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01:06:18 Started by upstream project "Trigger" build number 233
01:06:18 originally caused by:
01:06:18  Started by timer
01:06:18 Running as SYSTEM
01:06:19 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
01:06:19 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14812228193904417769.sh
01:06:19 + source /home/settings.env
01:06:19 ++ OMERO_DB_HOST=pg
01:06:19 ++ OMERO_DB_USER=postgres
01:06:19 ++ OMERO_DB_PASS=
01:06:19 ++ OMERO_ROOT_PASS=omero
01:06:19 ++ OMERO_DATA_DIR=/OMERO
01:06:19 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
01:06:19 + OMERO_DB_NAME=OMERO-server
01:06:19 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
01:06:19 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:06:19 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:06:19 + OMERO_DATA_DIR=/home/omero/omero-server-data
01:06:19 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
01:06:19 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
01:06:19 ++ deactivate nondestructive
01:06:19 ++ '[' -n '' ']'
01:06:19 ++ '[' -n '' ']'
01:06:19 ++ '[' -n /bin/bash -o -n '' ']'
01:06:19 ++ hash -r
01:06:19 ++ '[' -n '' ']'
01:06:19 ++ unset VIRTUAL_ENV
01:06:19 ++ '[' '!' nondestructive = nondestructive ']'
01:06:19 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
01:06:19 ++ export VIRTUAL_ENV
01:06:19 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:06:19 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:06:19 ++ export PATH
01:06:19 ++ '[' -n '' ']'
01:06:19 ++ '[' -z '' ']'
01:06:19 ++ _OLD_VIRTUAL_PS1=
01:06:19 ++ PS1='(.venv3) '
01:06:19 ++ export PS1
01:06:19 ++ '[' -n /bin/bash -o -n '' ']'
01:06:19 ++ hash -r
01:06:19 + omero admin stop
01:06:58 Server not running
01:06:59 + echo not running
01:06:59 not running
01:06:59 + sleep 5
01:07:04 + deactivate
01:07:04 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
01:07:04 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:07:04 + export PATH
01:07:04 + unset _OLD_VIRTUAL_PATH
01:07:04 + '[' -n '' ']'
01:07:04 + '[' -n /bin/bash -o -n '' ']'
01:07:04 + hash -r
01:07:04 + '[' -n '' ']'
01:07:04 + unset VIRTUAL_ENV
01:07:04 + '[' '!' '' = nondestructive ']'
01:07:04 + unset -f deactivate
01:07:04 + rm -rf /home/omero/workspace/OMERO-server/.venv3
01:07:04 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
01:07:09 + '[' false = true ']'
01:07:09 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
01:07:09 Skipping PURGE_DATA:CleanDbAndRepo
01:07:09 + 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-5.19.6.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-5.27.3.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
01:07:12 Copied 1 artifact from "OMERO-build" build number 191
01:07:13 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 188
01:07:13 Copied 2 artifacts from "OMERO-build-build" build number 199
01:07:13 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5037029793431494927.sh
01:07:13 + source /home/settings.env
01:07:13 ++ OMERO_DB_HOST=pg
01:07:13 ++ OMERO_DB_USER=postgres
01:07:13 ++ OMERO_DB_PASS=
01:07:13 ++ OMERO_ROOT_PASS=omero
01:07:13 ++ OMERO_DATA_DIR=/OMERO
01:07:13 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
01:07:13 + OMERO_DB_NAME=OMERO-server
01:07:13 + OMERO_DATA_DIR=/home/omero/omero-server-data
01:07:13 + mkdir -p /home/omero/omero-server-data
01:07:13 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
01:07:13 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:07:13 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
01:07:13 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
01:07:13 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
01:07:13 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
01:07:13 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
01:07:13 ++ ls OMERO.server-5.6.3-513-965aff517a-ice36.zip
01:07:13 + ZIP=OMERO.server-5.6.3-513-965aff517a-ice36.zip
01:07:13 + '[' '!' -z '' ']'
01:07:13 + DIST=OMERO.server-5.6.3-513-965aff517a-ice36
01:07:13 + unzip OMERO.server-5.6.3-513-965aff517a-ice36.zip
01:07:14 Archive:  OMERO.server-5.6.3-513-965aff517a-ice36.zip
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/blitz/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/grid/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/profiles/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/error/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/grid/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/luts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/luts/janelia/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/luts/ncsa_paledit/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/luts/wcif/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/analysis_scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/annotation_scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/export_scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/figure_scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/import_scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/scripts/omero/util_scripts/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/server/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/share/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/share/licenses/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/misc/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__1/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__10/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__11/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__2/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__3/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__4/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__5/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__6/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__7/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__8/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3A__9/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3__4/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3__5/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3__6/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO3__7/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO4.1__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO4.2__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO4.2__0/t/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO4.3__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO4.4__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO4__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.0__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.1__1/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.2__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.3__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.4DEV__1/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.4DEV__2/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.4DEV__3/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/sql/psql/OMERO5.4__0/
01:07:14    creating: OMERO.server-5.6.3-513-965aff517a-ice36/var/
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/LICENSE.txt  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/backup.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/blitz/mail-senders.example  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/blitz/mail-server.example  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/build.properties  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/env.bat  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/env.sh  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/hibernate.properties  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/ice.config  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/logback-cli.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/logback-indexing-cli.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/logback-indexing.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/logback.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/mime.types  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/node1.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/node2.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/omero.properties  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/profiles/psql  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/rollover.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/Windows.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/error/maintainance.html  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/grid/README  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/grid/default.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/grid/templates.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/grid/windefault.xml  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/ice.config  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/internal.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/master.cfg  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/templates/robot.template  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/etc/testdropbox.config  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/history.rst  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/OMEZarrReader.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/activation.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/aggdesigner-algorithm.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/aircompressor.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/annotations.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/antlr.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/aopalliance.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/avatica-core.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/avatica-metrics.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/aws-java-sdk-core.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/aws-java-sdk-kms.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/aws-java-sdk-s3.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/base.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-all.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-anim.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-awt-util.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-bridge.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-codec.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-constants.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-css.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-dom.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-ext.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-extension.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-gui-util.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-gvt.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-i18n.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-parser.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-rasterizer-ext.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-rasterizer.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-script.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-slideshow.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-squiggle-ext.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-squiggle.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-svg-dom.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-svgbrowser.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-svggen.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-svgpp.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-svgrasterizer.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-swing.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-transcoder.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-ttf2svg.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-util.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/batik-xml.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/btm.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/bufr.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/c3p0.jar  
01:07:14   inflating: OMERO.server-5.6.3-513-965aff517a-ice36/lib/client/calcite-core.jar  
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01:07:16 + rm -f OMERO.server-5.6.3-513-965aff517a-ice36.zip
01:07:16 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-513-965aff517a-ice36 /home/omero/workspace/OMERO-server/OMERO.server
01:07:16 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
01:07:16 ++ deactivate nondestructive
01:07:16 ++ '[' -n '' ']'
01:07:16 ++ '[' -n '' ']'
01:07:16 ++ '[' -n /bin/bash -o -n '' ']'
01:07:16 ++ hash -r
01:07:16 ++ '[' -n '' ']'
01:07:16 ++ unset VIRTUAL_ENV
01:07:16 ++ '[' '!' nondestructive = nondestructive ']'
01:07:16 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
01:07:16 ++ export VIRTUAL_ENV
01:07:16 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:07:16 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:07:16 ++ export PATH
01:07:16 ++ '[' -n '' ']'
01:07:16 ++ '[' -z '' ']'
01:07:16 ++ _OLD_VIRTUAL_PS1=
01:07:16 ++ PS1='(.venv3) '
01:07:16 ++ export PS1
01:07:16 ++ '[' -n /bin/bash -o -n '' ']'
01:07:16 ++ hash -r
01:07:16 + 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
01:07:16 Collecting zeroc-ice==3.6.5
01:07:17   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)
01:07:18 Installing collected packages: zeroc-ice
01:07:19 Successfully installed zeroc-ice-3.6.5
01:07:19 + pip install -U pip future
01:07:20 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
01:07:20 Collecting pip
01:07:20   Using cached pip-24.2-py3-none-any.whl (1.8 MB)
01:07:20 Collecting future
01:07:20   Using cached future-1.0.0-py3-none-any.whl (491 kB)
01:07:20 Installing collected packages: pip, future
01:07:20   Attempting uninstall: pip
01:07:20     Found existing installation: pip 21.2.3
01:07:20     Uninstalling pip-21.2.3:
01:07:20       Successfully uninstalled pip-21.2.3
01:07:22 Successfully installed future-1.0.0 pip-24.2
01:07:22 + pip install markdown
01:07:22 Collecting markdown
01:07:22   Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
01:07:22 Collecting importlib-metadata>=4.4 (from markdown)
01:07:22   Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
01:07:23 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
01:07:23   Using cached zipp-3.20.2-py3-none-any.whl.metadata (3.7 kB)
01:07:23 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
01:07:23 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
01:07:23 Using cached zipp-3.20.2-py3-none-any.whl (9.2 kB)
01:07:23 Installing collected packages: zipp, importlib-metadata, markdown
01:07:23 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.20.2
01:07:23 + pip install reportlab
01:07:24 Collecting reportlab
01:07:24   Downloading reportlab-4.2.5-py3-none-any.whl.metadata (1.5 kB)
01:07:25 Collecting pillow>=9.0.0 (from reportlab)
01:07:25   Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
01:07:25 Collecting chardet (from reportlab)
01:07:25   Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
01:07:25 Downloading reportlab-4.2.5-py3-none-any.whl (1.9 MB)
01:07:25    ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.9/1.9 MB 20.2 MB/s eta 0:00:00
01:07:25 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
01:07:25 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
01:07:26 Installing collected packages: pillow, chardet, reportlab
01:07:27 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.5
01:07:27 + pip install omego
01:07:27 Collecting omego
01:07:27   Using cached omego-0.7.0-py3-none-any.whl
01:07:27 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
01:07:28 Collecting yaclifw>=0.1.1 (from omego)
01:07:28   Using cached yaclifw-0.2.0-py3-none-any.whl
01:07:28 Collecting six (from yaclifw>=0.1.1->omego)
01:07:28   Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
01:07:28 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
01:07:28 Installing collected packages: six, yaclifw, omego
01:07:28 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
01:07:28 + pip install tables
01:07:28 Collecting tables
01:07:28   Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
01:07:29 Collecting numpy>=1.19.0 (from tables)
01:07:29   Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
01:07:29 Collecting numexpr>=2.6.2 (from tables)
01:07:29   Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
01:07:29 Collecting packaging (from tables)
01:07:29   Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
01:07:29 Collecting py-cpuinfo (from tables)
01:07:29   Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
01:07:30 Collecting blosc2>=2.3.0 (from tables)
01:07:30   Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
01:07:30 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
01:07:30   Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
01:07:30 Collecting msgpack (from blosc2>=2.3.0->tables)
01:07:30   Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
01:07:30 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
01:07:30 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
01:07:30 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
01:07:30 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
01:07:31 Using cached packaging-24.1-py3-none-any.whl (53 kB)
01:07:31 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
01:07:31 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
01:07:31 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
01:07:31 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
01:07:35 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.1 numpy-2.0.2 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
01:07:35 + pip install jinja2
01:07:35 Collecting jinja2
01:07:35   Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
01:07:36 Collecting MarkupSafe>=2.0 (from jinja2)
01:07:36   Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
01:07:36 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
01:07:36 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
01:07:36 Installing collected packages: MarkupSafe, jinja2
01:07:36 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
01:07:36 + pip install omero-py
01:07:37 Collecting omero-py
01:07:37   Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
01:07:37 Collecting urllib3<2 (from omero-py)
01:07:37   Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
01:07:37 Collecting appdirs (from omero-py)
01:07:37   Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
01:07:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
01:07:37 Collecting numpy<2 (from omero-py)
01:07:37   Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
01:07:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
01:07:37 Collecting PyYAML (from omero-py)
01:07:37   Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
01:07:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
01:07:37 Collecting requests (from omero-py)
01:07:38   Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
01:07:38 Collecting portalocker (from omero-py)
01:07:38   Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
01:07:38 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
01:07:38   Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
01:07:38 Collecting idna<4,>=2.5 (from requests->omero-py)
01:07:38   Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
01:07:38 Collecting certifi>=2017.4.17 (from requests->omero-py)
01:07:38   Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
01:07:38 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB)
01:07:39 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
01:07:39 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
01:07:39 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
01:07:39 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
01:07:39 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
01:07:39 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
01:07:39 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
01:07:39 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
01:07:39 Using cached idna-3.10-py3-none-any.whl (70 kB)
01:07:39 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
01:07:41   Attempting uninstall: numpy
01:07:41     Found existing installation: numpy 2.0.2
01:07:41     Uninstalling numpy-2.0.2:
01:07:41       Successfully uninstalled numpy-2.0.2
01:07:46 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.8.30 charset-normalizer-3.3.2 idna-3.10 numpy-1.26.4 omero-py-5.19.5 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.20
01:07:47 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
01:07:47 Collecting omero-metadata
01:07:47   Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-mrd4qc76/omero-metadata_5c9d29af0f6b49c38428e6ccc687a9b9
01:07:47   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-mrd4qc76/omero-metadata_5c9d29af0f6b49c38428e6ccc687a9b9
01:07:49   Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 5c2d550573c2eed8d68dd6ca7c4437e64dfb4113
01:07:49   Installing build dependencies: started
01:07:51   Installing build dependencies: finished with status 'done'
01:07:51   Getting requirements to build wheel: started
01:07:51   Getting requirements to build wheel: finished with status 'done'
01:07:51   Preparing metadata (pyproject.toml): started
01:07:51   Preparing metadata (pyproject.toml): finished with status 'done'
01:07:51 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
01:07:51 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
01:07:51 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
01:07:52 Collecting pandas (from omero-metadata)
01:07:52   Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
01:07:52 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
01:07:52 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
01:07:52 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
01:07:52 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
01:07:52 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)
01:07:52 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)
01:07:52 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
01:07:52 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
01:07:52 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
01:07:52 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
01:07:52   Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
01:07:52 Collecting pytz>=2020.1 (from pandas->omero-metadata)
01:07:52   Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
01:07:52 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
01:07:52   Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB)
01:07:52 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)
01:07:52 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)
01:07:52 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
01:07:52 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)
01:07:53 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
01:07:53 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
01:07:53 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
01:07:53 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB)
01:07:53 Building wheels for collected packages: omero-metadata
01:07:53   Building wheel for omero-metadata (pyproject.toml): started
01:07:53   Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
01:07:53   Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39187 sha256=7b65521c6a23db9ea3f15ff118dd3a4c011e26d96077e995d124749e1a2b2cb1
01:07:53   Stored in directory: /tmp/pip-ephem-wheel-cache-x7nexgwv/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
01:07:53 Successfully built omero-metadata
01:07:54 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
01:07:59 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2
01:07:59 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
01:07:59 Collecting omero-cli-render
01:07:59   Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-r8foma_h/omero-cli-render_817326c2150b448c933491798201daaa
01:07:59   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-r8foma_h/omero-cli-render_817326c2150b448c933491798201daaa
01:08:00   Running command git checkout -b merge_ci --track origin/merge_ci
01:08:00   Switched to a new branch 'merge_ci'
01:08:00   branch 'merge_ci' set up to track 'origin/merge_ci'.
01:08:00   Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit d1e037fbfed3e62a6ff402d708610f39ed01b402
01:08:00   Installing build dependencies: started
01:08:02   Installing build dependencies: finished with status 'done'
01:08:02   Getting requirements to build wheel: started
01:08:02   Getting requirements to build wheel: finished with status 'done'
01:08:02   Preparing metadata (pyproject.toml): started
01:08:02   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:02 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
01:08:02 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
01:08:02 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
01:08:02 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
01:08:02 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
01:08:02 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
01:08:02 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)
01:08:02 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)
01:08:02 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
01:08:02 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
01:08:02 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)
01:08:02 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
01:08:02 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)
01:08:02 Building wheels for collected packages: omero-cli-render
01:08:02   Building wheel for omero-cli-render (pyproject.toml): started
01:08:03   Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
01:08:03   Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18031 sha256=618bbfadcbc476384dc1dc5c75e37f7b043e676ac37f05d29a287e3035eba84a
01:08:03   Stored in directory: /tmp/pip-ephem-wheel-cache-_uh6h96a/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
01:08:03 Successfully built omero-cli-render
01:08:03 Installing collected packages: omero-cli-render
01:08:03 Successfully installed omero-cli-render-0.8.2.dev0
01:08:03 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
01:08:03 Collecting omero-cli-duplicate
01:08:03   Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-791t_ocr/omero-cli-duplicate_6ba0c837db7d41ec9eb660db7f8683f8
01:08:03   Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-791t_ocr/omero-cli-duplicate_6ba0c837db7d41ec9eb660db7f8683f8
01:08:04   Running command git checkout -b merge_ci --track origin/merge_ci
01:08:04   Switched to a new branch 'merge_ci'
01:08:04   branch 'merge_ci' set up to track 'origin/merge_ci'.
01:08:04   Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 87855a879bd32088dccb10e4b222d5095adde91a
01:08:04   Installing build dependencies: started
01:08:06   Installing build dependencies: finished with status 'done'
01:08:06   Getting requirements to build wheel: started
01:08:06   Getting requirements to build wheel: finished with status 'done'
01:08:06   Preparing metadata (pyproject.toml): started
01:08:07   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:07 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
01:08:07 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
01:08:07 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
01:08:07 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
01:08:07 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
01:08:07 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)
01:08:07 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
01:08:07 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)
01:08:07 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
01:08:07 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
01:08:07 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)
01:08:07 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
01:08:07 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)
01:08:07 Building wheels for collected packages: omero-cli-duplicate
01:08:07   Building wheel for omero-cli-duplicate (pyproject.toml): started
01:08:07   Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
01:08:07   Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=fb1006c65d8bb4e537868785e52dfb3a1918917bc10053b05f0b773fe716dace
01:08:07   Stored in directory: /tmp/pip-ephem-wheel-cache-kvb8y99i/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
01:08:07 Successfully built omero-cli-duplicate
01:08:07 Installing collected packages: omero-cli-duplicate
01:08:07 Successfully installed omero-cli-duplicate-0.4.1.dev0
01:08:07 + pip install omero-certificates
01:08:08 Collecting omero-certificates
01:08:08   Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
01:08:08 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
01:08:08 Collecting distro==1.8.0 (from omero-certificates)
01:08:08   Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
01:08:08 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
01:08:08 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
01:08:08 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
01:08:08 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
01:08:08 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)
01:08:08 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
01:08:08 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)
01:08:08 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
01:08:08 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
01:08:08 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)
01:08:08 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
01:08:08 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)
01:08:08 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
01:08:08 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
01:08:09 Installing collected packages: distro, omero-certificates
01:08:09 Successfully installed distro-1.8.0 omero-certificates-0.3.2
01:08:09 + for x in *.tar.gz
01:08:09 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
01:08:09 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
01:08:09   Installing build dependencies: started
01:08:11   Installing build dependencies: finished with status 'done'
01:08:11   Getting requirements to build wheel: started
01:08:11   Getting requirements to build wheel: finished with status 'done'
01:08:11   Preparing metadata (pyproject.toml): started
01:08:11   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:11 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
01:08:11 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
01:08:11 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
01:08:11 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
01:08:11 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
01:08:11 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)
01:08:11 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
01:08:11 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)
01:08:11 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
01:08:11 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
01:08:11 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)
01:08:11 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
01:08:11 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)
01:08:11 Building wheels for collected packages: omero-dropbox
01:08:11   Building wheel for omero-dropbox (pyproject.toml): started
01:08:12   Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
01:08:12   Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49056 sha256=4391b0d92d3865c78f55e745e230680cee569cb2ede5987644cb211efde4581b
01:08:12   Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
01:08:12 Successfully built omero-dropbox
01:08:12 Installing collected packages: omero-dropbox
01:08:12 Successfully installed omero-dropbox-5.7.1.dev0
01:08:12 + for x in *.tar.gz
01:08:12 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
01:08:12 Processing ./omero_marshal-0.9.1.dev0.tar.gz
01:08:12   Installing build dependencies: started
01:08:14   Installing build dependencies: finished with status 'done'
01:08:14   Getting requirements to build wheel: started
01:08:14   Getting requirements to build wheel: finished with status 'done'
01:08:14   Preparing metadata (pyproject.toml): started
01:08:15   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:15 Building wheels for collected packages: omero_marshal
01:08:15   Building wheel for omero_marshal (pyproject.toml): started
01:08:15   Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
01:08:15   Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88030 sha256=30ab049e603cc32e0d17fe5f9f3e1f0ef85839ba97e3c4afab375568d0371a39
01:08:15   Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
01:08:15 Successfully built omero_marshal
01:08:15 Installing collected packages: omero_marshal
01:08:15 Successfully installed omero_marshal-0.9.1.dev0
01:08:16 + for x in *.tar.gz
01:08:16 + pip install -U omero_py-5.19.6.dev0.tar.gz
01:08:16 Processing ./omero_py-5.19.6.dev0.tar.gz
01:08:16   Installing build dependencies: started
01:08:19   Installing build dependencies: finished with status 'done'
01:08:19   Getting requirements to build wheel: started
01:08:19   Getting requirements to build wheel: finished with status 'done'
01:08:19   Preparing metadata (pyproject.toml): started
01:08:20   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:20 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
01:08:20 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
01:08:20 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
01:08:20 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
01:08:20 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (10.4.0)
01:08:20 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
01:08:20 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.6.5)
01:08:20 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
01:08:20 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.10.1)
01:08:20 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.3.2)
01:08:20 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
01:08:20 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (2024.8.30)
01:08:20 Building wheels for collected packages: omero-py
01:08:20   Building wheel for omero-py (pyproject.toml): started
01:08:21   Building wheel for omero-py (pyproject.toml): finished with status 'done'
01:08:21   Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783158 sha256=8198dce23910b475067cd1be6bed15aee649ed7f03ac8469a5959719b1445147
01:08:21   Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
01:08:21 Successfully built omero-py
01:08:21 Installing collected packages: omero-py
01:08:21   Attempting uninstall: omero-py
01:08:21     Found existing installation: omero-py 5.19.5
01:08:21     Uninstalling omero-py-5.19.5:
01:08:21       Successfully uninstalled omero-py-5.19.5
01:08:23 Successfully installed omero-py-5.19.6.dev0
01:08:24 + for x in *.tar.gz
01:08:24 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
01:08:24 Processing ./omero_scripts-5.8.4.dev0.tar.gz
01:08:24   Installing build dependencies: started
01:08:26   Installing build dependencies: finished with status 'done'
01:08:26   Getting requirements to build wheel: started
01:08:26   Getting requirements to build wheel: finished with status 'done'
01:08:26   Preparing metadata (pyproject.toml): started
01:08:26   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:26 Building wheels for collected packages: omero-scripts
01:08:26   Building wheel for omero-scripts (pyproject.toml): started
01:08:27   Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
01:08:27   Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116644 sha256=a07fbf5f82cac1107bce174fed14a7ad066eba69fb4078cc944575a0d8d2bea7
01:08:27   Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
01:08:27 Successfully built omero-scripts
01:08:27 Installing collected packages: omero-scripts
01:08:27 Successfully installed omero-scripts-5.8.4.dev0
01:08:27 + for x in *.tar.gz
01:08:27 + pip install -U omero_web-5.27.3.dev0.tar.gz
01:08:27 Processing ./omero_web-5.27.3.dev0.tar.gz
01:08:28   Installing build dependencies: started
01:08:29   Installing build dependencies: finished with status 'done'
01:08:29   Getting requirements to build wheel: started
01:08:30   Getting requirements to build wheel: finished with status 'done'
01:08:30   Preparing metadata (pyproject.toml): started
01:08:30   Preparing metadata (pyproject.toml): finished with status 'done'
01:08:30 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (5.19.6.dev0)
01:08:30 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0)
01:08:30   Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
01:08:30 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0)
01:08:31   Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB)
01:08:32 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0)
01:08:32   Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
01:08:33 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0)
01:08:33   Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
01:08:33 Collecting django-csp (from omero-web==5.27.3.dev0)
01:08:33   Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
01:08:33 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0)
01:08:34   Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
01:08:34 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0)
01:08:34   Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
01:08:34 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (0.9.1.dev0)
01:08:34 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (10.4.0)
01:08:34 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2)
01:08:34 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1)
01:08:34 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1)
01:08:34 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
01:08:34   Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
01:08:34 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
01:08:34   Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
01:08:34 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.26.20)
01:08:34 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.4.4)
01:08:34 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.0.0)
01:08:34 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.26.4)
01:08:34 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (6.0.2)
01:08:34 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==5.27.3.dev0) (3.6.5)
01:08:34 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (2.32.3)
01:08:34 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
01:08:34   Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
01:08:34 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.3.2)
01:08:34 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.10)
01:08:34 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (2024.8.30)
01:08:34 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
01:08:34 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
01:08:34 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
01:08:34 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB)
01:08:34 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
01:08:35 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
01:08:35 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
01:08:35 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
01:08:35 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
01:08:35 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
01:08:35 Building wheels for collected packages: omero-web
01:08:35   Building wheel for omero-web (pyproject.toml): started
01:08:36   Building wheel for omero-web (pyproject.toml): finished with status 'done'
01:08:36   Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766671 sha256=fdc136bae89f60a393d5ade7479c0449236e9bdc6b3b1316f7d428319a8e1cd8
01:08:36   Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b
01:08:36 Successfully built omero-web
01:08:36 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
01:08:39 Successfully installed Django-4.2.16 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-5.27.3.dev0 sqlparse-0.5.1 typing-extensions-4.12.2 whitenoise-6.7.0
01:08:39 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
01:08:40 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
01:08:40 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
01:08:40 --2024-10-02 01:08:40--  https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
01:08:40 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.110.133, 185.199.108.133, ...
01:08:40 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
01:08:41 HTTP request sent, awaiting response... 200 OK
01:08:41 Length: 98962 (97K) [text/plain]
01:08:41 Saving to: ‘Figure_To_Pdf.py’
01:08:41 
01:08:41      0K .......... .......... .......... .......... .......... 51% 2.36M 0s
01:08:41     50K .......... .......... .......... .......... ......    100% 20.5M=0.02s
01:08:41 
01:08:41 2024-10-02 01:08:41 (4.12 MB/s) - ‘Figure_To_Pdf.py’ saved [98962/98962]
01:08:41 
01:08:41 + chmod 755 Figure_To_Pdf.py
01:08:41 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
01:08:41 + omero config set omero.db.name OMERO-server
01:08:42 + omero config set omero.db.host pg
01:08:44 + omero config set omero.db.user postgres
01:08:45 + omero config set omero.data.dir /home/omero/omero-server-data
01:08:47 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
01:08:48 + omero config set omero.db.poolsize 25
01:08:50 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
01:08:51 + omero config set omero.security.trustStorePassword changeit
01:08:53 + omero config set omero.mail.config true
01:08:55 + omero config set omero.mail.from qa@openmicroscopy.org.uk
01:08:56 + omero config set omero.mail.host smtp.dundee.ac.uk
01:08:58 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
01:08:59 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
01:09:01 + omero certificates
01:09:02 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
01:09:02 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
01:09:03 + '[' false = true ']'
01:09:03 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
01:09:03 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
01:09:03 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG            dbcommand => upgrade
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG               dbhost => localhost
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG               dbname => OMERO-server
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG               dbpass => omero
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG               dbuser => omero
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG             rootpass => omero
01:09:03 2024-10-02 01:09:03,357 [    omego.db] DEBUG            serverdir => /home/omero/workspace/OMERO-server/OMERO.server
01:09:03 2024-10-02 01:09:03,357 [omego.extern] INFO  Executing : omero version
01:09:04 OMERO.py version:
01:09:04 OMERO.server version:
01:09:04 5.6.3-513-965aff517a-ice36
01:09:04 5.19.6.dev0
01:09:05 2024-10-02 01:09:05,024 [omego.extern] INFO  Completed [1.666 s]
01:09:05 2024-10-02 01:09:05,024 [omego.extern] DEBUG Using omero CLI from omero
01:09:05 2024-10-02 01:09:05,024 [    omego.db] INFO  DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
01:09:05 2024-10-02 01:09:05,024 [omego.extern] INFO  Running [current environment]: omero config get --show-password
01:09:05 2024-10-02 01:09:05,024 [omego.extern] INFO  Executing : omero config get --show-password
01:09:06 2024-10-02 01:09:06,445 [omego.extern] INFO  Completed [1.420 s]
01:09:06 2024-10-02 01:09:06,445 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
01:09:06 2024-10-02 01:09:06,445 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
01:09:07 2024-10-02 01:09:07,129 [omego.extern] INFO  Completed [0.684 s]
01:09:07 2024-10-02 01:09:07,129 [    omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
01:09:07 2024-10-02 01:09:07,130 [    omego.db] INFO  psql version: psql (PostgreSQL) 16.4
01:09:07 
01:09:07 2024-10-02 01:09:07,130 [omego.extern] INFO  Running [current environment]: omero config get --show-password
01:09:07 2024-10-02 01:09:07,130 [omego.extern] INFO  Executing : omero config get --show-password
01:09:08 2024-10-02 01:09:08,720 [omego.extern] INFO  Completed [1.590 s]
01:09:08 2024-10-02 01:09:08,720 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
01:09:08 2024-10-02 01:09:08,720 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
01:09:09 2024-10-02 01:09:09,521 [omego.extern] INFO  Completed [0.800 s]
01:09:09 2024-10-02 01:09:09,521 [    omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.5") at port "5432".\n'
01:09:09 2024-10-02 01:09:09,521 [    omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
01:09:09 2024-10-02 01:09:09,521 [omego.extern] INFO  Running [current environment]: omero config get --show-password
01:09:09 2024-10-02 01:09:09,521 [omego.extern] INFO  Executing : omero config get --show-password
01:09:11 2024-10-02 01:09:11,019 [omego.extern] INFO  Completed [1.497 s]
01:09:11 2024-10-02 01:09:11,019 [    omego.db] INFO  Failed to lookup parameter omero.db.pass, using omero
01:09:11 2024-10-02 01:09:11,019 [omego.extern] INFO  Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
01:09:12 2024-10-02 01:09:12,605 [omego.extern] INFO  Completed [1.586 s]
01:09:12 2024-10-02 01:09:12,606 [    omego.db] DEBUG stdout: b'OMERO5.4|0\n'
01:09:12 2024-10-02 01:09:12,606 [    omego.db] INFO  Current omero db version: ('OMERO5.4', '0')
01:09:12 2024-10-02 01:09:12,608 [    omego.db] INFO  Database is already at OMERO5.4__0
01:09:12 + export LANG=en_US.UTF-8
01:09:12 + LANG=en_US.UTF-8
01:09:12 + export LANGUAGE=en_US:en
01:09:12 + LANGUAGE=en_US:en
01:09:12 + export LC_ALL=en_US.UTF-8
01:09:12 + LC_ALL=en_US.UTF-8
01:09:12 + BUILD_ID=DONT_KILL_ME
01:09:12 + omero admin start
01:09:24 No descriptor given. Using etc/grid/default.xml
01:09:38 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
01:09:38 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
01:09:38 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
01:09:38 Waiting on startup. Use CTRL-C to exit
01:09:39 + omero admin waitup
01:09:40 Waiting on startup. Use CTRL-C to exit
01:09:40 + omero admin diagnostics
01:09:42 
01:09:42 ================================================================================
01:09:42 OMERO Diagnostics (admin)
01:09:42 ================================================================================
01:09:42         
01:09:42 Commands:   java -version                  11.0.24   (/usr/bin/java)
01:09:42 Commands:   python -V                      3.9.18    (/home/omero/workspace/OMERO-server/.venv3/bin/python)
01:09:42 Commands:   icegridnode --version          3.6.5     (/opt/ice-3.6.5/bin/icegridnode)
01:09:42 Commands:   icegridadmin --version         3.6.5     (/opt/ice-3.6.5/bin/icegridadmin)
01:09:42 Commands:   psql --version                 16.4      (/usr/bin/psql)
01:09:42 Commands:   openssl version                3.0.71    (/usr/bin/openssl)
01:09:42 
01:09:42 Component:  OMERO.py                       5.19.6.dev0
01:09:42 Component:  OMERO.server                   5.6.3-513-965aff517a-ice36
01:09:42 
01:09:42 Server:     icegridnode                    running
01:09:42 Server:     Blitz-0                        active (pid = 3019, enabled)
01:09:42 Server:     Indexer-0                      active (pid = 3042, enabled)
01:09:42 Server:     OMERO.Glacier2                 active (pid = 3046, enabled)
01:09:42 Server:     OMERO.IceStorm                 active (pid = 3066, enabled)
01:09:42 Server:     Processor-0                    activating (enabled)
01:09:42 Server:     Tables-0                       activating (enabled)
01:09:42 
01:09:42 Log dir:    /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
01:09:42 Log files:  Blitz-0.log                    16.7 KB       errors=0    warnings=1   
01:09:42 Log files:  DropBox.log                    n/a
01:09:42 Log files:  FileServer.log                 n/a
01:09:42 Log files:  Indexer-0.log                  2.6 KB       
01:09:42 Log files:  MonitorServer.log              n/a
01:09:42 Log files:  Processor-0.log                592 B        
01:09:42 Log files:  Tables-0.log                   841 B        
01:09:42 Log files:  TestDropBox.log                n/a
01:09:42 Log files:  master.err                     180 B        
01:09:42 Log files:  master.out                     30.1 KB      
01:09:42 Log files:  Total size                     0.05 MB
01:09:42 
01:09:42 
01:09:42 Environment:OMERO_HOME=(unset)             
01:09:42 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 
01:09:42 Environment:OMERO_NODE=(unset)             
01:09:42 Environment:OMERO_MASTER=(unset)           
01:09:42 Environment:OMERO_USERDIR=(unset)          
01:09:42 Environment:OMERO_TMPDIR=(unset)           
01:09:42 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 
01:09:42 Environment:PYTHONPATH=(unset)             
01:09:42 Environment:ICE_HOME=/opt/ice-3.6.5        
01:09:42 Environment:LD_LIBRARY_PATH=(unset)        
01:09:42 Environment:DYLD_LIBRARY_PATH=(unset)      
01:09:42 
01:09:42 OMERO SSL port:4064                           
01:09:42 OMERO TCP port:4063                           
01:09:42 OMERO data dir:'/home/omero/omero-server-data' Exists? True	Is writable? True
01:09:42 OMERO temp dir:'/home/omero/omero/tmp'        Exists? True	Is writable? True   (Size: 0)
01:09:42 
01:09:42 JVM settings: Blitz-${index}                -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
01:09:42 JVM settings: Indexer-${index}              -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
01:09:42 JVM settings: PixelData-${index}            -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
01:09:42 JVM settings: Repository-${index}           -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
01:09:42 
01:09:42 Jar:        lib/server/formats-api.jar     Bio-Formats API	8.0.0-SNAPSHOT	2 October 2024	fa9b8c293e9e11ea51bd3d531f0de6d89e1b7ad0
01:09:42 Jar:        lib/server/formats-bsd.jar     BSD Bio-Formats readers and writers	8.0.0-SNAPSHOT	2 October 2024	fa9b8c293e9e11ea51bd3d531f0de6d89e1b7ad0
01:09:42 Jar:        lib/server/formats-gpl.jar     Bio-Formats library	8.0.0-SNAPSHOT	2 October 2024	fa9b8c293e9e11ea51bd3d531f0de6d89e1b7ad0
01:09:42 Jar:        lib/server/ome-codecs.jar      OME Codecs	1.0.4-SNAPSHOT	2 October 2024	34b4c1664bae9dffbd094b685a23a3cb5a8749a0
01:09:42 Jar:        lib/server/ome-common.jar      OME Common Java	6.0.24-SNAPSHOT	2 October 2024	34b4c1664bae9dffbd094b685a23a3cb5a8749a0
01:09:42 Jar:        lib/server/ome-jai.jar         OME JAI	0.1.5-SNAPSHOT	2 October 2024	34b4c1664bae9dffbd094b685a23a3cb5a8749a0
01:09:42 Jar:        lib/server/ome-mdbtools.jar    MDB Tools (Java port)	5.3.4-SNAPSHOT	2 October 2024	34b4c1664bae9dffbd094b685a23a3cb5a8749a0
01:09:42 Jar:        lib/server/ome-poi.jar         OME POI	5.3.10-SNAPSHOT	2 October 2024	34b4c1664bae9dffbd094b685a23a3cb5a8749a0
01:09:42 Jar:        lib/server/ome-xml.jar         OME XML library	6.3.7-SNAPSHOT	2 October 2024	34b4c1664bae9dffbd094b685a23a3cb5a8749a0
01:09:42 Jar:        lib/server/omero-blitz.jar     jar	5.7.5-SNAPSHOT		
01:09:42 Jar:        lib/server/omero-common.jar    jar	5.6.8-SNAPSHOT		
01:09:42 Jar:        lib/server/omero-gateway.jar   jar	5.9.4-SNAPSHOT		
01:09:42 Jar:        lib/server/omero-model.jar     jar	5.6.16-SNAPSHOT		
01:09:42 Jar:        lib/server/omero-renderer.jar  jar	5.5.18-SNAPSHOT		
01:09:42 Jar:        lib/server/omero-romio.jar     jar	5.7.8-SNAPSHOT		
01:09:42 Jar:        lib/server/omero-server.jar    jar	5.6.13-SNAPSHOT		
01:09:42 + deactivate
01:09:42 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
01:09:42 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
01:09:42 + export PATH
01:09:42 + unset _OLD_VIRTUAL_PATH
01:09:42 + '[' -n '' ']'
01:09:42 + '[' -n /bin/bash -o -n '' ']'
01:09:42 + hash -r
01:09:42 + '[' -n '' ']'
01:09:42 + unset VIRTUAL_ENV
01:09:42 + '[' '!' '' = nondestructive ']'
01:09:42 + unset -f deactivate
01:09:43 Finished: SUCCESS