10:24:26 Started by upstream project "Trigger" build number 152
10:24:26 originally caused by:
10:24:26 Started by user devspace
10:24:26 Running as SYSTEM
10:24:26 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
10:24:26 [OMERO-server] $ /bin/bash -xe /tmp/jenkins17187327177025628539.sh
10:24:26 + source /home/settings.env
10:24:26 ++ OMERO_DB_HOST=pg
10:24:26 ++ OMERO_DB_USER=postgres
10:24:26 ++ OMERO_DB_PASS=
10:24:26 ++ OMERO_ROOT_PASS=omero
10:24:26 ++ OMERO_DATA_DIR=/OMERO
10:24:26 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
10:24:26 + OMERO_DB_NAME=OMERO-server
10:24:26 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
10:24:26 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:24:26 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:24:26 + OMERO_DATA_DIR=/home/omero/omero-server-data
10:24:26 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
10:24:26 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
10:24:26 ++ deactivate nondestructive
10:24:26 ++ '[' -n '' ']'
10:24:26 ++ '[' -n '' ']'
10:24:26 ++ '[' -n /bin/bash -o -n '' ']'
10:24:26 ++ hash -r
10:24:26 ++ '[' -n '' ']'
10:24:26 ++ unset VIRTUAL_ENV
10:24:26 ++ '[' '!' nondestructive = nondestructive ']'
10:24:26 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
10:24:26 ++ export VIRTUAL_ENV
10:24:26 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:24:26 ++ 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
10:24:26 ++ export PATH
10:24:26 ++ '[' -n '' ']'
10:24:26 ++ '[' -z '' ']'
10:24:26 ++ _OLD_VIRTUAL_PS1=
10:24:26 ++ PS1='(.venv3) '
10:24:26 ++ export PS1
10:24:26 ++ '[' -n /bin/bash -o -n '' ']'
10:24:26 ++ hash -r
10:24:26 + omero admin stop
10:24:28 Waiting on shutdown. Use CTRL-C to exit
10:24:28 .+ sleep 5
10:24:43 + deactivate
10:24:43 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
10:24:43 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:24:43 + export PATH
10:24:43 + unset _OLD_VIRTUAL_PATH
10:24:43 + '[' -n '' ']'
10:24:43 + '[' -n /bin/bash -o -n '' ']'
10:24:43 + hash -r
10:24:43 + '[' -n '' ']'
10:24:43 + unset VIRTUAL_ENV
10:24:43 + '[' '!' '' = nondestructive ']'
10:24:43 + unset -f deactivate
10:24:43 + rm -rf /home/omero/workspace/OMERO-server/.venv3
10:24:44 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
10:24:49 + '[' false = true ']'
10:24:49 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
10:24:49 Skipping PURGE_DATA:CleanDbAndRepo
10:24:49 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.4-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.5.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.26.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
10:24:53 Copied 1 artifact from "OMERO-build" build number 129
10:24:53 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 127
10:24:53 Copied 2 artifacts from "OMERO-build-build" build number 129
10:24:53 [OMERO-server] $ /bin/bash -xe /tmp/jenkins4739757805088640081.sh
10:24:53 + source /home/settings.env
10:24:53 ++ OMERO_DB_HOST=pg
10:24:53 ++ OMERO_DB_USER=postgres
10:24:53 ++ OMERO_DB_PASS=
10:24:53 ++ OMERO_ROOT_PASS=omero
10:24:53 ++ OMERO_DATA_DIR=/OMERO
10:24:53 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
10:24:53 + OMERO_DB_NAME=OMERO-server
10:24:53 + OMERO_DATA_DIR=/home/omero/omero-server-data
10:24:53 + mkdir -p /home/omero/omero-server-data
10:24:53 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
10:24:53 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:24:53 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:24:53 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
10:24:53 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
10:24:53 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
10:24:53 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
10:24:53 ++ ls OMERO.server-5.6.3-487-8d06c82248-ice36.zip
10:24:53 + ZIP=OMERO.server-5.6.3-487-8d06c82248-ice36.zip
10:24:53 + '[' '!' -z '' ']'
10:24:53 + DIST=OMERO.server-5.6.3-487-8d06c82248-ice36
10:24:53 + unzip OMERO.server-5.6.3-487-8d06c82248-ice36.zip
10:24:53 Archive: OMERO.server-5.6.3-487-8d06c82248-ice36.zip
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/blitz/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/grid/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/profiles/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/error/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/grid/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/luts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/luts/janelia/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/luts/ncsa_paledit/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/luts/wcif/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/analysis_scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/annotation_scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/export_scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/figure_scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/import_scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/scripts/omero/util_scripts/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/server/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/misc/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__1/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__10/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__11/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__2/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__3/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__4/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__5/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__6/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__7/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__8/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3A__9/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3__4/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3__5/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3__6/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO3__7/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.1__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.2__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.2__0/t/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.3__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.4__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.0__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.1__1/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.2__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.3__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4DEV__1/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4DEV__2/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4DEV__3/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/
10:24:53 creating: OMERO.server-5.6.3-487-8d06c82248-ice36/var/
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/LICENSE.txt
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/backup.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/blitz/mail-senders.example
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/blitz/mail-server.example
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/build.properties
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/env.bat
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/env.sh
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/hibernate.properties
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/ice.config
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/logback-cli.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/logback-indexing-cli.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/logback-indexing.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/logback.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/mime.types
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/node1.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/node2.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/omero.properties
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/profiles/psql
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/rollover.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/Windows.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/error/maintainance.html
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/grid/README
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/grid/default.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/grid/templates.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/grid/windefault.xml
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/ice.config
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/internal.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/master.cfg
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/templates/robot.template
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/etc/testdropbox.config
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/history.rst
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/OMEZarrReader.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/activation.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/aggdesigner-algorithm.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/aircompressor.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/annotations.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/antlr.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/aopalliance.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/avatica-core.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/avatica-metrics.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/aws-java-sdk-core.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/aws-java-sdk-kms.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/aws-java-sdk-s3.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/base.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-all.jar
10:24:53 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-anim.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-awt-util.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-bridge.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-codec.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-constants.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-css.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-dom.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-ext.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-extension.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-gui-util.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-gvt.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-i18n.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-parser.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-rasterizer-ext.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-rasterizer.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-script.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-slideshow.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-squiggle-ext.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-squiggle.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-svg-dom.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-svgbrowser.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-svggen.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-svgpp.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-svgrasterizer.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-swing.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-transcoder.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-ttf2svg.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-util.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/batik-xml.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/btm.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/bufr.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/byte-buddy-agent.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/byte-buddy.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/c3p0.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/calcite-core.jar
10:24:54 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/client/calcite-linq4j.jar
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/server/xmpcore.jar
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/lib/server/xpp3.jar
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/README
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/jmock.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/jquery.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/jtidy.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/lgpl-3.0.txt
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/npl-1_1.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/path.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/pil.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/postgresql.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/psf-v2.0.txt
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/scons.txt
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/share/licenses/tablelayout.txt
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/README.txt
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/misc/Makefile
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/misc/enums.py
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
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10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/psql-header.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/schema.sql
10:24:57 inflating: OMERO.server-5.6.3-487-8d06c82248-ice36/sql/psql/OMERO5.4__0/views.sql
10:24:57 + rm -f OMERO.server-5.6.3-487-8d06c82248-ice36.zip
10:24:57 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-487-8d06c82248-ice36 /home/omero/workspace/OMERO-server/OMERO.server
10:24:57 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
10:24:57 ++ deactivate nondestructive
10:24:57 ++ '[' -n '' ']'
10:24:57 ++ '[' -n '' ']'
10:24:57 ++ '[' -n /bin/bash -o -n '' ']'
10:24:57 ++ hash -r
10:24:57 ++ '[' -n '' ']'
10:24:57 ++ unset VIRTUAL_ENV
10:24:57 ++ '[' '!' nondestructive = nondestructive ']'
10:24:57 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
10:24:57 ++ export VIRTUAL_ENV
10:24:57 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:24:57 ++ 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
10:24:57 ++ export PATH
10:24:57 ++ '[' -n '' ']'
10:24:57 ++ '[' -z '' ']'
10:24:57 ++ _OLD_VIRTUAL_PS1=
10:24:57 ++ PS1='(.venv3) '
10:24:57 ++ export PS1
10:24:57 ++ '[' -n /bin/bash -o -n '' ']'
10:24:57 ++ hash -r
10:24:57 + 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
10:24:57 Collecting zeroc-ice==3.6.5
10:24:58 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)
10:25:00 Installing collected packages: zeroc-ice
10:25:01 Successfully installed zeroc-ice-3.6.5
10:25:01 + pip install -U pip future
10:25:02 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
10:25:02 Collecting pip
10:25:02 Using cached pip-24.1.2-py3-none-any.whl (1.8 MB)
10:25:02 Collecting future
10:25:02 Using cached future-1.0.0-py3-none-any.whl (491 kB)
10:25:02 Installing collected packages: pip, future
10:25:02 Attempting uninstall: pip
10:25:02 Found existing installation: pip 21.2.3
10:25:02 Uninstalling pip-21.2.3:
10:25:02 Successfully uninstalled pip-21.2.3
10:25:04 Successfully installed future-1.0.0 pip-24.1.2
10:25:04 + pip install markdown
10:25:05 Collecting markdown
10:25:05 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
10:25:05 Collecting importlib-metadata>=4.4 (from markdown)
10:25:05 Downloading importlib_metadata-8.2.0-py3-none-any.whl.metadata (4.7 kB)
10:25:05 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
10:25:05 Using cached zipp-3.19.2-py3-none-any.whl.metadata (3.6 kB)
10:25:05 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
10:25:05 Downloading importlib_metadata-8.2.0-py3-none-any.whl (25 kB)
10:25:05 Using cached zipp-3.19.2-py3-none-any.whl (9.0 kB)
10:25:05 Installing collected packages: zipp, importlib-metadata, markdown
10:25:06 Successfully installed importlib-metadata-8.2.0 markdown-3.6 zipp-3.19.2
10:25:06 + pip install reportlab
10:25:07 Collecting reportlab
10:25:07 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
10:25:07 Collecting pillow>=9.0.0 (from reportlab)
10:25:07 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
10:25:07 Collecting chardet (from reportlab)
10:25:07 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
10:25:07 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
10:25:07 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
10:25:07 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
10:25:07 Installing collected packages: pillow, chardet, reportlab
10:25:08 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
10:25:08 + pip install omego
10:25:09 Collecting omego
10:25:09 Using cached omego-0.7.0-py3-none-any.whl
10:25:09 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
10:25:09 Collecting yaclifw>=0.1.1 (from omego)
10:25:09 Using cached yaclifw-0.2.0-py3-none-any.whl
10:25:09 Collecting six (from yaclifw>=0.1.1->omego)
10:25:09 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
10:25:09 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
10:25:09 Installing collected packages: six, yaclifw, omego
10:25:09 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
10:25:09 + pip install tables
10:25:10 Collecting tables
10:25:10 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
10:25:10 Collecting numpy>=1.19.0 (from tables)
10:25:10 Using cached numpy-2.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
10:25:11 Collecting numexpr>=2.6.2 (from tables)
10:25:11 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
10:25:11 Collecting packaging (from tables)
10:25:11 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
10:25:11 Collecting py-cpuinfo (from tables)
10:25:11 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
10:25:11 Collecting blosc2>=2.3.0 (from tables)
10:25:11 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
10:25:11 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
10:25:11 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
10:25:11 Collecting msgpack (from blosc2>=2.3.0->tables)
10:25:11 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
10:25:11 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
10:25:11 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
10:25:11 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
10:25:11 Using cached numpy-2.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
10:25:11 Using cached packaging-24.1-py3-none-any.whl (53 kB)
10:25:11 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
10:25:11 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
10:25:11 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
10:25:11 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
10:25:15 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.1 numpy-2.0.1 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
10:25:15 + pip install jinja2
10:25:16 Collecting jinja2
10:25:16 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
10:25:16 Collecting MarkupSafe>=2.0 (from jinja2)
10:25:16 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
10:25:16 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
10:25:16 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
10:25:16 Installing collected packages: MarkupSafe, jinja2
10:25:16 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
10:25:16 + pip install omero-py
10:25:17 Collecting omero-py
10:25:17 Using cached omero_py-5.19.4-py3-none-any.whl.metadata (6.3 kB)
10:25:17 Collecting urllib3<2 (from omero-py)
10:25:17 Using cached urllib3-1.26.19-py2.py3-none-any.whl.metadata (49 kB)
10:25:17 Collecting appdirs (from omero-py)
10:25:17 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
10:25:17 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
10:25:17 Collecting numpy<2 (from omero-py)
10:25:17 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
10:25:17 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
10:25:17 Collecting PyYAML (from omero-py)
10:25:17 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
10:25:17 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
10:25:17 Collecting requests (from omero-py)
10:25:17 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
10:25:17 Collecting portalocker (from omero-py)
10:25:17 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
10:25:18 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
10:25:18 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
10:25:18 Collecting idna<4,>=2.5 (from requests->omero-py)
10:25:18 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
10:25:18 Collecting certifi>=2017.4.17 (from requests->omero-py)
10:25:18 Using cached certifi-2024.7.4-py3-none-any.whl.metadata (2.2 kB)
10:25:18 Using cached omero_py-5.19.4-py3-none-any.whl (2.8 MB)
10:25:18 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
10:25:18 Using cached urllib3-1.26.19-py2.py3-none-any.whl (143 kB)
10:25:18 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
10:25:18 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
10:25:18 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
10:25:18 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
10:25:18 Using cached certifi-2024.7.4-py3-none-any.whl (162 kB)
10:25:18 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
10:25:18 Using cached idna-3.7-py3-none-any.whl (66 kB)
10:25:18 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
10:25:18 Attempting uninstall: numpy
10:25:18 Found existing installation: numpy 2.0.1
10:25:18 Uninstalling numpy-2.0.1:
10:25:18 Successfully uninstalled numpy-2.0.1
10:25:25 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.7.4 charset-normalizer-3.3.2 idna-3.7 numpy-1.26.4 omero-py-5.19.4 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.19
10:25:26 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
10:25:26 Collecting omero-metadata
10:25:26 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-y5rh9mde/omero-metadata_5a0ec5f97fe44917bc160a19c4db11a9
10:25:26 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-y5rh9mde/omero-metadata_5a0ec5f97fe44917bc160a19c4db11a9
10:25:27 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 18568228f4a0651da90415dd2af47100dc7ac5d5
10:25:27 Installing build dependencies: started
10:25:30 Installing build dependencies: finished with status 'done'
10:25:30 Getting requirements to build wheel: started
10:25:30 Getting requirements to build wheel: finished with status 'done'
10:25:30 Preparing metadata (pyproject.toml): started
10:25:30 Preparing metadata (pyproject.toml): finished with status 'done'
10:25:30 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.4)
10:25:30 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
10:25:30 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
10:25:31 Collecting pandas (from omero-metadata)
10:25:31 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
10:25:31 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.19)
10:25:31 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
10:25:31 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
10:25:31 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
10:25:31 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.4.0)
10:25:31 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
10:25:31 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
10:25:31 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
10:25:31 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
10:25:31 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
10:25:31 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
10:25:31 Collecting pytz>=2020.1 (from pandas->omero-metadata)
10:25:31 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
10:25:31 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
10:25:31 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
10:25:31 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)
10:25:31 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)
10:25:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
10:25:31 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.7.4)
10:25:31 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
10:25:31 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
10:25:31 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
10:25:31 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
10:25:31 Building wheels for collected packages: omero-metadata
10:25:31 Building wheel for omero-metadata (pyproject.toml): started
10:25:32 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
10:25:32 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39112 sha256=b7977501daa6103327bf016b9e239919f62d25a616b36ee25f762e5cce95f487
10:25:32 Stored in directory: /tmp/pip-ephem-wheel-cache-83jjoyj0/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
10:25:32 Successfully built omero-metadata
10:25:32 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
10:25:38 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
10:25:38 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
10:25:38 Collecting omero-cli-render
10:25:38 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-ihcxv0pp/omero-cli-render_447b8dcd39214ef69e85e6d67048d296
10:25:38 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-ihcxv0pp/omero-cli-render_447b8dcd39214ef69e85e6d67048d296
10:25:39 Running command git checkout -b merge_ci --track origin/merge_ci
10:25:40 Switched to a new branch 'merge_ci'
10:25:40 branch 'merge_ci' set up to track 'origin/merge_ci'.
10:25:40 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 759b733bd88437159551c22a7d2942372ecefae4
10:25:40 Installing build dependencies: started
10:25:42 Installing build dependencies: finished with status 'done'
10:25:42 Getting requirements to build wheel: started
10:25:42 Getting requirements to build wheel: finished with status 'done'
10:25:42 Preparing metadata (pyproject.toml): started
10:25:42 Preparing metadata (pyproject.toml): finished with status 'done'
10:25:42 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
10:25:42 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.4)
10:25:42 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.19)
10:25:42 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
10:25:42 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
10:25:42 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
10:25:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.4.0)
10:25:42 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)
10:25:42 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
10:25:42 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
10:25:42 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)
10:25:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
10:25:42 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.7.4)
10:25:42 Building wheels for collected packages: omero-cli-render
10:25:42 Building wheel for omero-cli-render (pyproject.toml): started
10:25:43 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
10:25:43 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18031 sha256=0ed86ec005f70128b64a2e1670baf4ba7aeaf83f1b5a0477f072558133a4d70c
10:25:43 Stored in directory: /tmp/pip-ephem-wheel-cache-oha85eyt/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
10:25:43 Successfully built omero-cli-render
10:25:43 Installing collected packages: omero-cli-render
10:25:43 Successfully installed omero-cli-render-0.8.1.dev0
10:25:43 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
10:25:43 Collecting omero-cli-duplicate
10:25:43 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-d4vysxex/omero-cli-duplicate_5aceaff833ef44659d8132ae272e8029
10:25:44 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-d4vysxex/omero-cli-duplicate_5aceaff833ef44659d8132ae272e8029
10:25:44 Running command git checkout -b merge_ci --track origin/merge_ci
10:25:45 Switched to a new branch 'merge_ci'
10:25:45 branch 'merge_ci' set up to track 'origin/merge_ci'.
10:25:45 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 8ac993bde54932b5fb18d567e9472dfe3c6b4aca
10:25:45 Installing build dependencies: started
10:25:47 Installing build dependencies: finished with status 'done'
10:25:47 Getting requirements to build wheel: started
10:25:47 Getting requirements to build wheel: finished with status 'done'
10:25:47 Preparing metadata (pyproject.toml): started
10:25:48 Preparing metadata (pyproject.toml): finished with status 'done'
10:25:48 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.4)
10:25:48 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.19)
10:25:48 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
10:25:48 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
10:25:48 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
10:25:48 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.4.0)
10:25:48 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
10:25:48 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)
10:25:48 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
10:25:48 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
10:25:48 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)
10:25:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
10:25:48 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.7.4)
10:25:48 Building wheels for collected packages: omero-cli-duplicate
10:25:48 Building wheel for omero-cli-duplicate (pyproject.toml): started
10:25:48 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
10:25:48 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=b8188c5090bb47806dae9adf72fc17a014d521c57a6872ec6a5fdc1350843533
10:25:48 Stored in directory: /tmp/pip-ephem-wheel-cache-f0oegzno/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
10:25:48 Successfully built omero-cli-duplicate
10:25:48 Installing collected packages: omero-cli-duplicate
10:25:48 Successfully installed omero-cli-duplicate-0.4.1.dev0
10:25:48 + pip install omero-certificates
10:25:49 Collecting omero-certificates
10:25:49 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
10:25:49 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.4)
10:25:49 Collecting distro==1.8.0 (from omero-certificates)
10:25:49 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
10:25:49 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.19)
10:25:49 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
10:25:49 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
10:25:49 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
10:25:49 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.4.0)
10:25:49 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
10:25:49 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)
10:25:49 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
10:25:49 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
10:25:49 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)
10:25:49 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
10:25:49 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.7.4)
10:25:49 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
10:25:49 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
10:25:49 Installing collected packages: distro, omero-certificates
10:25:49 Successfully installed distro-1.8.0 omero-certificates-0.3.2
10:25:49 + for x in *.tar.gz
10:25:49 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
10:25:50 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
10:25:50 Installing build dependencies: started
10:25:53 Installing build dependencies: finished with status 'done'
10:25:53 Getting requirements to build wheel: started
10:25:53 Getting requirements to build wheel: finished with status 'done'
10:25:53 Preparing metadata (pyproject.toml): started
10:25:54 Preparing metadata (pyproject.toml): finished with status 'done'
10:25:54 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.4)
10:25:54 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.19)
10:25:54 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
10:25:54 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
10:25:54 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
10:25:54 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.4.0)
10:25:54 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.1)
10:25:54 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
10:25:54 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
10:25:54 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
10:25:54 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.3.2)
10:25:54 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.7)
10:25:54 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.7.4)
10:25:54 Building wheels for collected packages: omero-dropbox
10:25:54 Building wheel for omero-dropbox (pyproject.toml): started
10:25:54 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
10:25:54 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=dbcefb3ec1cdaa53b9ade0db13c1d301e2cdb89388e6ec64a6361e115b056934
10:25:54 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
10:25:54 Successfully built omero-dropbox
10:25:54 Installing collected packages: omero-dropbox
10:25:54 Successfully installed omero-dropbox-5.7.1.dev0
10:25:54 + for x in *.tar.gz
10:25:54 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
10:25:55 Processing ./omero_marshal-0.9.1.dev0.tar.gz
10:25:55 Installing build dependencies: started
10:25:57 Installing build dependencies: finished with status 'done'
10:25:57 Getting requirements to build wheel: started
10:25:57 Getting requirements to build wheel: finished with status 'done'
10:25:57 Preparing metadata (pyproject.toml): started
10:25:57 Preparing metadata (pyproject.toml): finished with status 'done'
10:25:57 Building wheels for collected packages: omero_marshal
10:25:57 Building wheel for omero_marshal (pyproject.toml): started
10:25:58 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
10:25:58 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=748be396b425433950980d47cca3654565d7c1aa2462360d59fee3a77f3ba611
10:25:58 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
10:25:58 Successfully built omero_marshal
10:25:58 Installing collected packages: omero_marshal
10:25:58 Successfully installed omero_marshal-0.9.1.dev0
10:25:58 + for x in *.tar.gz
10:25:58 + pip install -U omero_py-5.19.5.dev0.tar.gz
10:25:58 Processing ./omero_py-5.19.5.dev0.tar.gz
10:25:59 Installing build dependencies: started
10:26:01 Installing build dependencies: finished with status 'done'
10:26:01 Getting requirements to build wheel: started
10:26:01 Getting requirements to build wheel: finished with status 'done'
10:26:01 Preparing metadata (pyproject.toml): started
10:26:02 Preparing metadata (pyproject.toml): finished with status 'done'
10:26:02 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.19)
10:26:02 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.4.4)
10:26:02 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.0.0)
10:26:02 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.4)
10:26:02 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (10.4.0)
10:26:02 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (6.0.1)
10:26:02 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (3.6.5)
10:26:02 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.32.3)
10:26:02 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.10.1)
10:26:02 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.3.2)
10:26:02 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.7)
10:26:02 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (2024.7.4)
10:26:02 Building wheels for collected packages: omero-py
10:26:02 Building wheel for omero-py (pyproject.toml): started
10:26:03 Building wheel for omero-py (pyproject.toml): finished with status 'done'
10:26:03 Created wheel for omero-py: filename=omero_py-5.19.5.dev0-py3-none-any.whl size=2782907 sha256=c5ac63cd274730ae1ae2748f8d4add74016b1ded20cebce977cc4fcdc7570e9a
10:26:03 Stored in directory: /home/omero/.cache/pip/wheels/f8/22/3c/b4269ea2035cdd4c3f15d9990f88c807cd4a53e7b729c42a16
10:26:03 Successfully built omero-py
10:26:03 Installing collected packages: omero-py
10:26:03 Attempting uninstall: omero-py
10:26:03 Found existing installation: omero-py 5.19.4
10:26:03 Uninstalling omero-py-5.19.4:
10:26:04 Successfully uninstalled omero-py-5.19.4
10:26:06 Successfully installed omero-py-5.19.5.dev0
10:26:06 + for x in *.tar.gz
10:26:06 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
10:26:07 Processing ./omero_scripts-5.8.3.dev0.tar.gz
10:26:07 Installing build dependencies: started
10:26:09 Installing build dependencies: finished with status 'done'
10:26:09 Getting requirements to build wheel: started
10:26:09 Getting requirements to build wheel: finished with status 'done'
10:26:09 Preparing metadata (pyproject.toml): started
10:26:09 Preparing metadata (pyproject.toml): finished with status 'done'
10:26:09 Building wheels for collected packages: omero-scripts
10:26:09 Building wheel for omero-scripts (pyproject.toml): started
10:26:10 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
10:26:10 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116556 sha256=dd4d515ea41087a92d1336c63c6b59c420846c39e5d4228a5919675d147fe89f
10:26:10 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
10:26:10 Successfully built omero-scripts
10:26:10 Installing collected packages: omero-scripts
10:26:10 Successfully installed omero-scripts-5.8.3.dev0
10:26:10 + for x in *.tar.gz
10:26:10 + pip install -U omero_web-5.26.1.dev0.tar.gz
10:26:11 Processing ./omero_web-5.26.1.dev0.tar.gz
10:26:11 Installing build dependencies: started
10:26:13 Installing build dependencies: finished with status 'done'
10:26:13 Getting requirements to build wheel: started
10:26:13 Getting requirements to build wheel: finished with status 'done'
10:26:13 Preparing metadata (pyproject.toml): started
10:26:14 Preparing metadata (pyproject.toml): finished with status 'done'
10:26:14 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (5.19.5.dev0)
10:26:14 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.26.1.dev0)
10:26:14 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
10:26:14 Collecting Django<4.3,>=4.2.3 (from omero-web==5.26.1.dev0)
10:26:14 Using cached Django-4.2.14-py3-none-any.whl.metadata (4.1 kB)
10:26:14 Collecting django-pipeline==2.1.0 (from omero-web==5.26.1.dev0)
10:26:14 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
10:26:14 Collecting django-cors-headers==3.7.0 (from omero-web==5.26.1.dev0)
10:26:14 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
10:26:14 Collecting django-csp (from omero-web==5.26.1.dev0)
10:26:14 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
10:26:14 Collecting whitenoise>=5.3.0 (from omero-web==5.26.1.dev0)
10:26:14 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
10:26:14 Collecting gunicorn>=19.3 (from omero-web==5.26.1.dev0)
10:26:14 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
10:26:14 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (0.9.1.dev0)
10:26:14 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (10.4.0)
10:26:14 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2024.1)
10:26:14 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2.10.1)
10:26:14 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (24.1)
10:26:14 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
10:26:14 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
10:26:14 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
10:26:14 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
10:26:14 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.19)
10:26:14 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.4.4)
10:26:14 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.0.0)
10:26:14 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.4)
10:26:14 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (6.0.1)
10:26:14 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.6.5)
10:26:14 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (2.32.3)
10:26:14 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
10:26:14 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
10:26:14 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.3.2)
10:26:14 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.7)
10:26:14 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (2024.7.4)
10:26:14 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
10:26:14 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
10:26:14 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
10:26:14 Using cached Django-4.2.14-py3-none-any.whl (8.0 MB)
10:26:14 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
10:26:14 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
10:26:14 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
10:26:14 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
10:26:14 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
10:26:14 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
10:26:14 Building wheels for collected packages: omero-web
10:26:14 Building wheel for omero-web (pyproject.toml): started
10:26:16 Building wheel for omero-web (pyproject.toml): finished with status 'done'
10:26:16 Created wheel for omero-web: filename=omero_web-5.26.1.dev0-py3-none-any.whl size=2765303 sha256=1ca9b65813414cb52b223b240dcb0d97f5e899b78d9c557cc22f103ecd8ad4d5
10:26:16 Stored in directory: /home/omero/.cache/pip/wheels/39/0a/67/1d8a66c1c2b5dc08464077685312666fac69440af8767d0453
10:26:16 Successfully built omero-web
10:26:16 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
10:26:20 Successfully installed Django-4.2.14 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-22.0.0 omero-web-5.26.1.dev0 sqlparse-0.5.1 typing-extensions-4.12.2 whitenoise-6.7.0
10:26:20 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
10:26:20 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
10:26:20 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
10:26:20 --2024-07-25 10:26:20-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
10:26:20 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.111.133, 185.199.110.133, ...
10:26:20 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
10:26:20 HTTP request sent, awaiting response... 200 OK
10:26:20 Length: 95703 (93K) [text/plain]
10:26:20 Saving to: ‘Figure_To_Pdf.py’
10:26:20
10:26:20 0K .......... .......... .......... .......... .......... 53% 3.64M 0s
10:26:20 50K .......... .......... .......... .......... ... 100% 4.76M=0.02s
10:26:20
10:26:20 2024-07-25 10:26:20 (4.08 MB/s) - ‘Figure_To_Pdf.py’ saved [95703/95703]
10:26:20
10:26:20 + chmod 755 Figure_To_Pdf.py
10:26:20 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
10:26:20 + omero config set omero.db.name OMERO-server
10:26:23 + omero config set omero.db.host pg
10:26:25 + omero config set omero.db.user postgres
10:26:27 + omero config set omero.data.dir /home/omero/omero-server-data
10:26:29 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
10:26:31 + omero config set omero.db.poolsize 25
10:26:33 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
10:26:35 + omero config set omero.security.trustStorePassword changeit
10:26:37 + omero config set omero.mail.config true
10:26:38 + omero config set omero.mail.from qa@openmicroscopy.org.uk
10:26:40 + omero config set omero.mail.host smtp.dundee.ac.uk
10:26:42 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
10:26:44 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
10:26:46 + omero certificates
10:26:48 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
10:26:48 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
10:26:48 + '[' false = true ']'
10:26:48 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
10:26:48 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
10:26:48 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG dbcommand => upgrade
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG dbhost => localhost
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG dbname => OMERO-server
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG dbpass => omero
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG dbuser => omero
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG rootpass => omero
10:26:48 2024-07-25 10:26:48,812 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
10:26:48 2024-07-25 10:26:48,812 [omego.extern] INFO Executing : omero version
10:26:50 OMERO.py version:
10:26:50 OMERO.server version:
10:26:50 5.6.3-487-8d06c82248-ice36
10:26:50 5.19.5.dev0
10:26:50 2024-07-25 10:26:50,840 [omego.extern] INFO Completed [2.028 s]
10:26:50 2024-07-25 10:26:50,841 [omego.extern] DEBUG Using omero CLI from omero
10:26:50 2024-07-25 10:26:50,841 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
10:26:50 2024-07-25 10:26:50,841 [omego.extern] INFO Running [current environment]: omero config get --show-password
10:26:50 2024-07-25 10:26:50,841 [omego.extern] INFO Executing : omero config get --show-password
10:26:52 2024-07-25 10:26:52,627 [omego.extern] INFO Completed [1.786 s]
10:26:52 2024-07-25 10:26:52,627 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
10:26:52 2024-07-25 10:26:52,628 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
10:26:52 2024-07-25 10:26:52,634 [omego.extern] INFO Completed [0.007 s]
10:26:52 2024-07-25 10:26:52,635 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
10:26:52 2024-07-25 10:26:52,635 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
10:26:52
10:26:52 2024-07-25 10:26:52,635 [omego.extern] INFO Running [current environment]: omero config get --show-password
10:26:52 2024-07-25 10:26:52,635 [omego.extern] INFO Executing : omero config get --show-password
10:26:54 2024-07-25 10:26:54,341 [omego.extern] INFO Completed [1.706 s]
10:26:54 2024-07-25 10:26:54,342 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
10:26:54 2024-07-25 10:26:54,342 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
10:26:54 2024-07-25 10:26:54,354 [omego.extern] INFO Completed [0.012 s]
10:26:54 2024-07-25 10:26:54,354 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.4") at port "5432".\n'
10:26:54 2024-07-25 10:26:54,354 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
10:26:54 2024-07-25 10:26:54,354 [omego.extern] INFO Running [current environment]: omero config get --show-password
10:26:54 2024-07-25 10:26:54,354 [omego.extern] INFO Executing : omero config get --show-password
10:26:56 2024-07-25 10:26:56,374 [omego.extern] INFO Completed [2.020 s]
10:26:56 2024-07-25 10:26:56,374 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
10:26:56 2024-07-25 10:26:56,375 [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
10:26:56 2024-07-25 10:26:56,389 [omego.extern] INFO Completed [0.014 s]
10:26:56 2024-07-25 10:26:56,389 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
10:26:56 2024-07-25 10:26:56,389 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
10:26:56 2024-07-25 10:26:56,392 [ omego.db] INFO Database is already at OMERO5.4__0
10:26:56 + export LANG=en_US.UTF-8
10:26:56 + LANG=en_US.UTF-8
10:26:56 + export LANGUAGE=en_US:en
10:26:56 + LANGUAGE=en_US:en
10:26:56 + export LC_ALL=en_US.UTF-8
10:26:56 + LC_ALL=en_US.UTF-8
10:26:56 + BUILD_ID=DONT_KILL_ME
10:26:56 + omero admin start
10:27:08 No descriptor given. Using etc/grid/default.xml
10:27:19 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
10:27:19 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
10:27:19 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
10:27:19 Waiting on startup. Use CTRL-C to exit
10:27:19 + omero admin waitup
10:27:21 Waiting on startup. Use CTRL-C to exit
10:27:21 + omero admin diagnostics
10:27:23
10:27:23 ================================================================================
10:27:23 OMERO Diagnostics (admin)
10:27:23 ================================================================================
10:27:23
10:27:23 Commands: java -version 11.0.22 (/usr/bin/java)
10:27:23 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
10:27:23 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
10:27:23 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
10:27:23 Commands: psql --version 16.2 (/usr/bin/psql)
10:27:23 Commands: openssl version 3.0.71 (/usr/bin/openssl)
10:27:23
10:27:23 Component: OMERO.py 5.19.5.dev0
10:27:23 Component: OMERO.server 5.6.3-487-8d06c82248-ice36
10:27:23
10:27:23 Server: icegridnode running
10:27:23 Server: Blitz-0 active (pid = 80033, enabled)
10:27:23 Server: Indexer-0 activating (enabled)
10:27:23 Server: OMERO.Glacier2 active (pid = 80060, enabled)
10:27:23 Server: OMERO.IceStorm active (pid = 80076, enabled)
10:27:23 Server: Processor-0 active (pid = 80087, enabled)
10:27:23 Server: Tables-0 active (pid = 80103, enabled)
10:27:23
10:27:23 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
10:27:23 Log files: Blitz-0.log 30.5 KB errors=0 warnings=1
10:27:23 Log files: DropBox.log n/a
10:27:23 Log files: FileServer.log n/a
10:27:23 Log files: Indexer-0.log 598 B
10:27:23 Log files: MonitorServer.log n/a
10:27:23 Log files: Processor-0.log 735 B
10:27:23 Log files: Tables-0.log 961 B
10:27:23 Log files: TestDropBox.log n/a
10:27:23 Log files: master.err 180 B
10:27:23 Log files: master.out 30.1 KB
10:27:23 Log files: Total size 0.06 MB
10:27:23
10:27:23
10:27:23 Environment:OMERO_HOME=(unset)
10:27:23 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:27:23 Environment:OMERO_NODE=(unset)
10:27:23 Environment:OMERO_MASTER=(unset)
10:27:23 Environment:OMERO_USERDIR=(unset)
10:27:23 Environment:OMERO_TMPDIR=(unset)
10:27:23 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
10:27:23 Environment:PYTHONPATH=(unset)
10:27:23 Environment:ICE_HOME=/opt/ice-3.6.5
10:27:23 Environment:LD_LIBRARY_PATH=(unset)
10:27:23 Environment:DYLD_LIBRARY_PATH=(unset)
10:27:23
10:27:23 OMERO SSL port:4064
10:27:23 OMERO TCP port:4063
10:27:23 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
10:27:23 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
10:27:23
10:27:23 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:27:23 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:27:23 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:27:23 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:27:23
10:27:23 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 25 July 2024 c9a365593b1efefce55875ef30cf05eefafa7c8e
10:27:23 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 25 July 2024 c9a365593b1efefce55875ef30cf05eefafa7c8e
10:27:23 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 25 July 2024 c9a365593b1efefce55875ef30cf05eefafa7c8e
10:27:23 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 25 July 2024 666c6f7aa0105a3b6d75b1a9206270e89db49823
10:27:23 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 25 July 2024 666c6f7aa0105a3b6d75b1a9206270e89db49823
10:27:23 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 25 July 2024 666c6f7aa0105a3b6d75b1a9206270e89db49823
10:27:23 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 25 July 2024 666c6f7aa0105a3b6d75b1a9206270e89db49823
10:27:23 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 25 July 2024 666c6f7aa0105a3b6d75b1a9206270e89db49823
10:27:23 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 25 July 2024 666c6f7aa0105a3b6d75b1a9206270e89db49823
10:27:23 Jar: lib/server/omero-blitz.jar jar 5.7.4-SNAPSHOT
10:27:23 Jar: lib/server/omero-common.jar jar 5.6.7-SNAPSHOT
10:27:23 Jar: lib/server/omero-gateway.jar jar 5.9.2-SNAPSHOT
10:27:23 Jar: lib/server/omero-model.jar jar 5.6.15-SNAPSHOT
10:27:23 Jar: lib/server/omero-renderer.jar jar 5.5.17-SNAPSHOT
10:27:23 Jar: lib/server/omero-romio.jar jar 5.7.7-SNAPSHOT
10:27:23 Jar: lib/server/omero-server.jar jar 5.6.12-SNAPSHOT
10:27:24 + deactivate
10:27:24 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
10:27:24 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:27:24 + export PATH
10:27:24 + unset _OLD_VIRTUAL_PATH
10:27:24 + '[' -n '' ']'
10:27:24 + '[' -n /bin/bash -o -n '' ']'
10:27:24 + hash -r
10:27:24 + '[' -n '' ']'
10:27:24 + unset VIRTUAL_ENV
10:27:24 + '[' '!' '' = nondestructive ']'
10:27:24 + unset -f deactivate
10:27:24 Finished: SUCCESS
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