00:49:07 Started by upstream project "Trigger" build number 321
00:49:07 originally caused by:
00:49:07 Started by timer
00:49:07 Running as SYSTEM
00:49:07 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:49:07 [OMERO-server] $ /bin/bash -xe /tmp/jenkins13977324814255738608.sh
00:49:07 + source /home/settings.env
00:49:07 ++ OMERO_DB_HOST=pg
00:49:07 ++ OMERO_DB_USER=postgres
00:49:07 ++ OMERO_DB_PASS=
00:49:07 ++ OMERO_ROOT_PASS=omero
00:49:07 ++ OMERO_DATA_DIR=/OMERO
00:49:07 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:49:07 + OMERO_DB_NAME=OMERO-server
00:49:07 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:49:07 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:07 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:07 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:49:07 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:49:07 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:49:07 ++ deactivate nondestructive
00:49:07 ++ '[' -n '' ']'
00:49:07 ++ '[' -n '' ']'
00:49:07 ++ '[' -n /bin/bash -o -n '' ']'
00:49:07 ++ hash -r
00:49:07 ++ '[' -n '' ']'
00:49:07 ++ unset VIRTUAL_ENV
00:49:07 ++ '[' '!' nondestructive = nondestructive ']'
00:49:07 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:49:07 ++ export VIRTUAL_ENV
00:49:07 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:07 ++ 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
00:49:07 ++ export PATH
00:49:07 ++ '[' -n '' ']'
00:49:07 ++ '[' -z '' ']'
00:49:07 ++ _OLD_VIRTUAL_PS1=
00:49:07 ++ PS1='(.venv3) '
00:49:07 ++ export PS1
00:49:07 ++ '[' -n /bin/bash -o -n '' ']'
00:49:07 ++ hash -r
00:49:07 + omero admin stop
00:49:30 Waiting on shutdown. Use CTRL-C to exit
00:49:30 .+ sleep 5
00:49:46 + deactivate
00:49:46 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:49:46 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:46 + export PATH
00:49:46 + unset _OLD_VIRTUAL_PATH
00:49:46 + '[' -n '' ']'
00:49:46 + '[' -n /bin/bash -o -n '' ']'
00:49:46 + hash -r
00:49:46 + '[' -n '' ']'
00:49:46 + unset VIRTUAL_ENV
00:49:46 + '[' '!' '' = nondestructive ']'
00:49:46 + unset -f deactivate
00:49:46 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:49:46 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:49:52 + '[' false = true ']'
00:49:52 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:49:52 Skipping PURGE_DATA:CleanDbAndRepo
00:49:52 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.1-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-5.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.28.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:49:55 Copied 1 artifact from "OMERO-build" build number 273
00:49:55 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 269
00:49:55 Copied 2 artifacts from "OMERO-build-build" build number 280
00:49:55 [OMERO-server] $ /bin/bash -xe /tmp/jenkins10778061009256916355.sh
00:49:55 + source /home/settings.env
00:49:55 ++ OMERO_DB_HOST=pg
00:49:55 ++ OMERO_DB_USER=postgres
00:49:55 ++ OMERO_DB_PASS=
00:49:55 ++ OMERO_ROOT_PASS=omero
00:49:55 ++ OMERO_DATA_DIR=/OMERO
00:49:55 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:49:55 + OMERO_DB_NAME=OMERO-server
00:49:55 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:49:55 + mkdir -p /home/omero/omero-server-data
00:49:55 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:49:55 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:55 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:55 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:49:55 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:49:55 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:49:55 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:49:55 ++ ls OMERO.server-5.6.3-531-d1acd29004-ice36.zip
00:49:55 + ZIP=OMERO.server-5.6.3-531-d1acd29004-ice36.zip
00:49:55 + '[' '!' -z '' ']'
00:49:55 + DIST=OMERO.server-5.6.3-531-d1acd29004-ice36
00:49:55 + unzip OMERO.server-5.6.3-531-d1acd29004-ice36.zip
00:49:56 Archive: OMERO.server-5.6.3-531-d1acd29004-ice36.zip
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/blitz/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/grid/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/profiles/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/error/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/grid/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/luts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/luts/janelia/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/luts/matplotlib/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/luts/ncsa_paledit/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/luts/seaborn/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/luts/wcif/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/analysis_scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/annotation_scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/export_scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/figure_scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/import_scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/scripts/omero/util_scripts/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/server/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/share/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/share/licenses/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/misc/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__1/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__10/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__11/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__2/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__3/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__4/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__5/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__6/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__7/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__8/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3A__9/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3__4/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3__5/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3__6/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO3__7/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO4.1__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO4.2__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO4.2__0/t/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO4.3__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO4.4__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO4__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.0__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.1__1/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.2__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.3__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4DEV__1/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4DEV__2/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4DEV__3/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/
00:49:56 creating: OMERO.server-5.6.3-531-d1acd29004-ice36/var/
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/LICENSE.txt
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/backup.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/blitz/mail-senders.example
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/blitz/mail-server.example
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/build.properties
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/env.bat
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/env.sh
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/hibernate.properties
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/ice.config
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/logback-cli.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/logback-indexing-cli.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/logback-indexing.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/logback.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/mime.types
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/node1.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/node2.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/omero.properties
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/profiles/psql
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/rollover.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/Windows.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/error/maintainance.html
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/grid/README
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/grid/default.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/grid/templates.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/grid/windefault.xml
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/ice.config
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/internal.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/master.cfg
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/templates/robot.template
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/etc/testdropbox.config
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/history.rst
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/OMEZarrReader.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/activation.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/aggdesigner-algorithm.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/aircompressor.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/annotations.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/antlr.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/aopalliance.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/avatica-core.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/avatica-metrics.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/aws-java-sdk-core.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/aws-java-sdk-kms.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/aws-java-sdk-s3.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/base.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-all.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-anim.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-awt-util.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-bridge.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-codec.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-constants.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-css.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-dom.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-ext.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-extension.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-gui-util.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-gvt.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-i18n.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-parser.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-rasterizer-ext.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-rasterizer.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-script.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-slideshow.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-squiggle-ext.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-squiggle.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-svg-dom.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-svgbrowser.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-svggen.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-svgpp.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-svgrasterizer.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-swing.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-transcoder.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-ttf2svg.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-util.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/batik-xml.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/btm.jar
00:49:56 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/lib/client/bufr.jar
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00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/schema.sql
00:49:58 inflating: OMERO.server-5.6.3-531-d1acd29004-ice36/sql/psql/OMERO5.4__0/views.sql
00:49:58 + rm -f OMERO.server-5.6.3-531-d1acd29004-ice36.zip
00:49:58 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-531-d1acd29004-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:49:58 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:49:58 ++ deactivate nondestructive
00:49:58 ++ '[' -n '' ']'
00:49:58 ++ '[' -n '' ']'
00:49:58 ++ '[' -n /bin/bash -o -n '' ']'
00:49:58 ++ hash -r
00:49:58 ++ '[' -n '' ']'
00:49:58 ++ unset VIRTUAL_ENV
00:49:58 ++ '[' '!' nondestructive = nondestructive ']'
00:49:58 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:49:58 ++ export VIRTUAL_ENV
00:49:58 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:58 ++ 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
00:49:58 ++ export PATH
00:49:58 ++ '[' -n '' ']'
00:49:58 ++ '[' -z '' ']'
00:49:58 ++ _OLD_VIRTUAL_PS1=
00:49:58 ++ PS1='(.venv3) '
00:49:58 ++ export PS1
00:49:58 ++ '[' -n /bin/bash -o -n '' ']'
00:49:58 ++ hash -r
00:49:58 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
00:49:59 Collecting zeroc-ice==3.6.5
00:50:00 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)
00:50:01 Installing collected packages: zeroc-ice
00:50:02 Successfully installed zeroc-ice-3.6.5
00:50:02 + pip install -U pip future
00:50:03 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:50:03 Collecting pip
00:50:03 Using cached pip-24.3.1-py3-none-any.whl (1.8 MB)
00:50:03 Collecting future
00:50:03 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:50:03 Installing collected packages: pip, future
00:50:03 Attempting uninstall: pip
00:50:03 Found existing installation: pip 21.2.3
00:50:03 Uninstalling pip-21.2.3:
00:50:03 Successfully uninstalled pip-21.2.3
00:50:05 Successfully installed future-1.0.0 pip-24.3.1
00:50:05 + pip install markdown
00:50:05 Collecting markdown
00:50:05 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
00:50:05 Collecting importlib-metadata>=4.4 (from markdown)
00:50:05 Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
00:50:06 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
00:50:06 Using cached zipp-3.21.0-py3-none-any.whl.metadata (3.7 kB)
00:50:06 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
00:50:06 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
00:50:06 Using cached zipp-3.21.0-py3-none-any.whl (9.6 kB)
00:50:06 Installing collected packages: zipp, importlib-metadata, markdown
00:50:06 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.21.0
00:50:06 + pip install reportlab
00:50:07 Collecting reportlab
00:50:07 Using cached reportlab-4.2.5-py3-none-any.whl.metadata (1.5 kB)
00:50:07 Collecting pillow>=9.0.0 (from reportlab)
00:50:07 Using cached pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.1 kB)
00:50:07 Collecting chardet (from reportlab)
00:50:07 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:50:07 Using cached reportlab-4.2.5-py3-none-any.whl (1.9 MB)
00:50:08 Using cached pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.4 MB)
00:50:08 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:50:08 Installing collected packages: pillow, chardet, reportlab
00:50:10 Successfully installed chardet-5.2.0 pillow-11.0.0 reportlab-4.2.5
00:50:10 + pip install omego
00:50:11 Collecting omego
00:50:11 Using cached omego-0.7.0-py3-none-any.whl
00:50:11 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:50:11 Collecting yaclifw>=0.1.1 (from omego)
00:50:11 Using cached yaclifw-0.2.0-py3-none-any.whl
00:50:11 Collecting six (from yaclifw>=0.1.1->omego)
00:50:11 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:50:11 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:50:11 Installing collected packages: six, yaclifw, omego
00:50:11 Successfully installed omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:50:12 + pip install tables
00:50:12 Collecting tables
00:50:12 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:50:13 Collecting numpy>=1.19.0 (from tables)
00:50:13 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
00:50:13 Collecting numexpr>=2.6.2 (from tables)
00:50:13 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:50:13 Collecting packaging (from tables)
00:50:13 Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
00:50:13 Collecting py-cpuinfo (from tables)
00:50:13 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:50:14 Collecting blosc2>=2.3.0 (from tables)
00:50:14 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:50:14 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:50:14 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
00:50:14 Collecting msgpack (from blosc2>=2.3.0->tables)
00:50:14 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:50:14 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:50:14 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:50:14 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (396 kB)
00:50:15 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
00:50:16 Using cached packaging-24.2-py3-none-any.whl (65 kB)
00:50:16 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:50:16 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
00:50:16 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
00:50:16 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:50:20 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.0.2 packaging-24.2 py-cpuinfo-9.0.0 tables-3.9.2
00:50:20 + pip install jinja2
00:50:21 Collecting jinja2
00:50:21 Using cached jinja2-3.1.5-py3-none-any.whl.metadata (2.6 kB)
00:50:21 Collecting MarkupSafe>=2.0 (from jinja2)
00:50:21 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
00:50:21 Using cached jinja2-3.1.5-py3-none-any.whl (134 kB)
00:50:21 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB)
00:50:21 Installing collected packages: MarkupSafe, jinja2
00:50:22 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.5
00:50:22 + pip install omero-py
00:50:22 Collecting omero-py
00:50:22 Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
00:50:23 Collecting urllib3<2 (from omero-py)
00:50:23 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:50:23 Collecting appdirs (from omero-py)
00:50:23 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:50:23 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:50:23 Collecting numpy<2 (from omero-py)
00:50:23 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:50:23 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (11.0.0)
00:50:23 Collecting PyYAML (from omero-py)
00:50:23 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:50:23 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:50:23 Collecting requests (from omero-py)
00:50:23 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:50:24 Collecting portalocker (from omero-py)
00:50:24 Using cached portalocker-3.0.0-py3-none-any.whl.metadata (8.5 kB)
00:50:24 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:50:24 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
00:50:24 Collecting idna<4,>=2.5 (from requests->omero-py)
00:50:24 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:50:24 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:50:24 Using cached certifi-2024.12.14-py3-none-any.whl.metadata (2.3 kB)
00:50:24 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB)
00:50:24 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:50:25 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:50:25 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:50:25 Using cached portalocker-3.0.0-py3-none-any.whl (19 kB)
00:50:25 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
00:50:25 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:50:25 Using cached certifi-2024.12.14-py3-none-any.whl (164 kB)
00:50:25 Using cached charset_normalizer-3.4.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (146 kB)
00:50:25 Using cached idna-3.10-py3-none-any.whl (70 kB)
00:50:26 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
00:50:26 Attempting uninstall: numpy
00:50:26 Found existing installation: numpy 2.0.2
00:50:26 Uninstalling numpy-2.0.2:
00:50:26 Successfully uninstalled numpy-2.0.2
00:50:30 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.12.14 charset-normalizer-3.4.1 idna-3.10 numpy-1.26.4 omero-py-5.19.5 portalocker-3.0.0 requests-2.32.3 urllib3-1.26.20
00:50:30 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:50:31 Collecting omero-metadata
00:50:31 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-60sjwnq6/omero-metadata_9e240b6b4d71452380f7e209eb763e03
00:50:31 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-60sjwnq6/omero-metadata_9e240b6b4d71452380f7e209eb763e03
00:50:33 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 3ec067a4d83b753992891be790fa79353564f673
00:50:33 Installing build dependencies: started
00:50:35 Installing build dependencies: finished with status 'done'
00:50:35 Getting requirements to build wheel: started
00:50:35 Getting requirements to build wheel: finished with status 'done'
00:50:35 Preparing metadata (pyproject.toml): started
00:50:35 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:35 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
00:50:35 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
00:50:35 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.5)
00:50:36 Collecting pandas (from omero-metadata)
00:50:36 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
00:50:36 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:50:36 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:50:36 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:50:36 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:50:36 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (11.0.0)
00:50:36 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:50:36 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
00:50:36 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.0.0)
00:50:36 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (3.0.2)
00:50:36 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:50:36 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:50:36 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:50:36 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
00:50:36 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:50:36 Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB)
00:50:36 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:50:36 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.1)
00:50:36 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)
00:50:36 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.12.14)
00:50:36 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:50:37 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:50:37 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
00:50:37 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB)
00:50:37 Building wheels for collected packages: omero-metadata
00:50:37 Building wheel for omero-metadata (pyproject.toml): started
00:50:37 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:50:37 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39188 sha256=1e31027793fae67590f5c6ced27bd27c50545d60bb261f0e1874b81ca391f271
00:50:37 Stored in directory: /tmp/pip-ephem-wheel-cache-3tq1owbm/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:50:37 Successfully built omero-metadata
00:50:37 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:50:42 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2
00:50:43 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:50:43 Collecting omero-cli-render
00:50:43 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-fwarobmh/omero-cli-render_9e2b0d94733e48619c7668dce6acc8b9
00:50:43 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-fwarobmh/omero-cli-render_9e2b0d94733e48619c7668dce6acc8b9
00:50:44 Running command git checkout -b merge_ci --track origin/merge_ci
00:50:44 Switched to a new branch 'merge_ci'
00:50:44 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:50:44 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit bd878aa100204b21642b4fcb4d806cd19568507c
00:50:44 Installing build dependencies: started
00:50:46 Installing build dependencies: finished with status 'done'
00:50:46 Getting requirements to build wheel: started
00:50:46 Getting requirements to build wheel: finished with status 'done'
00:50:46 Preparing metadata (pyproject.toml): started
00:50:46 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:46 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
00:50:46 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
00:50:46 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:50:46 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:50:46 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:50:46 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:50:46 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.0.0)
00:50:46 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:50:46 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
00:50:46 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.0.0)
00:50:46 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.1)
00:50:46 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)
00:50:46 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.12.14)
00:50:46 Building wheels for collected packages: omero-cli-render
00:50:46 Building wheel for omero-cli-render (pyproject.toml): started
00:50:47 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:50:47 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19513 sha256=f621a59707287ad2493c932124226df05e45a5ce85ca065168dae965308d05c7
00:50:47 Stored in directory: /tmp/pip-ephem-wheel-cache-fnl4cmg2/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:50:47 Successfully built omero-cli-render
00:50:47 Installing collected packages: omero-cli-render
00:50:47 Successfully installed omero-cli-render-0.8.2.dev0
00:50:47 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:50:47 Collecting omero-cli-duplicate
00:50:47 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-ttlkhvfn/omero-cli-duplicate_7dcd106944a14aca83b076c376d2ea5c
00:50:47 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-ttlkhvfn/omero-cli-duplicate_7dcd106944a14aca83b076c376d2ea5c
00:50:48 Running command git checkout -b merge_ci --track origin/merge_ci
00:50:48 Switched to a new branch 'merge_ci'
00:50:48 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:50:48 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit dead84a4958be57d93732f645ced7dbdffafde92
00:50:48 Installing build dependencies: started
00:50:50 Installing build dependencies: finished with status 'done'
00:50:50 Getting requirements to build wheel: started
00:50:50 Getting requirements to build wheel: finished with status 'done'
00:50:50 Preparing metadata (pyproject.toml): started
00:50:51 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:51 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
00:50:51 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:50:51 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:50:51 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:50:51 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:50:51 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.0.0)
00:50:51 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:50:51 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:50:51 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
00:50:51 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.0.0)
00:50:51 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.1)
00:50:51 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)
00:50:51 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.12.14)
00:50:51 Building wheels for collected packages: omero-cli-duplicate
00:50:51 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:50:51 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:50:51 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=5ca4bf8b4e6cf823e121930a9905324e2763891980be1f6999561f6f49cb078b
00:50:51 Stored in directory: /tmp/pip-ephem-wheel-cache-974izh2h/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:50:51 Successfully built omero-cli-duplicate
00:50:51 Installing collected packages: omero-cli-duplicate
00:50:51 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:50:51 + pip install omero-certificates
00:50:52 Collecting omero-certificates
00:50:52 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:50:52 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
00:50:52 Collecting distro==1.8.0 (from omero-certificates)
00:50:52 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:50:52 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:50:52 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:50:52 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:50:52 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:50:52 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (11.0.0)
00:50:52 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:50:52 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:50:52 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
00:50:52 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.0.0)
00:50:52 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.1)
00:50:52 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)
00:50:52 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.12.14)
00:50:52 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:50:52 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:50:52 Installing collected packages: distro, omero-certificates
00:50:57 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:50:57 + for x in *.tar.gz
00:50:57 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:50:57 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:50:57 Installing build dependencies: started
00:51:00 Installing build dependencies: finished with status 'done'
00:51:00 Getting requirements to build wheel: started
00:51:00 Getting requirements to build wheel: finished with status 'done'
00:51:00 Preparing metadata (pyproject.toml): started
00:51:00 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:00 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
00:51:00 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:51:00 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:51:00 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:51:00 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
00:51:00 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.0.0)
00:51:00 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:51:00 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)
00:51:00 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
00:51:00 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.0.0)
00:51:00 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.1)
00:51:00 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)
00:51:00 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.12.14)
00:51:00 Building wheels for collected packages: omero-dropbox
00:51:00 Building wheel for omero-dropbox (pyproject.toml): started
00:51:01 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:51:01 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=4c590152fde32336722c18099c8824c51ec4a11d05b872a284eee7823bbeaebc
00:51:01 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
00:51:01 Successfully built omero-dropbox
00:51:01 Installing collected packages: omero-dropbox
00:51:01 Successfully installed omero-dropbox-5.7.1.dev0
00:51:01 + for x in *.tar.gz
00:51:01 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:51:01 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:51:01 Installing build dependencies: started
00:51:03 Installing build dependencies: finished with status 'done'
00:51:03 Getting requirements to build wheel: started
00:51:03 Getting requirements to build wheel: finished with status 'done'
00:51:03 Preparing metadata (pyproject.toml): started
00:51:04 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:04 Building wheels for collected packages: omero_marshal
00:51:04 Building wheel for omero_marshal (pyproject.toml): started
00:51:04 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:51:04 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88032 sha256=7aa0a95185a58b573e5088e83bd3aeffdb724e98c77af9e096879b9efa76da07
00:51:04 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:51:04 Successfully built omero_marshal
00:51:04 Installing collected packages: omero_marshal
00:51:04 Successfully installed omero_marshal-0.9.1.dev0
00:51:04 + for x in *.tar.gz
00:51:04 + pip install -U omero_py-5.19.6.dev0.tar.gz
00:51:05 Processing ./omero_py-5.19.6.dev0.tar.gz
00:51:05 Installing build dependencies: started
00:51:07 Installing build dependencies: finished with status 'done'
00:51:07 Getting requirements to build wheel: started
00:51:07 Getting requirements to build wheel: finished with status 'done'
00:51:07 Preparing metadata (pyproject.toml): started
00:51:07 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:07 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
00:51:07 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
00:51:08 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
00:51:08 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
00:51:08 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (11.0.0)
00:51:08 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
00:51:08 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)
00:51:08 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
00:51:08 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.0.0)
00:51:08 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.4.1)
00:51:08 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
00:51:08 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (2024.12.14)
00:51:08 Building wheels for collected packages: omero-py
00:51:08 Building wheel for omero-py (pyproject.toml): started
00:51:09 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:51:09 Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783250 sha256=d1784e877743b36f48bc74774bf30bb66fd4f6c9ed67cd26b6c4f6456111685a
00:51:09 Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
00:51:09 Successfully built omero-py
00:51:09 Installing collected packages: omero-py
00:51:09 Attempting uninstall: omero-py
00:51:09 Found existing installation: omero-py 5.19.5
00:51:09 Uninstalling omero-py-5.19.5:
00:51:09 Successfully uninstalled omero-py-5.19.5
00:51:11 Successfully installed omero-py-5.19.6.dev0
00:51:12 + for x in *.tar.gz
00:51:12 + pip install -U omero_scripts-5.9.1.dev0.tar.gz
00:51:12 Processing ./omero_scripts-5.9.1.dev0.tar.gz
00:51:12 Installing build dependencies: started
00:51:14 Installing build dependencies: finished with status 'done'
00:51:14 Getting requirements to build wheel: started
00:51:14 Getting requirements to build wheel: finished with status 'done'
00:51:14 Preparing metadata (pyproject.toml): started
00:51:14 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:14 Building wheels for collected packages: omero-scripts
00:51:14 Building wheel for omero-scripts (pyproject.toml): started
00:51:15 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:51:15 Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136799 sha256=d6a742d9cae6428679709c63cb5814e7c7fa55088b0f725daa985f965f9df8cb
00:51:15 Stored in directory: /home/omero/.cache/pip/wheels/4d/ea/13/654c1b7c00351342c84d3e545702a0063ab8e12d260d83323c
00:51:15 Successfully built omero-scripts
00:51:15 Installing collected packages: omero-scripts
00:51:15 Successfully installed omero-scripts-5.9.1.dev0
00:51:15 + for x in *.tar.gz
00:51:15 + pip install -U omero_web-5.28.1.dev0.tar.gz
00:51:15 Processing ./omero_web-5.28.1.dev0.tar.gz
00:51:16 Installing build dependencies: started
00:51:18 Installing build dependencies: finished with status 'done'
00:51:18 Getting requirements to build wheel: started
00:51:18 Getting requirements to build wheel: finished with status 'done'
00:51:18 Preparing metadata (pyproject.toml): started
00:51:18 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:18 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (5.19.6.dev0)
00:51:18 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.28.1.dev0)
00:51:18 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:51:19 Collecting Django<4.3,>=4.2.3 (from omero-web==5.28.1.dev0)
00:51:19 Using cached Django-4.2.17-py3-none-any.whl.metadata (4.1 kB)
00:51:19 Collecting django-pipeline (from omero-web==5.28.1.dev0)
00:51:19 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
00:51:19 Collecting django-cors-headers==3.7.0 (from omero-web==5.28.1.dev0)
00:51:19 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:51:19 Collecting django-csp (from omero-web==5.28.1.dev0)
00:51:19 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:51:19 Collecting whitenoise>=5.3.0 (from omero-web==5.28.1.dev0)
00:51:19 Using cached whitenoise-6.8.2-py3-none-any.whl.metadata (3.6 kB)
00:51:20 Collecting gunicorn>=19.3 (from omero-web==5.28.1.dev0)
00:51:20 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:51:20 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (0.9.1.dev0)
00:51:20 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (11.0.0)
00:51:20 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (2024.2)
00:51:20 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (3.0.0)
00:51:20 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (24.2)
00:51:20 Collecting importlib-resources (from omero-web==5.28.1.dev0)
00:51:20 Using cached importlib_resources-6.4.5-py3-none-any.whl.metadata (4.0 kB)
00:51:20 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:51:20 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:51:20 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:51:20 Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
00:51:20 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.26.20)
00:51:20 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.4.4)
00:51:20 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.0.0)
00:51:20 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.26.4)
00:51:20 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (6.0.2)
00:51:20 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==5.28.1.dev0) (3.6.5)
00:51:20 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (2.32.3)
00:51:20 Requirement already satisfied: setuptools in ./.venv3/lib/python3.9/site-packages (from django-pipeline->omero-web==5.28.1.dev0) (53.0.0)
00:51:20 Collecting wheel (from django-pipeline->omero-web==5.28.1.dev0)
00:51:20 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
00:51:20 Requirement already satisfied: zipp>=3.1.0 in ./.venv3/lib/python3.9/site-packages (from importlib-resources->omero-web==5.28.1.dev0) (3.21.0)
00:51:20 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:51:20 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
00:51:21 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.4.1)
00:51:21 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.10)
00:51:21 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (2024.12.14)
00:51:21 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:51:21 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:51:21 Using cached Django-4.2.17-py3-none-any.whl (8.0 MB)
00:51:21 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:51:21 Using cached whitenoise-6.8.2-py3-none-any.whl (20 kB)
00:51:21 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:51:21 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
00:51:21 Using cached importlib_resources-6.4.5-py3-none-any.whl (36 kB)
00:51:21 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:51:22 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
00:51:22 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
00:51:22 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
00:51:22 Building wheels for collected packages: omero-web
00:51:22 Building wheel for omero-web (pyproject.toml): started
00:51:23 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:51:23 Created wheel for omero-web: filename=omero_web-5.28.1.dev0-py3-none-any.whl size=2771008 sha256=c84220b429689b7cac66628de142cdadeffe3dd3bf1889dbaf0bc35217aaa2fb
00:51:23 Stored in directory: /home/omero/.cache/pip/wheels/97/1e/88/508867809512b265cdeb53be905e01f64ea0b8d6c0b64f8ebd
00:51:23 Successfully built omero-web
00:51:23 Installing collected packages: whitenoise, wheel, typing-extensions, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, django-pipeline, asgiref, Django, django-csp, django-cors-headers, omero-web
00:51:26 Successfully installed Django-4.2.17 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.4.5 omero-web-5.28.1.dev0 sqlparse-0.5.3 typing-extensions-4.12.2 wheel-0.45.1 whitenoise-6.8.2
00:51:26 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:51:28 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:51:28 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:51:28 --2024-12-26 00:51:28-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:51:28 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.109.133, 185.199.108.133, ...
00:51:28 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
00:51:28 HTTP request sent, awaiting response... 200 OK
00:51:28 Length: 102311 (100K) [text/plain]
00:51:28 Saving to: ‘Figure_To_Pdf.py’
00:51:28
00:51:28 0K .......... .......... .......... .......... .......... 50% 3.53M 0s
00:51:28 50K .......... .......... .......... .......... ......... 100% 5.62M=0.02s
00:51:28
00:51:28 2024-12-26 00:51:28 (4.34 MB/s) - ‘Figure_To_Pdf.py’ saved [102311/102311]
00:51:28
00:51:28 + chmod 755 Figure_To_Pdf.py
00:51:28 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:51:28 + omero config set omero.db.name OMERO-server
00:51:30 + omero config set omero.db.host pg
00:51:32 + omero config set omero.db.user postgres
00:51:33 + omero config set omero.data.dir /home/omero/omero-server-data
00:51:34 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:51:36 + omero config set omero.db.poolsize 25
00:51:37 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:51:39 + omero config set omero.security.trustStorePassword changeit
00:51:40 + omero config set omero.mail.config true
00:51:42 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:51:43 + omero config set omero.mail.host smtp.dundee.ac.uk
00:51:44 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:51:46 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:51:47 + omero certificates
00:51:49 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:51:49 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:51:49 + '[' false = true ']'
00:51:49 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:51:49 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:51:49 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG dbcommand => upgrade
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG dbhost => localhost
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG dbname => OMERO-server
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG dbpass => omero
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG dbuser => omero
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG rootpass => omero
00:51:50 2024-12-26 00:51:50,084 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:51:50 2024-12-26 00:51:50,084 [omego.extern] INFO Executing : omero version
00:51:51 OMERO.py version:
00:51:51 OMERO.server version:
00:51:51 5.6.3-531-d1acd29004-ice36
00:51:51 5.19.6.dev0
00:51:51 2024-12-26 00:51:51,651 [omego.extern] INFO Completed [1.567 s]
00:51:51 2024-12-26 00:51:51,652 [omego.extern] DEBUG Using omero CLI from omero
00:51:51 2024-12-26 00:51:51,652 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:51:51 2024-12-26 00:51:51,652 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:51 2024-12-26 00:51:51,652 [omego.extern] INFO Executing : omero config get --show-password
00:51:53 2024-12-26 00:51:53,161 [omego.extern] INFO Completed [1.509 s]
00:51:53 2024-12-26 00:51:53,162 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:53 2024-12-26 00:51:53,162 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:51:53 2024-12-26 00:51:53,957 [omego.extern] INFO Completed [0.795 s]
00:51:53 2024-12-26 00:51:53,957 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
00:51:53 2024-12-26 00:51:53,957 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4
00:51:53
00:51:53 2024-12-26 00:51:53,957 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:53 2024-12-26 00:51:53,957 [omego.extern] INFO Executing : omero config get --show-password
00:51:55 2024-12-26 00:51:55,403 [omego.extern] INFO Completed [1.445 s]
00:51:55 2024-12-26 00:51:55,403 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:55 2024-12-26 00:51:55,404 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:51:55 2024-12-26 00:51:55,689 [omego.extern] INFO Completed [0.285 s]
00:51:55 2024-12-26 00:51:55,689 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.7") at port "5432".\n'
00:51:55 2024-12-26 00:51:55,689 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:51:55 2024-12-26 00:51:55,689 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:55 2024-12-26 00:51:55,689 [omego.extern] INFO Executing : omero config get --show-password
00:51:57 2024-12-26 00:51:57,147 [omego.extern] INFO Completed [1.457 s]
00:51:57 2024-12-26 00:51:57,147 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:57 2024-12-26 00:51:57,148 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:51:57 2024-12-26 00:51:57,584 [omego.extern] INFO Completed [0.436 s]
00:51:57 2024-12-26 00:51:57,584 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:51:57 2024-12-26 00:51:57,584 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:51:57 2024-12-26 00:51:57,586 [ omego.db] INFO Database is already at OMERO5.4__0
00:51:57 + export LANG=en_US.UTF-8
00:51:57 + LANG=en_US.UTF-8
00:51:57 + export LANGUAGE=en_US:en
00:51:57 + LANGUAGE=en_US:en
00:51:57 + export LC_ALL=en_US.UTF-8
00:51:57 + LC_ALL=en_US.UTF-8
00:51:57 + BUILD_ID=DONT_KILL_ME
00:51:57 + omero admin start
00:52:11 No descriptor given. Using etc/grid/default.xml
00:52:23 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:52:23 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:52:23 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:52:23 Waiting on startup. Use CTRL-C to exit
00:52:23 + omero admin waitup
00:52:24 Waiting on startup. Use CTRL-C to exit
00:52:25 + omero admin diagnostics
00:52:26
00:52:26 ================================================================================
00:52:26 OMERO Diagnostics (admin)
00:52:26 ================================================================================
00:52:26
00:52:26 Commands: java -version 11.0.24 (/usr/bin/java)
00:52:26 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:52:26 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:52:26 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:52:26 Commands: psql --version 16.4 (/usr/bin/psql)
00:52:26 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:52:26
00:52:26 Component: OMERO.py 5.19.6.dev0
00:52:26 Component: OMERO.server 5.6.3-531-d1acd29004-ice36
00:52:26
00:52:26 Server: icegridnode running
00:52:26 Server: Blitz-0 active (pid = 13492, enabled)
00:52:26 Server: Indexer-0 activating (enabled)
00:52:26 Server: OMERO.Glacier2 active (pid = 13516, enabled)
00:52:26 Server: OMERO.IceStorm active (pid = 13523, enabled)
00:52:26 Server: Processor-0 activating (enabled)
00:52:26 Server: Tables-0 activating (enabled)
00:52:26
00:52:26 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:52:26 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
00:52:26 Log files: DropBox.log n/a
00:52:26 Log files: FileServer.log n/a
00:52:26 Log files: Indexer-0.log 745 B
00:52:26 Log files: MonitorServer.log n/a
00:52:26 Log files: Processor-0.log 592 B
00:52:26 Log files: Tables-0.log 841 B
00:52:26 Log files: TestDropBox.log n/a
00:52:26 Log files: master.err 180 B
00:52:26 Log files: master.out 30.1 KB
00:52:26 Log files: Total size 0.05 MB
00:52:26
00:52:26
00:52:26 Environment:OMERO_HOME=(unset)
00:52:26 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:52:26 Environment:OMERO_NODE=(unset)
00:52:26 Environment:OMERO_MASTER=(unset)
00:52:26 Environment:OMERO_USERDIR=(unset)
00:52:26 Environment:OMERO_TMPDIR=(unset)
00:52:26 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:52:26 Environment:PYTHONPATH=(unset)
00:52:26 Environment:ICE_HOME=/opt/ice-3.6.5
00:52:26 Environment:LD_LIBRARY_PATH=(unset)
00:52:26 Environment:DYLD_LIBRARY_PATH=(unset)
00:52:27
00:52:27 OMERO SSL port:4064
00:52:27 OMERO TCP port:4063
00:52:27 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:52:27 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:52:27
00:52:27 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:27 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:27 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:27 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:27
00:52:27 Jar: lib/server/formats-api.jar Bio-Formats API 8.1.0-SNAPSHOT 26 December 2024 fe7b5834e0a401bb1dc00026016d2b5492262124
00:52:27 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.1.0-SNAPSHOT 26 December 2024 fe7b5834e0a401bb1dc00026016d2b5492262124
00:52:27 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.1.0-SNAPSHOT 26 December 2024 fe7b5834e0a401bb1dc00026016d2b5492262124
00:52:27 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 26 December 2024 f09699819aca02cf8f84a7454361fb25aaaf7dae
00:52:27 Jar: lib/server/ome-common.jar OME Common Java 6.0.25-SNAPSHOT 26 December 2024 f09699819aca02cf8f84a7454361fb25aaaf7dae
00:52:27 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 26 December 2024 f09699819aca02cf8f84a7454361fb25aaaf7dae
00:52:27 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 26 December 2024 f09699819aca02cf8f84a7454361fb25aaaf7dae
00:52:27 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 26 December 2024 f09699819aca02cf8f84a7454361fb25aaaf7dae
00:52:27 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 26 December 2024 f09699819aca02cf8f84a7454361fb25aaaf7dae
00:52:27 Jar: lib/server/omero-blitz.jar jar 5.8.1-SNAPSHOT
00:52:27 Jar: lib/server/omero-common.jar jar 5.7.1-SNAPSHOT
00:52:27 Jar: lib/server/omero-gateway.jar jar 5.10.1-SNAPSHOT
00:52:27 Jar: lib/server/omero-model.jar jar 5.7.1-SNAPSHOT
00:52:27 Jar: lib/server/omero-renderer.jar jar 5.6.1-SNAPSHOT
00:52:27 Jar: lib/server/omero-romio.jar jar 5.8.1-SNAPSHOT
00:52:27 Jar: lib/server/omero-server.jar jar 5.7.1-SNAPSHOT
00:52:27 + deactivate
00:52:27 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:52:27 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:52:27 + export PATH
00:52:27 + unset _OLD_VIRTUAL_PATH
00:52:27 + '[' -n '' ']'
00:52:27 + '[' -n /bin/bash -o -n '' ']'
00:52:27 + hash -r
00:52:27 + '[' -n '' ']'
00:52:27 + unset VIRTUAL_ENV
00:52:27 + '[' '!' '' = nondestructive ']'
00:52:27 + unset -f deactivate
00:52:27 Finished: SUCCESS
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