successfully built omero-web
00:51:12 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:51:15 Successfully installed Django-4.2.11 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-21.2.0 omero-web-5.25.1.dev0 sqlparse-0.4.4 typing-extensions-4.10.0 whitenoise-6.6.0
00:51:15 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:51:15 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:51:15 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:51:15 --2024-03-26 00:51:15-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:51:15 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.109.133, 185.199.108.133, ...
00:51:15 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
00:51:15 HTTP request sent, awaiting response... 200 OK
00:51:16 Length: 94614 (92K) [text/plain]
00:51:16 Saving to: ‘Figure_To_Pdf.py’
00:51:16
00:51:16 0K .......... .......... .......... .......... .......... 54% 4.03M 0s
00:51:16 50K .......... .......... .......... .......... .. 100% 11.8M=0.02s
00:51:16
00:51:16 2024-03-26 00:51:16 (5.78 MB/s) - ‘Figure_To_Pdf.py’ saved [94614/94614]
00:51:16
00:51:16 + chmod 755 Figure_To_Pdf.py
00:51:16 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:51:16 + omero config set omero.db.name OMERO-server
00:51:17 + omero config set omero.db.host pg
00:51:19 + omero config set omero.db.user postgres
00:51:21 + omero config set omero.data.dir /home/omero/omero-server-data
00:51:23 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:51:25 + omero config set omero.db.poolsize 25
00:51:26 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:51:28 + omero config set omero.security.trustStorePassword changeit
00:51:31 + omero config set omero.mail.config true
00:51:33 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:51:35 + omero config set omero.mail.host smtp.dundee.ac.uk
00:51:37 + omero certificates
00:51:39 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:51:39 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:51:40 + '[' false = true ']'
00:51:40 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:51:40 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:51:40 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:51:40 2024-03-26 00:51:40,896 [ omego.db] DEBUG dbcommand => upgrade
00:51:40 2024-03-26 00:51:40,896 [ omego.db] DEBUG dbhost => localhost
00:51:40 2024-03-26 00:51:40,897 [ omego.db] DEBUG dbname => OMERO-server
00:51:40 2024-03-26 00:51:40,897 [ omego.db] DEBUG dbpass => omero
00:51:40 2024-03-26 00:51:40,897 [ omego.db] DEBUG dbuser => omero
00:51:40 2024-03-26 00:51:40,897 [ omego.db] DEBUG rootpass => omero
00:51:40 2024-03-26 00:51:40,897 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:51:40 2024-03-26 00:51:40,897 [omego.extern] INFO Executing : omero version
00:51:42 OMERO.py version:
00:51:43 OMERO.server version:
00:51:43 5.6.3-437-ef9fea1806-ice36
00:51:43 5.19.2.dev0
00:51:43 2024-03-26 00:51:43,718 [omego.extern] INFO Completed [2.821 s]
00:51:43 2024-03-26 00:51:43,719 [omego.extern] DEBUG Using omero CLI from omero
00:51:43 2024-03-26 00:51:43,719 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:51:43 2024-03-26 00:51:43,719 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:43 2024-03-26 00:51:43,719 [omego.extern] INFO Executing : omero config get --show-password
00:51:45 2024-03-26 00:51:45,916 [omego.extern] INFO Completed [2.196 s]
00:51:45 2024-03-26 00:51:45,916 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:45 2024-03-26 00:51:45,916 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:51:46 2024-03-26 00:51:46,107 [omego.extern] INFO Completed [0.191 s]
00:51:46 2024-03-26 00:51:46,107 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:51:46 2024-03-26 00:51:46,108 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:51:46
00:51:46 2024-03-26 00:51:46,108 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:46 2024-03-26 00:51:46,108 [omego.extern] INFO Executing : omero config get --show-password
00:51:48 2024-03-26 00:51:48,112 [omego.extern] INFO Completed [2.004 s]
00:51:48 2024-03-26 00:51:48,112 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:48 2024-03-26 00:51:48,112 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:51:48 2024-03-26 00:51:48,254 [omego.extern] INFO Completed [0.141 s]
00:51:48 2024-03-26 00:51:48,255 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.4") at port "5432".\n'
00:51:48 2024-03-26 00:51:48,255 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:51:48 2024-03-26 00:51:48,255 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:48 2024-03-26 00:51:48,256 [omego.extern] INFO Executing : omero config get --show-password
00:51:50 2024-03-26 00:51:50,193 [omego.extern] INFO Completed [1.937 s]
00:51:50 2024-03-26 00:51:50,194 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:50 2024-03-26 00:51:50,194 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:51:50 2024-03-26 00:51:50,257 [omego.extern] INFO Completed [0.063 s]
00:51:50 2024-03-26 00:51:50,258 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:51:50 2024-03-26 00:51:50,258 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:51:50 2024-03-26 00:51:50,261 [ omego.db] INFO Database is already at OMERO5.4__0
00:51:50 + export LANG=en_US.UTF-8
00:51:50 + LANG=en_US.UTF-8
00:51:50 + export LANGUAGE=en_US:en
00:51:50 + LANGUAGE=en_US:en
00:51:50 + export LC_ALL=en_US.UTF-8
00:51:50 + LC_ALL=en_US.UTF-8
00:51:50 + BUILD_ID=DONT_KILL_ME
00:51:50 + omero admin start
00:52:11 No descriptor given. Using etc/grid/default.xml
00:52:42 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:52:42 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:52:42 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:52:42 Waiting on startup. Use CTRL-C to exit
00:52:42 + omero admin waitup
00:52:45 Waiting on startup. Use CTRL-C to exit
00:52:45 + omero admin diagnostics
00:52:47
00:52:47 ================================================================================
00:52:47 OMERO Diagnostics (admin)
00:52:47 ================================================================================
00:52:47
00:52:47 Commands: java -version 11.0.22 (/usr/bin/java)
00:52:47 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:52:47 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:52:47 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:52:47 Commands: psql --version 16.2 (/usr/bin/psql)
00:52:47 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:52:47
00:52:47 Component: OMERO.py 5.19.2.dev0
00:52:47 Component: OMERO.server 5.6.3-437-ef9fea1806-ice36
00:52:47
00:52:47 Server: icegridnode running
00:52:47 Server: Blitz-0 active (pid = 33295, enabled)
00:52:47 Server: DropBox active (pid = 33316, enabled)
00:52:47 Server: FileServer active (pid = 33324, enabled)
00:52:47 Server: Indexer-0 active (pid = 33328, enabled)
00:52:47 Server: MonitorServer active (pid = 33327, enabled)
00:52:47 Server: OMERO.Glacier2 active (pid = 33329, enabled)
00:52:47 Server: OMERO.IceStorm active (pid = 33346, enabled)
00:52:47 Server: PixelData-0 active (pid = 33334, enabled)
00:52:47 Server: Processor-0 activating (enabled)
00:52:47 Server: Tables-0 activating (enabled)
00:52:47 Server: TestDropBox inactive (enabled)
00:52:47
00:52:47 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:52:47 Log files: Blitz-0.log 25.3 KB errors=0 warnings=1
00:52:47 Log files: DropBox.log 1.2 KB
00:52:47 Log files: FileServer.log 114 B
00:52:47 Log files: Indexer-0.log 2.6 KB
00:52:47 Log files: MonitorServer.log 1.1 KB
00:52:47 Log files: PixelData-0.log 3.4 KB
00:52:47 Log files: Processor-0.log 592 B
00:52:47 Log files: Tables-0.log 841 B
00:52:47 Log files: TestDropBox.log n/a
00:52:47 Log files: master.err 2.1 KB
00:52:47 Log files: master.out 41.5 KB
00:52:47 Log files: Total size 0.08 MB
00:52:47
00:52:47
00:52:47 Environment:OMERO_HOME=(unset)
00:52:47 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:52:47 Environment:OMERO_NODE=(unset)
00:52:47 Environment:OMERO_MASTER=(unset)
00:52:47 Environment:OMERO_USERDIR=(unset)
00:52:47 Environment:OMERO_TMPDIR=(unset)
00:52:47 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:52:47 Environment:PYTHONPATH=(unset)
00:52:47 Environment:ICE_HOME=/opt/ice-3.6.5
00:52:47 Environment:LD_LIBRARY_PATH=(unset)
00:52:47 Environment:DYLD_LIBRARY_PATH=(unset)
00:52:47
00:52:47 OMERO SSL port:4064
00:52:47 OMERO TCP port:4063
00:52:47 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:52:47 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:52:47
00:52:47 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:47 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:47 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:47 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:47
00:52:47 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 26 March 2024 07c328269d8581a69c795d970050bbfa0d250837
00:52:47 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 26 March 2024 07c328269d8581a69c795d970050bbfa0d250837
00:52:47 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 26 March 2024 07c328269d8581a69c795d970050bbfa0d250837
00:52:47 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.2-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
00:52:47 Jar: lib/server/ome-common.jar OME Common Java 6.0.22-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
00:52:47 Jar: lib/server/ome-jai.jar OME JAI 0.1.3-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
00:52:47 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.3-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
00:52:47 Jar: lib/server/ome-poi.jar OME POI 5.3.9-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
00:52:47 Jar: lib/server/ome-xml.jar OME XML library 6.3.5-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
00:52:47 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
00:52:47 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
00:52:47 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
00:52:47 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
00:52:47 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
00:52:47 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
00:52:47 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
00:52:48 + deactivate
00:52:48 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:52:48 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:52:48 + export PATH
00:52:48 + unset _OLD_VIRTUAL_PATH
00:52:48 + '[' -n '' ']'
00:52:48 + '[' -n /bin/bash -o -n '' ']'
00:52:48 + hash -r
00:52:48 + '[' -n '' ']'
00:52:48 + unset VIRTUAL_ENV
00:52:48 + '[' '!' '' = nondestructive ']'
00:52:48 + unset -f deactivate
00:52:48 Finished: SUCCESS
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