00:46:30 Started by upstream project "Trigger" build number 192
00:46:30 originally caused by:
00:46:30 Started by timer
00:46:30 Running as SYSTEM
00:46:30 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:46:30 [OMERO-server] $ /bin/bash -xe /tmp/jenkins8483908443586000502.sh
00:46:30 + source /home/settings.env
00:46:30 ++ OMERO_DB_HOST=pg
00:46:30 ++ OMERO_DB_USER=postgres
00:46:30 ++ OMERO_DB_PASS=
00:46:30 ++ OMERO_ROOT_PASS=omero
00:46:30 ++ OMERO_DATA_DIR=/OMERO
00:46:30 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:46:30 + OMERO_DB_NAME=OMERO-server
00:46:30 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:46:30 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:30 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:30 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:46:30 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:46:30 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:46:30 ++ deactivate nondestructive
00:46:30 ++ '[' -n '' ']'
00:46:30 ++ '[' -n '' ']'
00:46:30 ++ '[' -n /bin/bash -o -n '' ']'
00:46:30 ++ hash -r
00:46:30 ++ '[' -n '' ']'
00:46:30 ++ unset VIRTUAL_ENV
00:46:30 ++ '[' '!' nondestructive = nondestructive ']'
00:46:30 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:46:30 ++ export VIRTUAL_ENV
00:46:30 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:30 ++ 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
00:46:30 ++ export PATH
00:46:30 ++ '[' -n '' ']'
00:46:30 ++ '[' -z '' ']'
00:46:30 ++ _OLD_VIRTUAL_PS1=
00:46:30 ++ PS1='(.venv3) '
00:46:30 ++ export PS1
00:46:30 ++ '[' -n /bin/bash -o -n '' ']'
00:46:30 ++ hash -r
00:46:30 + omero admin stop
00:46:38 Waiting on shutdown. Use CTRL-C to exit
00:46:38 .+ sleep 5
00:46:54 + deactivate
00:46:54 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:46:54 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:54 + export PATH
00:46:54 + unset _OLD_VIRTUAL_PATH
00:46:54 + '[' -n '' ']'
00:46:54 + '[' -n /bin/bash -o -n '' ']'
00:46:54 + hash -r
00:46:54 + '[' -n '' ']'
00:46:54 + unset VIRTUAL_ENV
00:46:54 + '[' '!' '' = nondestructive ']'
00:46:54 + unset -f deactivate
00:46:54 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:46:54 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:46:59 + '[' false = true ']'
00:46:59 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:46:59 Skipping PURGE_DATA:CleanDbAndRepo
00:46:59 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.5-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-5.8.4.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.27.2.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:47:02 Copied 1 artifact from "OMERO-build" build number 162
00:47:02 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 160
00:47:02 Copied 2 artifacts from "OMERO-build-build" build number 167
00:47:02 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12724713374866118197.sh
00:47:02 + source /home/settings.env
00:47:02 ++ OMERO_DB_HOST=pg
00:47:02 ++ OMERO_DB_USER=postgres
00:47:02 ++ OMERO_DB_PASS=
00:47:02 ++ OMERO_ROOT_PASS=omero
00:47:02 ++ OMERO_DATA_DIR=/OMERO
00:47:02 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:47:02 + OMERO_DB_NAME=OMERO-server
00:47:02 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:47:02 + mkdir -p /home/omero/omero-server-data
00:47:02 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:47:02 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:47:02 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:47:02 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:47:02 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:47:02 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:47:02 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:47:02 ++ ls OMERO.server-5.6.3-500-f70f946b98-ice36.zip
00:47:02 + ZIP=OMERO.server-5.6.3-500-f70f946b98-ice36.zip
00:47:02 + '[' '!' -z '' ']'
00:47:02 + DIST=OMERO.server-5.6.3-500-f70f946b98-ice36
00:47:02 + unzip OMERO.server-5.6.3-500-f70f946b98-ice36.zip
00:47:02 Archive: OMERO.server-5.6.3-500-f70f946b98-ice36.zip
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/blitz/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/grid/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/profiles/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/error/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/grid/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/luts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/luts/janelia/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/luts/ncsa_paledit/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/luts/wcif/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/analysis_scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/annotation_scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/export_scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/figure_scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/import_scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/scripts/omero/util_scripts/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/server/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/share/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/share/licenses/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/misc/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__1/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__10/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__11/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__2/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__3/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__4/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__5/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__6/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__7/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__8/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3A__9/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3__4/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3__5/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3__6/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO3__7/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO4.1__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO4.2__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO4.2__0/t/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO4.3__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO4.4__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO4__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.0__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.1__1/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.2__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.3__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.4DEV__1/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.4DEV__2/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.4DEV__3/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/sql/psql/OMERO5.4__0/
00:47:02 creating: OMERO.server-5.6.3-500-f70f946b98-ice36/var/
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/LICENSE.txt
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/backup.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/blitz/mail-senders.example
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/blitz/mail-server.example
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/build.properties
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/env.bat
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/env.sh
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/hibernate.properties
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/ice.config
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/logback-cli.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/logback-indexing-cli.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/logback-indexing.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/logback.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/mime.types
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/node1.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/node2.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/omero.properties
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/profiles/psql
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/rollover.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/Windows.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/error/maintainance.html
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/grid/README
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/grid/default.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/grid/templates.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/grid/windefault.xml
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/ice.config
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/internal.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/master.cfg
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/templates/robot.template
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/etc/testdropbox.config
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/history.rst
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/OMEZarrReader.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/activation.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/aggdesigner-algorithm.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/aircompressor.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/annotations.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/antlr.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/aopalliance.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/avatica-core.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/avatica-metrics.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/aws-java-sdk-core.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/aws-java-sdk-kms.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/aws-java-sdk-s3.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/base.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-all.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-anim.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-awt-util.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-bridge.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-codec.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-constants.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-css.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-dom.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-ext.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-extension.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-gui-util.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-gvt.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-i18n.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-parser.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-rasterizer-ext.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-rasterizer.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-script.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-slideshow.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-squiggle-ext.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-squiggle.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-svg-dom.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-svgbrowser.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-svggen.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-svgpp.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-svgrasterizer.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-swing.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-transcoder.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-ttf2svg.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-util.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/batik-xml.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/btm.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/bufr.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/c3p0.jar
00:47:02 inflating: OMERO.server-5.6.3-500-f70f946b98-ice36/lib/client/calcite-core.jar
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00:47:05 + rm -f OMERO.server-5.6.3-500-f70f946b98-ice36.zip
00:47:05 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-500-f70f946b98-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:47:05 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:47:05 ++ deactivate nondestructive
00:47:05 ++ '[' -n '' ']'
00:47:05 ++ '[' -n '' ']'
00:47:05 ++ '[' -n /bin/bash -o -n '' ']'
00:47:05 ++ hash -r
00:47:05 ++ '[' -n '' ']'
00:47:05 ++ unset VIRTUAL_ENV
00:47:05 ++ '[' '!' nondestructive = nondestructive ']'
00:47:05 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:47:05 ++ export VIRTUAL_ENV
00:47:05 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:47:05 ++ 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
00:47:05 ++ export PATH
00:47:05 ++ '[' -n '' ']'
00:47:05 ++ '[' -z '' ']'
00:47:05 ++ _OLD_VIRTUAL_PS1=
00:47:05 ++ PS1='(.venv3) '
00:47:05 ++ export PS1
00:47:05 ++ '[' -n /bin/bash -o -n '' ']'
00:47:05 ++ hash -r
00:47:05 + 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
00:47:05 Collecting zeroc-ice==3.6.5
00:47:06 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)
00:47:07 Installing collected packages: zeroc-ice
00:47:08 Successfully installed zeroc-ice-3.6.5
00:47:08 + pip install -U pip future
00:47:08 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:47:09 Collecting pip
00:47:09 Using cached pip-24.2-py3-none-any.whl (1.8 MB)
00:47:09 Collecting future
00:47:09 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:47:09 Installing collected packages: pip, future
00:47:09 Attempting uninstall: pip
00:47:09 Found existing installation: pip 21.2.3
00:47:09 Uninstalling pip-21.2.3:
00:47:09 Successfully uninstalled pip-21.2.3
00:47:11 Successfully installed future-1.0.0 pip-24.2
00:47:11 + pip install markdown
00:47:12 Collecting markdown
00:47:12 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
00:47:12 Collecting importlib-metadata>=4.4 (from markdown)
00:47:12 Using cached importlib_metadata-8.4.0-py3-none-any.whl.metadata (4.7 kB)
00:47:12 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
00:47:12 Using cached zipp-3.20.1-py3-none-any.whl.metadata (3.7 kB)
00:47:12 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
00:47:12 Using cached importlib_metadata-8.4.0-py3-none-any.whl (26 kB)
00:47:12 Using cached zipp-3.20.1-py3-none-any.whl (9.0 kB)
00:47:12 Installing collected packages: zipp, importlib-metadata, markdown
00:47:12 Successfully installed importlib-metadata-8.4.0 markdown-3.7 zipp-3.20.1
00:47:12 + pip install reportlab
00:47:13 Collecting reportlab
00:47:13 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
00:47:13 Collecting pillow>=9.0.0 (from reportlab)
00:47:13 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
00:47:13 Collecting chardet (from reportlab)
00:47:13 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:47:13 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
00:47:14 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
00:47:14 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:47:14 Installing collected packages: pillow, chardet, reportlab
00:47:16 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
00:47:16 + pip install omego
00:47:17 Collecting omego
00:47:17 Using cached omego-0.7.0-py3-none-any.whl
00:47:17 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:47:17 Collecting yaclifw>=0.1.1 (from omego)
00:47:17 Using cached yaclifw-0.2.0-py3-none-any.whl
00:47:17 Collecting six (from yaclifw>=0.1.1->omego)
00:47:17 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:47:17 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:47:17 Installing collected packages: six, yaclifw, omego
00:47:17 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:47:17 + pip install tables
00:47:18 Collecting tables
00:47:18 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:47:18 Collecting numpy>=1.19.0 (from tables)
00:47:18 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
00:47:19 Collecting numexpr>=2.6.2 (from tables)
00:47:19 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
00:47:19 Collecting packaging (from tables)
00:47:19 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
00:47:19 Collecting py-cpuinfo (from tables)
00:47:19 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:47:19 Collecting blosc2>=2.3.0 (from tables)
00:47:19 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:47:19 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:47:19 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:47:19 Collecting msgpack (from blosc2>=2.3.0->tables)
00:47:19 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
00:47:19 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:47:19 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:47:19 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
00:47:19 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
00:47:20 Using cached packaging-24.1-py3-none-any.whl (53 kB)
00:47:20 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:47:20 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:47:20 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
00:47:20 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:47:25 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.1 numpy-2.0.2 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
00:47:25 + pip install jinja2
00:47:26 Collecting jinja2
00:47:26 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
00:47:26 Collecting MarkupSafe>=2.0 (from jinja2)
00:47:26 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
00:47:26 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
00:47:26 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
00:47:26 Installing collected packages: MarkupSafe, jinja2
00:47:26 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
00:47:26 + pip install omero-py
00:47:27 Collecting omero-py
00:47:27 Using cached omero_py-5.19.4-py3-none-any.whl.metadata (6.3 kB)
00:47:27 Collecting urllib3<2 (from omero-py)
00:47:27 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:47:27 Collecting appdirs (from omero-py)
00:47:27 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:47:27 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:47:28 Collecting numpy<2 (from omero-py)
00:47:28 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:47:28 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
00:47:28 Collecting PyYAML (from omero-py)
00:47:28 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:47:28 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:47:30 Collecting requests (from omero-py)
00:47:30 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:47:30 Collecting portalocker (from omero-py)
00:47:30 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
00:47:30 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:47:30 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:47:30 Collecting idna<4,>=2.5 (from requests->omero-py)
00:47:30 Using cached idna-3.8-py3-none-any.whl.metadata (9.9 kB)
00:47:31 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:47:31 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
00:47:31 Using cached omero_py-5.19.4-py3-none-any.whl (2.8 MB)
00:47:31 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:47:31 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:47:31 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:47:31 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
00:47:31 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
00:47:31 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:47:31 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
00:47:31 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:47:31 Using cached idna-3.8-py3-none-any.whl (66 kB)
00:47:31 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
00:47:31 Attempting uninstall: numpy
00:47:31 Found existing installation: numpy 2.0.2
00:47:31 Uninstalling numpy-2.0.2:
00:47:31 Successfully uninstalled numpy-2.0.2
00:47:38 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.8.30 charset-normalizer-3.3.2 idna-3.8 numpy-1.26.4 omero-py-5.19.4 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.20
00:47:38 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:47:38 Collecting omero-metadata
00:47:38 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-8_z8c2pc/omero-metadata_194c173cdb994a9fa1669075c9ae44f0
00:47:38 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-8_z8c2pc/omero-metadata_194c173cdb994a9fa1669075c9ae44f0
00:47:39 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 9856efdd5319a775c947c4bd7c7ea0bee36b5543
00:47:39 Installing build dependencies: started
00:47:42 Installing build dependencies: finished with status 'done'
00:47:42 Getting requirements to build wheel: started
00:47:42 Getting requirements to build wheel: finished with status 'done'
00:47:42 Preparing metadata (pyproject.toml): started
00:47:43 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:43 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.4)
00:47:43 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
00:47:43 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
00:47:43 Collecting pandas (from omero-metadata)
00:47:43 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:47:43 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:47:43 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:47:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:47:43 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:47:43 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)
00:47:43 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)
00:47:43 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
00:47:43 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
00:47:43 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:47:43 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:47:43 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:47:43 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:47:43 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
00:47:43 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:47:43 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:47:43 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)
00:47:43 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)
00:47:43 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.8)
00:47:43 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.8.30)
00:47:43 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:47:44 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:47:44 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
00:47:44 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:47:44 Building wheels for collected packages: omero-metadata
00:47:44 Building wheel for omero-metadata (pyproject.toml): started
00:47:44 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:47:44 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39188 sha256=313e63d5e26b7faab496b4aec1664ccf78663c327322c8b2fba6ab6f9bf135ae
00:47:44 Stored in directory: /tmp/pip-ephem-wheel-cache-fzthwk0k/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:47:44 Successfully built omero-metadata
00:47:44 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:47:52 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
00:47:52 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:47:53 Collecting omero-cli-render
00:47:53 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-0evv39su/omero-cli-render_f863223d5d7143db92d509f3422c36cf
00:47:53 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-0evv39su/omero-cli-render_f863223d5d7143db92d509f3422c36cf
00:47:53 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:54 Switched to a new branch 'merge_ci'
00:47:54 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:54 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 67196725c28bdd0dc2cf84614101523e2bb5381d
00:47:54 Installing build dependencies: started
00:47:56 Installing build dependencies: finished with status 'done'
00:47:56 Getting requirements to build wheel: started
00:47:56 Getting requirements to build wheel: finished with status 'done'
00:47:56 Preparing metadata (pyproject.toml): started
00:47:57 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:57 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
00:47:57 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.4)
00:47:57 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:47:57 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:47:57 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:47:57 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:47:57 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)
00:47:57 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)
00:47:57 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
00:47:57 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
00:47:57 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)
00:47:57 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.8)
00:47:57 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.8.30)
00:47:57 Building wheels for collected packages: omero-cli-render
00:47:57 Building wheel for omero-cli-render (pyproject.toml): started
00:47:57 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:47:57 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18032 sha256=6fbc853d700f4cb4568b2193c836f8359014e7b33cc1d135a3498a0ace00a006
00:47:57 Stored in directory: /tmp/pip-ephem-wheel-cache-gjo9vg9i/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:47:57 Successfully built omero-cli-render
00:47:57 Installing collected packages: omero-cli-render
00:47:57 Successfully installed omero-cli-render-0.8.2.dev0
00:47:57 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:47:58 Collecting omero-cli-duplicate
00:47:58 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-s8z6if3x/omero-cli-duplicate_5ca3f0722a05430fbdfbc6a0906c5b79
00:47:58 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-s8z6if3x/omero-cli-duplicate_5ca3f0722a05430fbdfbc6a0906c5b79
00:47:59 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:59 Switched to a new branch 'merge_ci'
00:47:59 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:59 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 88c62853bbc7726f8f3f53cab5699242bb1984f9
00:47:59 Installing build dependencies: started
00:48:01 Installing build dependencies: finished with status 'done'
00:48:01 Getting requirements to build wheel: started
00:48:01 Getting requirements to build wheel: finished with status 'done'
00:48:01 Preparing metadata (pyproject.toml): started
00:48:02 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:02 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.4)
00:48:02 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:48:02 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:48:02 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:48:02 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:48:02 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)
00:48:02 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:48:02 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)
00:48:02 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
00:48:02 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
00:48:02 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)
00:48:02 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.8)
00:48:02 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.8.30)
00:48:02 Building wheels for collected packages: omero-cli-duplicate
00:48:02 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:48:02 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:48:02 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=ceff8a8e9728bb23674ec54b0eb760a8a088e226e9d8e852c439dcdeccf82ab5
00:48:02 Stored in directory: /tmp/pip-ephem-wheel-cache-w04poki1/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:48:02 Successfully built omero-cli-duplicate
00:48:02 Installing collected packages: omero-cli-duplicate
00:48:02 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:48:03 + pip install omero-certificates
00:48:03 Collecting omero-certificates
00:48:03 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:48:03 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.4)
00:48:03 Collecting distro==1.8.0 (from omero-certificates)
00:48:03 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:48:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:48:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:48:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:48:03 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:48:03 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)
00:48:03 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:48:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:48:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
00:48:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
00:48:04 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)
00:48:04 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.8)
00:48:04 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.8.30)
00:48:04 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:48:04 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:48:04 Installing collected packages: distro, omero-certificates
00:48:05 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:48:05 + for x in *.tar.gz
00:48:05 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:48:05 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:48:05 Installing build dependencies: started
00:48:09 Installing build dependencies: finished with status 'done'
00:48:09 Getting requirements to build wheel: started
00:48:09 Getting requirements to build wheel: finished with status 'done'
00:48:09 Preparing metadata (pyproject.toml): started
00:48:09 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:09 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.4)
00:48:09 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:48:09 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:48:09 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:48:09 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
00:48:09 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)
00:48:09 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:48:09 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)
00:48:09 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
00:48:09 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
00:48:09 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)
00:48:09 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.8)
00:48:09 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.8.30)
00:48:09 Building wheels for collected packages: omero-dropbox
00:48:09 Building wheel for omero-dropbox (pyproject.toml): started
00:48:10 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:48:10 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=1a60326c776b0b67c3b65c24e5b9dc0a460debd076452b16ff2efd21dcc48476
00:48:10 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
00:48:10 Successfully built omero-dropbox
00:48:10 Installing collected packages: omero-dropbox
00:48:10 Successfully installed omero-dropbox-5.7.1.dev0
00:48:11 + for x in *.tar.gz
00:48:11 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:48:11 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:48:11 Installing build dependencies: started
00:48:15 Installing build dependencies: finished with status 'done'
00:48:15 Getting requirements to build wheel: started
00:48:15 Getting requirements to build wheel: finished with status 'done'
00:48:15 Preparing metadata (pyproject.toml): started
00:48:16 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:16 Building wheels for collected packages: omero_marshal
00:48:16 Building wheel for omero_marshal (pyproject.toml): started
00:48:17 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:48:17 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88029 sha256=1169c4d20706dc44f41b58abc4e05f26186f816f22f1651b2e317e63b19e1720
00:48:17 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:48:17 Successfully built omero_marshal
00:48:17 Installing collected packages: omero_marshal
00:48:17 Successfully installed omero_marshal-0.9.1.dev0
00:48:17 + for x in *.tar.gz
00:48:17 + pip install -U omero_py-5.19.5.dev0.tar.gz
00:48:18 Processing ./omero_py-5.19.5.dev0.tar.gz
00:48:18 Installing build dependencies: started
00:48:21 Installing build dependencies: finished with status 'done'
00:48:21 Getting requirements to build wheel: started
00:48:21 Getting requirements to build wheel: finished with status 'done'
00:48:21 Preparing metadata (pyproject.toml): started
00:48:22 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:22 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.20)
00:48:22 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.4.4)
00:48:22 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.0.0)
00:48:22 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.4)
00:48:22 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (10.4.0)
00:48:22 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (6.0.2)
00:48:22 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)
00:48:22 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.32.3)
00:48:22 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.10.1)
00:48:22 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)
00:48:22 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.8)
00:48:22 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (2024.8.30)
00:48:22 Building wheels for collected packages: omero-py
00:48:22 Building wheel for omero-py (pyproject.toml): started
00:48:23 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:48:23 Created wheel for omero-py: filename=omero_py-5.19.5.dev0-py3-none-any.whl size=2782856 sha256=9fff5a4eda1be801ff309b4895e74f15ddf4baaddfa02d3a2dfc3b5b38e9d820
00:48:23 Stored in directory: /home/omero/.cache/pip/wheels/f8/22/3c/b4269ea2035cdd4c3f15d9990f88c807cd4a53e7b729c42a16
00:48:23 Successfully built omero-py
00:48:24 Installing collected packages: omero-py
00:48:24 Attempting uninstall: omero-py
00:48:24 Found existing installation: omero-py 5.19.4
00:48:24 Uninstalling omero-py-5.19.4:
00:48:24 Successfully uninstalled omero-py-5.19.4
00:48:27 Successfully installed omero-py-5.19.5.dev0
00:48:27 + for x in *.tar.gz
00:48:27 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
00:48:28 Processing ./omero_scripts-5.8.4.dev0.tar.gz
00:48:28 Installing build dependencies: started
00:48:30 Installing build dependencies: finished with status 'done'
00:48:30 Getting requirements to build wheel: started
00:48:31 Getting requirements to build wheel: finished with status 'done'
00:48:31 Preparing metadata (pyproject.toml): started
00:48:31 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:31 Building wheels for collected packages: omero-scripts
00:48:31 Building wheel for omero-scripts (pyproject.toml): started
00:48:31 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:48:31 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116558 sha256=7e01b0380f37dcc70917d2d5080c5a4b343afb33e061d96b7e04b486c68bd3ea
00:48:31 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
00:48:31 Successfully built omero-scripts
00:48:32 Installing collected packages: omero-scripts
00:48:32 Successfully installed omero-scripts-5.8.4.dev0
00:48:32 + for x in *.tar.gz
00:48:32 + pip install -U omero_web-5.27.2.dev0.tar.gz
00:48:32 Processing ./omero_web-5.27.2.dev0.tar.gz
00:48:33 Installing build dependencies: started
00:48:35 Installing build dependencies: finished with status 'done'
00:48:35 Getting requirements to build wheel: started
00:48:35 Getting requirements to build wheel: finished with status 'done'
00:48:35 Preparing metadata (pyproject.toml): started
00:48:35 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:35 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.2.dev0) (5.19.5.dev0)
00:48:36 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.2.dev0)
00:48:36 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:48:36 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.2.dev0)
00:48:36 Using cached Django-4.2.15-py3-none-any.whl.metadata (4.1 kB)
00:48:36 Collecting django-pipeline==2.1.0 (from omero-web==5.27.2.dev0)
00:48:36 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:48:36 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.2.dev0)
00:48:36 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:48:36 Collecting django-csp (from omero-web==5.27.2.dev0)
00:48:36 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:48:36 Collecting whitenoise>=5.3.0 (from omero-web==5.27.2.dev0)
00:48:36 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
00:48:37 Collecting gunicorn>=19.3 (from omero-web==5.27.2.dev0)
00:48:37 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:48:37 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.2.dev0) (0.9.1.dev0)
00:48:37 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.2.dev0) (10.4.0)
00:48:37 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.2.dev0) (2024.1)
00:48:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.2.dev0) (2.10.1)
00:48:37 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.2.dev0) (24.1)
00:48:37 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.2.dev0)
00:48:37 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:48:37 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.2.dev0)
00:48:37 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
00:48:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.2.dev0) (1.26.20)
00:48:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.2.dev0) (1.4.4)
00:48:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.2.dev0) (1.0.0)
00:48:37 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.2.dev0) (1.26.4)
00:48:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.2.dev0) (6.0.2)
00:48:37 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==5.27.2.dev0) (3.6.5)
00:48:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.2.dev0) (2.32.3)
00:48:37 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.2.dev0)
00:48:37 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
00:48:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.2.dev0) (3.3.2)
00:48:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.2.dev0) (3.8)
00:48:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.2.dev0) (2024.8.30)
00:48:37 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:48:37 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:48:37 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:48:37 Using cached Django-4.2.15-py3-none-any.whl (8.0 MB)
00:48:37 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:48:37 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
00:48:37 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:48:37 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:48:37 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
00:48:37 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
00:48:38 Building wheels for collected packages: omero-web
00:48:38 Building wheel for omero-web (pyproject.toml): started
00:48:39 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:48:39 Created wheel for omero-web: filename=omero_web-5.27.2.dev0-py3-none-any.whl size=2766596 sha256=7af9e1fad8fafe2cfa79ed23ff7f477c1cedb932c9c5b1f468f4732126072798
00:48:39 Stored in directory: /home/omero/.cache/pip/wheels/53/93/5a/c866f999be09594020559a403f4e4c537245520a409e5e11b1
00:48:39 Successfully built omero-web
00:48:39 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:48:42 Successfully installed Django-4.2.15 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-23.0.0 omero-web-5.27.2.dev0 sqlparse-0.5.1 typing-extensions-4.12.2 whitenoise-6.7.0
00:48:42 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:48:42 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:48:42 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:48:42 --2024-09-01 00:48:42-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:48:42 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.109.133, 185.199.108.133, ...
00:48:42 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
00:48:43 HTTP request sent, awaiting response... 200 OK
00:48:43 Length: 95606 (93K) [text/plain]
00:48:43 Saving to: ‘Figure_To_Pdf.py’
00:48:43
00:48:43 0K .......... .......... .......... .......... .......... 53% 2.30M 0s
00:48:43 50K .......... .......... .......... .......... ... 100% 18.9M=0.02s
00:48:43
00:48:43 2024-09-01 00:48:43 (3.88 MB/s) - ‘Figure_To_Pdf.py’ saved [95606/95606]
00:48:43
00:48:43 + chmod 755 Figure_To_Pdf.py
00:48:43 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:48:43 + omero config set omero.db.name OMERO-server
00:48:44 + omero config set omero.db.host pg
00:48:46 + omero config set omero.db.user postgres
00:48:48 + omero config set omero.data.dir /home/omero/omero-server-data
00:48:49 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:48:51 + omero config set omero.db.poolsize 25
00:48:53 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:48:54 + omero config set omero.security.trustStorePassword changeit
00:48:56 + omero config set omero.mail.config true
00:48:58 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:48:59 + omero config set omero.mail.host smtp.dundee.ac.uk
00:49:01 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:49:03 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:49:05 + omero certificates
00:49:06 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:49:06 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:49:07 + '[' false = true ']'
00:49:07 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:49:07 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:49:07 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:49:07 2024-09-01 00:49:07,376 [ omego.db] DEBUG dbcommand => upgrade
00:49:07 2024-09-01 00:49:07,377 [ omego.db] DEBUG dbhost => localhost
00:49:07 2024-09-01 00:49:07,377 [ omego.db] DEBUG dbname => OMERO-server
00:49:07 2024-09-01 00:49:07,377 [ omego.db] DEBUG dbpass => omero
00:49:07 2024-09-01 00:49:07,377 [ omego.db] DEBUG dbuser => omero
00:49:07 2024-09-01 00:49:07,377 [ omego.db] DEBUG rootpass => omero
00:49:07 2024-09-01 00:49:07,377 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:49:07 2024-09-01 00:49:07,377 [omego.extern] INFO Executing : omero version
00:49:08 OMERO.py version:
00:49:08 OMERO.server version:
00:49:08 5.6.3-500-f70f946b98-ice36
00:49:08 5.19.5.dev0
00:49:09 2024-09-01 00:49:09,177 [omego.extern] INFO Completed [1.800 s]
00:49:09 2024-09-01 00:49:09,177 [omego.extern] DEBUG Using omero CLI from omero
00:49:09 2024-09-01 00:49:09,177 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:49:09 2024-09-01 00:49:09,177 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:49:09 2024-09-01 00:49:09,177 [omego.extern] INFO Executing : omero config get --show-password
00:49:10 2024-09-01 00:49:10,872 [omego.extern] INFO Completed [1.695 s]
00:49:10 2024-09-01 00:49:10,873 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:49:10 2024-09-01 00:49:10,873 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:49:11 2024-09-01 00:49:11,241 [omego.extern] INFO Completed [0.368 s]
00:49:11 2024-09-01 00:49:11,242 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:49:11 2024-09-01 00:49:11,242 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:49:11
00:49:11 2024-09-01 00:49:11,242 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:49:11 2024-09-01 00:49:11,242 [omego.extern] INFO Executing : omero config get --show-password
00:49:13 2024-09-01 00:49:13,110 [omego.extern] INFO Completed [1.868 s]
00:49:13 2024-09-01 00:49:13,111 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:49:13 2024-09-01 00:49:13,111 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:49:13 2024-09-01 00:49:13,253 [omego.extern] INFO Completed [0.141 s]
00:49:13 2024-09-01 00:49:13,253 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.2") at port "5432".\n'
00:49:13 2024-09-01 00:49:13,253 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:49:13 2024-09-01 00:49:13,253 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:49:13 2024-09-01 00:49:13,253 [omego.extern] INFO Executing : omero config get --show-password
00:49:15 2024-09-01 00:49:15,070 [omego.extern] INFO Completed [1.817 s]
00:49:15 2024-09-01 00:49:15,071 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:49:15 2024-09-01 00:49:15,071 [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
00:49:15 2024-09-01 00:49:15,202 [omego.extern] INFO Completed [0.131 s]
00:49:15 2024-09-01 00:49:15,202 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:49:15 2024-09-01 00:49:15,202 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:49:15 2024-09-01 00:49:15,205 [ omego.db] INFO Database is already at OMERO5.4__0
00:49:15 + export LANG=en_US.UTF-8
00:49:15 + LANG=en_US.UTF-8
00:49:15 + export LANGUAGE=en_US:en
00:49:15 + LANGUAGE=en_US:en
00:49:15 + export LC_ALL=en_US.UTF-8
00:49:15 + LC_ALL=en_US.UTF-8
00:49:15 + BUILD_ID=DONT_KILL_ME
00:49:15 + omero admin start
00:49:27 No descriptor given. Using etc/grid/default.xml
00:49:41 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:49:41 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:49:41 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:49:41 Waiting on startup. Use CTRL-C to exit
00:49:42 + omero admin waitup
00:49:45 Waiting on startup. Use CTRL-C to exit
00:49:45 + omero admin diagnostics
00:49:47
00:49:47 ================================================================================
00:49:47 OMERO Diagnostics (admin)
00:49:47 ================================================================================
00:49:47
00:49:47 Commands: java -version 11.0.22 (/usr/bin/java)
00:49:48 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:49:48 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:49:48 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:49:48 Commands: psql --version 16.2 (/usr/bin/psql)
00:49:48 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:49:48
00:49:48 Component: OMERO.py 5.19.5.dev0
00:49:48 Component: OMERO.server 5.6.3-500-f70f946b98-ice36
00:49:48
00:49:48 Server: icegridnode running
00:49:48 Server: Blitz-0 active (pid = 72577, enabled)
00:49:48 Server: Indexer-0 activating (enabled)
00:49:48 Server: OMERO.Glacier2 active (pid = 72598, enabled)
00:49:48 Server: OMERO.IceStorm active (pid = 72607, enabled)
00:49:48 Server: Processor-0 activating (enabled)
00:49:48 Server: Tables-0 activating (enabled)
00:49:48
00:49:48 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:49:48 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
00:49:48 Log files: DropBox.log n/a
00:49:48 Log files: FileServer.log n/a
00:49:48 Log files: Indexer-0.log 2.4 KB
00:49:48 Log files: MonitorServer.log n/a
00:49:48 Log files: Processor-0.log 592 B
00:49:48 Log files: Tables-0.log 841 B
00:49:48 Log files: TestDropBox.log n/a
00:49:48 Log files: master.err 180 B
00:49:48 Log files: master.out 30.1 KB
00:49:48 Log files: Total size 0.06 MB
00:49:48
00:49:48
00:49:48 Environment:OMERO_HOME=(unset)
00:49:48 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:48 Environment:OMERO_NODE=(unset)
00:49:48 Environment:OMERO_MASTER=(unset)
00:49:48 Environment:OMERO_USERDIR=(unset)
00:49:48 Environment:OMERO_TMPDIR=(unset)
00:49:48 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
00:49:48 Environment:PYTHONPATH=(unset)
00:49:48 Environment:ICE_HOME=/opt/ice-3.6.5
00:49:48 Environment:LD_LIBRARY_PATH=(unset)
00:49:48 Environment:DYLD_LIBRARY_PATH=(unset)
00:49:48
00:49:48 OMERO SSL port:4064
00:49:48 OMERO TCP port:4063
00:49:48 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:49:48 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:49:48
00:49:48 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:48 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:48 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:48 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:48
00:49:48 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 1 September 2024 fe19e0809e6667fcab53a4e2ab1a96ed540a6a6d
00:49:48 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 1 September 2024 fe19e0809e6667fcab53a4e2ab1a96ed540a6a6d
00:49:48 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 1 September 2024 fe19e0809e6667fcab53a4e2ab1a96ed540a6a6d
00:49:48 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 1 September 2024 d602c8562786deedcf3f17dc88674e109331f908
00:49:48 Jar: lib/server/ome-common.jar OME Common Java 6.0.24-SNAPSHOT 1 September 2024 d602c8562786deedcf3f17dc88674e109331f908
00:49:48 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 1 September 2024 d602c8562786deedcf3f17dc88674e109331f908
00:49:48 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 1 September 2024 d602c8562786deedcf3f17dc88674e109331f908
00:49:48 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 1 September 2024 d602c8562786deedcf3f17dc88674e109331f908
00:49:48 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 1 September 2024 d602c8562786deedcf3f17dc88674e109331f908
00:49:48 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT
00:49:48 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT
00:49:48 Jar: lib/server/omero-gateway.jar jar 5.9.3-SNAPSHOT
00:49:48 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT
00:49:48 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT
00:49:48 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT
00:49:48 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT
00:49:49 + deactivate
00:49:49 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:49:49 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:49 + export PATH
00:49:49 + unset _OLD_VIRTUAL_PATH
00:49:49 + '[' -n '' ']'
00:49:49 + '[' -n /bin/bash -o -n '' ']'
00:49:49 + hash -r
00:49:49 + '[' -n '' ']'
00:49:49 + unset VIRTUAL_ENV
00:49:49 + '[' '!' '' = nondestructive ']'
00:49:49 + unset -f deactivate
00:49:49 Finished: SUCCESS
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