10:06:58 Started by upstream project "Trigger" build number 206
10:06:58 originally caused by:
10:06:58 Started by user devspace
10:06:58 Running as SYSTEM
10:06:58 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
10:06:59 [OMERO-server] $ /bin/bash -xe /tmp/jenkins9212646240470985494.sh
10:06:59 + source /home/settings.env
10:06:59 ++ OMERO_DB_HOST=pg
10:06:59 ++ OMERO_DB_USER=postgres
10:06:59 ++ OMERO_DB_PASS=
10:06:59 ++ OMERO_ROOT_PASS=omero
10:06:59 ++ OMERO_DATA_DIR=/OMERO
10:06:59 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
10:06:59 + OMERO_DB_NAME=OMERO-server
10:06:59 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
10:06:59 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:06:59 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:06:59 + OMERO_DATA_DIR=/home/omero/omero-server-data
10:06:59 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
10:06:59 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
10:06:59 ++ deactivate nondestructive
10:06:59 ++ '[' -n '' ']'
10:06:59 ++ '[' -n '' ']'
10:06:59 ++ '[' -n /bin/bash -o -n '' ']'
10:06:59 ++ hash -r
10:06:59 ++ '[' -n '' ']'
10:06:59 ++ unset VIRTUAL_ENV
10:06:59 ++ '[' '!' nondestructive = nondestructive ']'
10:06:59 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
10:06:59 ++ export VIRTUAL_ENV
10:06:59 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:06:59 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:06:59 ++ export PATH
10:06:59 ++ '[' -n '' ']'
10:06:59 ++ '[' -z '' ']'
10:06:59 ++ _OLD_VIRTUAL_PS1=
10:06:59 ++ PS1='(.venv3) '
10:06:59 ++ export PS1
10:06:59 ++ '[' -n /bin/bash -o -n '' ']'
10:06:59 ++ hash -r
10:06:59 + omero admin stop
10:07:25 Server not running
10:07:25 + echo not running
10:07:25 not running
10:07:25 + sleep 5
10:07:30 + deactivate
10:07:30 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
10:07:30 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:07:30 + export PATH
10:07:30 + unset _OLD_VIRTUAL_PATH
10:07:30 + '[' -n '' ']'
10:07:30 + '[' -n /bin/bash -o -n '' ']'
10:07:30 + hash -r
10:07:30 + '[' -n '' ']'
10:07:30 + unset VIRTUAL_ENV
10:07:30 + '[' '!' '' = nondestructive ']'
10:07:30 + unset -f deactivate
10:07:30 + rm -rf /home/omero/workspace/OMERO-server/.venv3
10:07:31 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
10:07:35 + '[' false = true ']'
10:07:35 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
10:07:35 Skipping PURGE_DATA:CleanDbAndRepo
10:07:35 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.5-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.5.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.4.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.27.2.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
10:07:38 Copied 1 artifact from "OMERO-build" build number 171
10:07:39 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 169
10:07:39 Copied 2 artifacts from "OMERO-build-build" build number 177
10:07:39 [OMERO-server] $ /bin/bash -xe /tmp/jenkins3136864949267402453.sh
10:07:39 + source /home/settings.env
10:07:39 ++ OMERO_DB_HOST=pg
10:07:39 ++ OMERO_DB_USER=postgres
10:07:39 ++ OMERO_DB_PASS=
10:07:39 ++ OMERO_ROOT_PASS=omero
10:07:39 ++ OMERO_DATA_DIR=/OMERO
10:07:39 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
10:07:39 + OMERO_DB_NAME=OMERO-server
10:07:39 + OMERO_DATA_DIR=/home/omero/omero-server-data
10:07:39 + mkdir -p /home/omero/omero-server-data
10:07:39 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
10:07:39 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:07:39 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:07:39 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
10:07:39 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
10:07:39 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
10:07:39 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
10:07:39 ++ ls OMERO.server-5.6.3-504-fd852ee75d-ice36.zip
10:07:39 + ZIP=OMERO.server-5.6.3-504-fd852ee75d-ice36.zip
10:07:39 + '[' '!' -z '' ']'
10:07:39 + DIST=OMERO.server-5.6.3-504-fd852ee75d-ice36
10:07:39 + unzip OMERO.server-5.6.3-504-fd852ee75d-ice36.zip
10:07:39 Archive: OMERO.server-5.6.3-504-fd852ee75d-ice36.zip
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/blitz/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/grid/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/profiles/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/error/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/grid/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/luts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/luts/janelia/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/luts/ncsa_paledit/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/luts/wcif/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/analysis_scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/annotation_scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/export_scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/figure_scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/import_scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/scripts/omero/util_scripts/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/misc/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__1/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__10/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__11/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__2/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__3/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__4/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__5/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__6/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__7/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__8/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__9/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__4/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__5/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__6/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__7/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.1__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.2__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.2__0/t/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.3__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.4__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.0__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.1__1/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.2__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4DEV__1/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4DEV__2/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4DEV__3/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/
10:07:39 creating: OMERO.server-5.6.3-504-fd852ee75d-ice36/var/
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/LICENSE.txt
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/backup.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/blitz/mail-senders.example
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/blitz/mail-server.example
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/build.properties
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/env.bat
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/env.sh
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/hibernate.properties
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/ice.config
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/logback-cli.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/logback-indexing-cli.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/logback-indexing.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/logback.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/mime.types
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/node1.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/node2.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/omero.properties
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/profiles/psql
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/rollover.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/Windows.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/error/maintainance.html
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/grid/README
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/grid/default.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/grid/templates.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/grid/windefault.xml
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/ice.config
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/internal.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/master.cfg
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/templates/robot.template
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/etc/testdropbox.config
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/history.rst
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/OMEZarrReader.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/activation.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/aggdesigner-algorithm.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/aircompressor.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/annotations.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/antlr.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/aopalliance.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/avatica-core.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/avatica-metrics.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/aws-java-sdk-core.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/aws-java-sdk-kms.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/aws-java-sdk-s3.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/base.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-all.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-anim.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-awt-util.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-bridge.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-codec.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-constants.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-css.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-dom.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-ext.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-extension.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-gui-util.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-gvt.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-i18n.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-parser.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-rasterizer-ext.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-rasterizer.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-script.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-slideshow.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-squiggle-ext.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-squiggle.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-svg-dom.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-svgbrowser.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-svggen.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-svgpp.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-svgrasterizer.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-swing.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-transcoder.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-ttf2svg.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-util.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/batik-xml.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/btm.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/bufr.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/c3p0.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/calcite-core.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/calcite-linq4j.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/cdm-core.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/checker-qual.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/commons-beanutils.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/commons-codec.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/commons-collections.jar
10:07:39 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/client/commons-collections4.jar
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10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/protobuf-java.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/quartz.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/re2j.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/reflectasm.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/rhino.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/serializer.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/sketches-core.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/slf4j-api.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/snakeyaml.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/solr-analysis-extras.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/solr-commons-csv.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/solr-core.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/solr-solrj.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/specification.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-aop.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-beans.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-context-support.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-context.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-core.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-expression.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-jdbc.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-jms.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-ldap-core.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-messaging.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-orm.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-security-core.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-security-ldap.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/spring-tx.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/sqlite-jdbc.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/subethasmtp.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/turbojpeg.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/udunits.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xalan.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xercesImpl.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xml-apis-ext.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xml-apis.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xmlgraphics-commons.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xmpcore.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/lib/server/xpp3.jar
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/README
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/agpl.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/antlr.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/apache-v1.1.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/apache-v2.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/asm.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/bouncy_castle_license.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/bsd.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/cddl-v1.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/cpl-v10.html
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/crystalclear.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/django.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/dom4j.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/epl-v1.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/fbsd.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/freemarker.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/gpl-v2.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/gpl.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/gtest.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/iconsweets_license.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/jamon.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/jmock.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/jquery.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/jtidy.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/lgpl-3.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/lgpl-v2.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/lgpl-v2.1.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/lgpl-v3.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/lgpl.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/matplotlib.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/mit.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/mpl-v1_0.htm
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/npl-1_1.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/path.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/pil.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/postgresql.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/psf-v2.0.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/psf-v2.5.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/scons.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/slf4j.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/tablelayout.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/which.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/zlib-libpng.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/share/licenses/zpl-v2.1.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/README.txt
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/misc/Makefile
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/misc/current.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/misc/enums.py
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/psql-header.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/schema.sql
10:07:41 inflating: OMERO.server-5.6.3-504-fd852ee75d-ice36/sql/psql/OMERO5.4__0/views.sql
10:07:41 + rm -f OMERO.server-5.6.3-504-fd852ee75d-ice36.zip
10:07:41 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-504-fd852ee75d-ice36 /home/omero/workspace/OMERO-server/OMERO.server
10:07:41 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
10:07:41 ++ deactivate nondestructive
10:07:41 ++ '[' -n '' ']'
10:07:41 ++ '[' -n '' ']'
10:07:41 ++ '[' -n /bin/bash -o -n '' ']'
10:07:41 ++ hash -r
10:07:41 ++ '[' -n '' ']'
10:07:41 ++ unset VIRTUAL_ENV
10:07:41 ++ '[' '!' nondestructive = nondestructive ']'
10:07:41 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
10:07:41 ++ export VIRTUAL_ENV
10:07:41 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:07:41 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:07:41 ++ export PATH
10:07:41 ++ '[' -n '' ']'
10:07:41 ++ '[' -z '' ']'
10:07:41 ++ _OLD_VIRTUAL_PS1=
10:07:41 ++ PS1='(.venv3) '
10:07:41 ++ export PS1
10:07:41 ++ '[' -n /bin/bash -o -n '' ']'
10:07:41 ++ hash -r
10:07:41 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
10:07:42 Collecting zeroc-ice==3.6.5
10:07:43 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
10:07:44 Installing collected packages: zeroc-ice
10:07:45 Successfully installed zeroc-ice-3.6.5
10:07:45 + pip install -U pip future
10:07:46 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
10:07:46 Collecting pip
10:07:46 Using cached pip-24.2-py3-none-any.whl (1.8 MB)
10:07:46 Collecting future
10:07:46 Using cached future-1.0.0-py3-none-any.whl (491 kB)
10:07:46 Installing collected packages: pip, future
10:07:46 Attempting uninstall: pip
10:07:46 Found existing installation: pip 21.2.3
10:07:47 Uninstalling pip-21.2.3:
10:07:47 Successfully uninstalled pip-21.2.3
10:07:48 Successfully installed future-1.0.0 pip-24.2
10:07:48 + pip install markdown
10:07:49 Collecting markdown
10:07:49 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
10:07:50 Collecting importlib-metadata>=4.4 (from markdown)
10:07:50 Using cached importlib_metadata-8.4.0-py3-none-any.whl.metadata (4.7 kB)
10:07:50 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
10:07:50 Using cached zipp-3.20.1-py3-none-any.whl.metadata (3.7 kB)
10:07:50 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
10:07:50 Using cached importlib_metadata-8.4.0-py3-none-any.whl (26 kB)
10:07:50 Using cached zipp-3.20.1-py3-none-any.whl (9.0 kB)
10:07:50 Installing collected packages: zipp, importlib-metadata, markdown
10:07:50 Successfully installed importlib-metadata-8.4.0 markdown-3.7 zipp-3.20.1
10:07:50 + pip install reportlab
10:07:51 Collecting reportlab
10:07:51 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
10:07:52 Collecting pillow>=9.0.0 (from reportlab)
10:07:52 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
10:07:52 Collecting chardet (from reportlab)
10:07:52 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
10:07:52 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
10:07:52 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
10:07:52 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
10:07:52 Installing collected packages: pillow, chardet, reportlab
10:07:54 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
10:07:54 + pip install omego
10:07:55 Collecting omego
10:07:55 Using cached omego-0.7.0-py3-none-any.whl
10:07:55 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
10:07:55 Collecting yaclifw>=0.1.1 (from omego)
10:07:55 Using cached yaclifw-0.2.0-py3-none-any.whl
10:07:55 Collecting six (from yaclifw>=0.1.1->omego)
10:07:55 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
10:07:55 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
10:07:55 Installing collected packages: six, yaclifw, omego
10:07:55 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
10:07:55 + pip install tables
10:07:56 Collecting tables
10:07:56 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
10:07:57 Collecting numpy>=1.19.0 (from tables)
10:07:57 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
10:07:57 Collecting numexpr>=2.6.2 (from tables)
10:07:57 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
10:07:57 Collecting packaging (from tables)
10:07:57 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
10:07:57 Collecting py-cpuinfo (from tables)
10:07:57 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
10:07:58 Collecting blosc2>=2.3.0 (from tables)
10:07:58 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
10:07:58 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
10:07:58 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
10:07:58 Collecting msgpack (from blosc2>=2.3.0->tables)
10:07:58 Downloading msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
10:07:58 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
10:07:58 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
10:07:58 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
10:07:58 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
10:07:58 Using cached packaging-24.1-py3-none-any.whl (53 kB)
10:07:59 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
10:07:59 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
10:07:59 Downloading msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
10:07:59 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
10:08:03 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.8 numexpr-2.10.1 numpy-2.0.2 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
10:08:03 + pip install jinja2
10:08:04 Collecting jinja2
10:08:04 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
10:08:04 Collecting MarkupSafe>=2.0 (from jinja2)
10:08:04 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
10:08:04 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
10:08:04 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
10:08:04 Installing collected packages: MarkupSafe, jinja2
10:08:04 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
10:08:05 + pip install omero-py
10:08:05 Collecting omero-py
10:08:05 Using cached omero_py-5.19.4-py3-none-any.whl.metadata (6.3 kB)
10:08:05 Collecting urllib3<2 (from omero-py)
10:08:05 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
10:08:05 Collecting appdirs (from omero-py)
10:08:05 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
10:08:05 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
10:08:06 Collecting numpy<2 (from omero-py)
10:08:06 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
10:08:06 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
10:08:06 Collecting PyYAML (from omero-py)
10:08:06 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
10:08:06 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
10:08:06 Collecting requests (from omero-py)
10:08:06 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
10:08:06 Collecting portalocker (from omero-py)
10:08:06 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
10:08:06 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
10:08:06 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
10:08:06 Collecting idna<4,>=2.5 (from requests->omero-py)
10:08:06 Using cached idna-3.8-py3-none-any.whl.metadata (9.9 kB)
10:08:06 Collecting certifi>=2017.4.17 (from requests->omero-py)
10:08:06 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
10:08:06 Using cached omero_py-5.19.4-py3-none-any.whl (2.8 MB)
10:08:07 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
10:08:07 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
10:08:07 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
10:08:07 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
10:08:07 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
10:08:07 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
10:08:07 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
10:08:07 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
10:08:07 Using cached idna-3.8-py3-none-any.whl (66 kB)
10:08:07 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
10:08:08 Attempting uninstall: numpy
10:08:08 Found existing installation: numpy 2.0.2
10:08:08 Uninstalling numpy-2.0.2:
10:08:08 Successfully uninstalled numpy-2.0.2
10:08:13 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.8.30 charset-normalizer-3.3.2 idna-3.8 numpy-1.26.4 omero-py-5.19.4 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.20
10:08:13 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
10:08:13 Collecting omero-metadata
10:08:13 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-u20ag4n0/omero-metadata_9267fd19a13f46728ddea6d8ebba65a3
10:08:13 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-u20ag4n0/omero-metadata_9267fd19a13f46728ddea6d8ebba65a3
10:08:14 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit d3241263627ce156f1716010814957a387d26d0b
10:08:14 Installing build dependencies: started
10:08:17 Installing build dependencies: finished with status 'done'
10:08:17 Getting requirements to build wheel: started
10:08:18 Getting requirements to build wheel: finished with status 'done'
10:08:18 Preparing metadata (pyproject.toml): started
10:08:18 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:18 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.4)
10:08:18 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
10:08:18 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
10:08:18 Collecting pandas (from omero-metadata)
10:08:18 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
10:08:19 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
10:08:19 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
10:08:19 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
10:08:19 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
10:08:19 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.4.0)
10:08:19 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
10:08:19 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
10:08:19 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
10:08:19 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
10:08:19 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
10:08:19 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
10:08:19 Collecting pytz>=2020.1 (from pandas->omero-metadata)
10:08:19 Downloading pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
10:08:19 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
10:08:19 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
10:08:19 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
10:08:19 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
10:08:19 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.8)
10:08:19 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)
10:08:19 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
10:08:19 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
10:08:19 Downloading pytz-2024.2-py2.py3-none-any.whl (508 kB)
10:08:19 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
10:08:19 Building wheels for collected packages: omero-metadata
10:08:19 Building wheel for omero-metadata (pyproject.toml): started
10:08:20 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
10:08:20 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39188 sha256=cbc5ab9275c13db54ed6ecacee044dbe0f7d7dc1e581e90be70485954de2bd81
10:08:20 Stored in directory: /tmp/pip-ephem-wheel-cache-yz98y4tj/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
10:08:20 Successfully built omero-metadata
10:08:20 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
10:08:26 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.1
10:08:26 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
10:08:27 Collecting omero-cli-render
10:08:27 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-cgprbtds/omero-cli-render_b6204c6b7dd94b20a24f50667718cdfd
10:08:27 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-cgprbtds/omero-cli-render_b6204c6b7dd94b20a24f50667718cdfd
10:08:27 Running command git checkout -b merge_ci --track origin/merge_ci
10:08:28 Switched to a new branch 'merge_ci'
10:08:28 branch 'merge_ci' set up to track 'origin/merge_ci'.
10:08:28 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 02293cfb6b401b1e3d3d87ec59da9765054a81db
10:08:28 Installing build dependencies: started
10:08:30 Installing build dependencies: finished with status 'done'
10:08:30 Getting requirements to build wheel: started
10:08:30 Getting requirements to build wheel: finished with status 'done'
10:08:30 Preparing metadata (pyproject.toml): started
10:08:30 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:30 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
10:08:30 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.4)
10:08:30 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
10:08:30 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
10:08:30 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
10:08:30 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
10:08:30 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.4.0)
10:08:30 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
10:08:30 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
10:08:30 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
10:08:31 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
10:08:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.8)
10:08:31 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)
10:08:31 Building wheels for collected packages: omero-cli-render
10:08:31 Building wheel for omero-cli-render (pyproject.toml): started
10:08:31 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
10:08:31 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18030 sha256=7226b35b0fc69d94daacb2a3c9c3787d279de16fed1eb2fb281f7d61b5fac213
10:08:31 Stored in directory: /tmp/pip-ephem-wheel-cache-lt_9ct4g/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
10:08:31 Successfully built omero-cli-render
10:08:31 Installing collected packages: omero-cli-render
10:08:31 Successfully installed omero-cli-render-0.8.2.dev0
10:08:31 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
10:08:31 Collecting omero-cli-duplicate
10:08:31 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-r9bqkjva/omero-cli-duplicate_c4bc5de423604d17bbfc81345b18b9bd
10:08:31 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-r9bqkjva/omero-cli-duplicate_c4bc5de423604d17bbfc81345b18b9bd
10:08:32 Running command git checkout -b merge_ci --track origin/merge_ci
10:08:33 Switched to a new branch 'merge_ci'
10:08:33 branch 'merge_ci' set up to track 'origin/merge_ci'.
10:08:33 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 950268e4b7513e260df95365776c9d370fd48425
10:08:33 Installing build dependencies: started
10:08:36 Installing build dependencies: finished with status 'done'
10:08:36 Getting requirements to build wheel: started
10:08:36 Getting requirements to build wheel: finished with status 'done'
10:08:36 Preparing metadata (pyproject.toml): started
10:08:37 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:37 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.4)
10:08:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
10:08:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
10:08:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
10:08:37 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
10:08:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.4.0)
10:08:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
10:08:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
10:08:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
10:08:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
10:08:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
10:08:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.8)
10:08:37 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)
10:08:37 Building wheels for collected packages: omero-cli-duplicate
10:08:37 Building wheel for omero-cli-duplicate (pyproject.toml): started
10:08:37 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
10:08:37 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=cc1bdde7e730a3fb373731e433f95a43135552fa19d6649d47459301b99d5a6f
10:08:37 Stored in directory: /tmp/pip-ephem-wheel-cache-cyvv_j3g/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
10:08:37 Successfully built omero-cli-duplicate
10:08:37 Installing collected packages: omero-cli-duplicate
10:08:37 Successfully installed omero-cli-duplicate-0.4.1.dev0
10:08:38 + pip install omero-certificates
10:08:38 Collecting omero-certificates
10:08:38 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
10:08:38 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.4)
10:08:38 Collecting distro==1.8.0 (from omero-certificates)
10:08:38 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
10:08:38 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
10:08:38 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
10:08:38 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
10:08:38 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
10:08:38 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.4.0)
10:08:38 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
10:08:38 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
10:08:38 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
10:08:38 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
10:08:38 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
10:08:38 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.8)
10:08:38 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)
10:08:38 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
10:08:38 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
10:08:38 Installing collected packages: distro, omero-certificates
10:08:38 Successfully installed distro-1.8.0 omero-certificates-0.3.2
10:08:38 + for x in *.tar.gz
10:08:38 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
10:08:39 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
10:08:39 Installing build dependencies: started
10:08:41 Installing build dependencies: finished with status 'done'
10:08:41 Getting requirements to build wheel: started
10:08:41 Getting requirements to build wheel: finished with status 'done'
10:08:41 Preparing metadata (pyproject.toml): started
10:08:41 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:41 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.4)
10:08:41 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
10:08:41 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
10:08:41 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
10:08:41 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
10:08:41 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.4.0)
10:08:41 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
10:08:41 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
10:08:41 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
10:08:41 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
10:08:41 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.3.2)
10:08:41 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.8)
10:08:41 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)
10:08:41 Building wheels for collected packages: omero-dropbox
10:08:41 Building wheel for omero-dropbox (pyproject.toml): started
10:08:42 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
10:08:42 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49055 sha256=cffe56ab2b2999c8c6fa26be9f5503d2b10803eae606f4bc23dab0fb54477fea
10:08:42 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
10:08:42 Successfully built omero-dropbox
10:08:42 Installing collected packages: omero-dropbox
10:08:42 Successfully installed omero-dropbox-5.7.1.dev0
10:08:42 + for x in *.tar.gz
10:08:42 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
10:08:43 Processing ./omero_marshal-0.9.1.dev0.tar.gz
10:08:43 Installing build dependencies: started
10:08:45 Installing build dependencies: finished with status 'done'
10:08:45 Getting requirements to build wheel: started
10:08:45 Getting requirements to build wheel: finished with status 'done'
10:08:45 Preparing metadata (pyproject.toml): started
10:08:45 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:45 Building wheels for collected packages: omero_marshal
10:08:45 Building wheel for omero_marshal (pyproject.toml): started
10:08:46 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
10:08:46 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=b85c7378e319d73e43dad683f3a5c7a001e0e074f6d6bfee014aab11b7ade12c
10:08:46 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
10:08:46 Successfully built omero_marshal
10:08:46 Installing collected packages: omero_marshal
10:08:46 Successfully installed omero_marshal-0.9.1.dev0
10:08:46 + for x in *.tar.gz
10:08:46 + pip install -U omero_py-5.19.5.dev0.tar.gz
10:08:47 Processing ./omero_py-5.19.5.dev0.tar.gz
10:08:47 Installing build dependencies: started
10:08:49 Installing build dependencies: finished with status 'done'
10:08:49 Getting requirements to build wheel: started
10:08:49 Getting requirements to build wheel: finished with status 'done'
10:08:49 Preparing metadata (pyproject.toml): started
10:08:50 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:50 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.20)
10:08:50 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.4.4)
10:08:50 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.0.0)
10:08:50 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.4)
10:08:50 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (10.4.0)
10:08:50 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (6.0.2)
10:08:50 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (3.6.5)
10:08:50 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.32.3)
10:08:50 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.10.1)
10:08:50 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.3.2)
10:08:50 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.8)
10:08:50 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (2024.8.30)
10:08:50 Building wheels for collected packages: omero-py
10:08:50 Building wheel for omero-py (pyproject.toml): started
10:08:51 Building wheel for omero-py (pyproject.toml): finished with status 'done'
10:08:51 Created wheel for omero-py: filename=omero_py-5.19.5.dev0-py3-none-any.whl size=2782856 sha256=e2ba29b95dde0c5e8f781d803fc5c3bed9f45006c8680d161d8d3e38fbb20c02
10:08:51 Stored in directory: /home/omero/.cache/pip/wheels/f8/22/3c/b4269ea2035cdd4c3f15d9990f88c807cd4a53e7b729c42a16
10:08:51 Successfully built omero-py
10:08:51 Installing collected packages: omero-py
10:08:51 Attempting uninstall: omero-py
10:08:51 Found existing installation: omero-py 5.19.4
10:08:51 Uninstalling omero-py-5.19.4:
10:08:52 Successfully uninstalled omero-py-5.19.4
10:08:54 Successfully installed omero-py-5.19.5.dev0
10:08:54 + for x in *.tar.gz
10:08:54 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
10:08:54 Processing ./omero_scripts-5.8.4.dev0.tar.gz
10:08:54 Installing build dependencies: started
10:08:56 Installing build dependencies: finished with status 'done'
10:08:56 Getting requirements to build wheel: started
10:08:56 Getting requirements to build wheel: finished with status 'done'
10:08:56 Preparing metadata (pyproject.toml): started
10:08:57 Preparing metadata (pyproject.toml): finished with status 'done'
10:08:57 Building wheels for collected packages: omero-scripts
10:08:57 Building wheel for omero-scripts (pyproject.toml): started
10:08:57 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
10:08:57 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116559 sha256=fb873465b2f0a920556fd48e35a7ca7f9c27d64ed445637ad28ee1ce9a00e11a
10:08:57 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
10:08:57 Successfully built omero-scripts
10:08:57 Installing collected packages: omero-scripts
10:08:57 Successfully installed omero-scripts-5.8.4.dev0
10:08:57 + for x in *.tar.gz
10:08:57 + pip install -U omero_web-5.27.3.dev0.tar.gz
10:08:58 Processing ./omero_web-5.27.3.dev0.tar.gz
10:08:58 Installing build dependencies: started
10:09:00 Installing build dependencies: finished with status 'done'
10:09:00 Getting requirements to build wheel: started
10:09:01 Getting requirements to build wheel: finished with status 'done'
10:09:01 Preparing metadata (pyproject.toml): started
10:09:01 Preparing metadata (pyproject.toml): finished with status 'done'
10:09:01 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (5.19.5.dev0)
10:09:01 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0)
10:09:01 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
10:09:01 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0)
10:09:01 Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB)
10:09:01 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0)
10:09:01 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
10:09:02 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0)
10:09:02 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
10:09:02 Collecting django-csp (from omero-web==5.27.3.dev0)
10:09:02 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
10:09:02 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0)
10:09:02 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
10:09:02 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0)
10:09:02 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
10:09:02 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)
10:09:02 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (10.4.0)
10:09:02 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2)
10:09:02 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1)
10:09:02 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1)
10:09:02 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
10:09:02 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
10:09:02 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
10:09:02 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
10:09:02 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)
10:09:02 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)
10:09:02 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)
10:09:02 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)
10:09:02 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)
10:09:02 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)
10:09:02 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)
10:09:02 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
10:09:02 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
10:09:02 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)
10:09:02 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) (3.8)
10:09:02 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)
10:09:02 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
10:09:02 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
10:09:02 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
10:09:02 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB)
10:09:03 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
10:09:03 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
10:09:03 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
10:09:03 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
10:09:03 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
10:09:03 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
10:09:03 Building wheels for collected packages: omero-web
10:09:03 Building wheel for omero-web (pyproject.toml): started
10:09:04 Building wheel for omero-web (pyproject.toml): finished with status 'done'
10:09:04 Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766598 sha256=fa1375752200c343e04a49fb5b5ceed7ad0cae220395a3a4a451f1231e9610c7
10:09:04 Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b
10:09:04 Successfully built omero-web
10:09:05 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
10:09:08 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
10:09:08 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
10:09:08 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
10:09:08 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
10:09:08 --2024-09-11 10:09:08-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
10:09:09 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.110.133, 185.199.108.133, ...
10:09:09 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
10:09:09 HTTP request sent, awaiting response... 200 OK
10:09:09 Length: 98989 (97K) [text/plain]
10:09:09 Saving to: ‘Figure_To_Pdf.py’
10:09:09
10:09:09 0K .......... .......... .......... .......... .......... 51% 3.10M 0s
10:09:09 50K .......... .......... .......... .......... ...... 100% 5.88M=0.02s
10:09:09
10:09:09 2024-09-11 10:09:09 (4.02 MB/s) - ‘Figure_To_Pdf.py’ saved [98989/98989]
10:09:09
10:09:09 + chmod 755 Figure_To_Pdf.py
10:09:09 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
10:09:09 + omero config set omero.db.name OMERO-server
10:09:11 + omero config set omero.db.host pg
10:09:13 + omero config set omero.db.user postgres
10:09:14 + omero config set omero.data.dir /home/omero/omero-server-data
10:09:16 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
10:09:17 + omero config set omero.db.poolsize 25
10:09:19 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
10:09:21 + omero config set omero.security.trustStorePassword changeit
10:09:22 + omero config set omero.mail.config true
10:09:24 + omero config set omero.mail.from qa@openmicroscopy.org.uk
10:09:26 + omero config set omero.mail.host smtp.dundee.ac.uk
10:09:27 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
10:09:29 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
10:09:31 + omero certificates
10:09:32 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
10:09:32 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
10:09:32 + '[' false = true ']'
10:09:32 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
10:09:32 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
10:09:32 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
10:09:33 2024-09-11 10:09:33,129 [ omego.db] DEBUG dbcommand => upgrade
10:09:33 2024-09-11 10:09:33,129 [ omego.db] DEBUG dbhost => localhost
10:09:33 2024-09-11 10:09:33,129 [ omego.db] DEBUG dbname => OMERO-server
10:09:33 2024-09-11 10:09:33,129 [ omego.db] DEBUG dbpass => omero
10:09:33 2024-09-11 10:09:33,129 [ omego.db] DEBUG dbuser => omero
10:09:33 2024-09-11 10:09:33,129 [ omego.db] DEBUG rootpass => omero
10:09:33 2024-09-11 10:09:33,130 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
10:09:33 2024-09-11 10:09:33,130 [omego.extern] INFO Executing : omero version
10:09:34 OMERO.py version:
10:09:34 OMERO.server version:
10:09:34 5.6.3-504-fd852ee75d-ice36
10:09:34 5.19.5.dev0
10:09:34 2024-09-11 10:09:34,735 [omego.extern] INFO Completed [1.605 s]
10:09:34 2024-09-11 10:09:34,735 [omego.extern] DEBUG Using omero CLI from omero
10:09:34 2024-09-11 10:09:34,735 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
10:09:34 2024-09-11 10:09:34,736 [omego.extern] INFO Running [current environment]: omero config get --show-password
10:09:34 2024-09-11 10:09:34,736 [omego.extern] INFO Executing : omero config get --show-password
10:09:36 2024-09-11 10:09:36,462 [omego.extern] INFO Completed [1.726 s]
10:09:36 2024-09-11 10:09:36,463 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
10:09:36 2024-09-11 10:09:36,463 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
10:09:36 2024-09-11 10:09:36,590 [omego.extern] INFO Completed [0.127 s]
10:09:36 2024-09-11 10:09:36,590 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
10:09:36 2024-09-11 10:09:36,590 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
10:09:36
10:09:36 2024-09-11 10:09:36,590 [omego.extern] INFO Running [current environment]: omero config get --show-password
10:09:36 2024-09-11 10:09:36,590 [omego.extern] INFO Executing : omero config get --show-password
10:09:38 2024-09-11 10:09:38,272 [omego.extern] INFO Completed [1.681 s]
10:09:38 2024-09-11 10:09:38,272 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
10:09:38 2024-09-11 10:09:38,272 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
10:09:38 2024-09-11 10:09:38,451 [omego.extern] INFO Completed [0.179 s]
10:09:38 2024-09-11 10:09:38,452 [ 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'
10:09:38 2024-09-11 10:09:38,452 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
10:09:38 2024-09-11 10:09:38,452 [omego.extern] INFO Running [current environment]: omero config get --show-password
10:09:38 2024-09-11 10:09:38,452 [omego.extern] INFO Executing : omero config get --show-password
10:09:39 2024-09-11 10:09:39,975 [omego.extern] INFO Completed [1.523 s]
10:09:39 2024-09-11 10:09:39,976 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
10:09:39 2024-09-11 10:09:39,976 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
10:09:40 2024-09-11 10:09:40,878 [omego.extern] INFO Completed [0.902 s]
10:09:40 2024-09-11 10:09:40,878 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
10:09:40 2024-09-11 10:09:40,879 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
10:09:40 2024-09-11 10:09:40,880 [ omego.db] INFO Database is already at OMERO5.4__0
10:09:40 + export LANG=en_US.UTF-8
10:09:40 + LANG=en_US.UTF-8
10:09:40 + export LANGUAGE=en_US:en
10:09:40 + LANGUAGE=en_US:en
10:09:40 + export LC_ALL=en_US.UTF-8
10:09:40 + LC_ALL=en_US.UTF-8
10:09:40 + BUILD_ID=DONT_KILL_ME
10:09:40 + omero admin start
10:09:52 No descriptor given. Using etc/grid/default.xml
10:10:09 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
10:10:09 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
10:10:09 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
10:10:09 Waiting on startup. Use CTRL-C to exit
10:10:10 + omero admin waitup
10:10:11 Waiting on startup. Use CTRL-C to exit
10:10:12 + omero admin diagnostics
10:10:14
10:10:14 ================================================================================
10:10:14 OMERO Diagnostics (admin)
10:10:14 ================================================================================
10:10:14
10:10:14 Commands: java -version 11.0.22 (/usr/bin/java)
10:10:14 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
10:10:14 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
10:10:14 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
10:10:14 Commands: psql --version 16.2 (/usr/bin/psql)
10:10:14 Commands: openssl version 3.0.71 (/usr/bin/openssl)
10:10:14
10:10:14 Component: OMERO.py 5.19.5.dev0
10:10:14 Component: OMERO.server 5.6.3-504-fd852ee75d-ice36
10:10:14
10:10:14 Server: icegridnode running
10:10:14 Server: Blitz-0 active (pid = 3223, enabled)
10:10:14 Server: Indexer-0 active (pid = 3245, enabled)
10:10:14 Server: OMERO.Glacier2 active (pid = 3250, enabled)
10:10:14 Server: OMERO.IceStorm active (pid = 3268, enabled)
10:10:14 Server: Processor-0 activating (enabled)
10:10:14 Server: Tables-0 activating (enabled)
10:10:14
10:10:14 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
10:10:14 Log files: Blitz-0.log 22.1 KB errors=0 warnings=1
10:10:14 Log files: DropBox.log n/a
10:10:14 Log files: FileServer.log n/a
10:10:14 Log files: Indexer-0.log 2.6 KB
10:10:14 Log files: MonitorServer.log n/a
10:10:14 Log files: Processor-0.log 592 B
10:10:14 Log files: Tables-0.log 841 B
10:10:14 Log files: TestDropBox.log n/a
10:10:14 Log files: master.err 180 B
10:10:14 Log files: master.out 30.1 KB
10:10:14 Log files: Total size 0.06 MB
10:10:14
10:10:14
10:10:14 Environment:OMERO_HOME=(unset)
10:10:14 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
10:10:14 Environment:OMERO_NODE=(unset)
10:10:14 Environment:OMERO_MASTER=(unset)
10:10:14 Environment:OMERO_USERDIR=(unset)
10:10:14 Environment:OMERO_TMPDIR=(unset)
10:10:14 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:10:14 Environment:PYTHONPATH=(unset)
10:10:14 Environment:ICE_HOME=/opt/ice-3.6.5
10:10:14 Environment:LD_LIBRARY_PATH=(unset)
10:10:14 Environment:DYLD_LIBRARY_PATH=(unset)
10:10:14
10:10:14 OMERO SSL port:4064
10:10:14 OMERO TCP port:4063
10:10:14 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
10:10:14 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
10:10:14
10:10:14 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:10:14 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:10:14 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:10:14 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
10:10:14
10:10:14 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 11 September 2024 09e557b2b0faca9a0d589b6618a2d20dca89f967
10:10:14 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 11 September 2024 09e557b2b0faca9a0d589b6618a2d20dca89f967
10:10:14 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 11 September 2024 09e557b2b0faca9a0d589b6618a2d20dca89f967
10:10:14 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 11 September 2024 adca6a7d4e002b5a08716ec3cc68fa4e28cbcac9
10:10:14 Jar: lib/server/ome-common.jar OME Common Java 6.0.24-SNAPSHOT 11 September 2024 adca6a7d4e002b5a08716ec3cc68fa4e28cbcac9
10:10:14 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 11 September 2024 adca6a7d4e002b5a08716ec3cc68fa4e28cbcac9
10:10:14 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 11 September 2024 adca6a7d4e002b5a08716ec3cc68fa4e28cbcac9
10:10:14 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 11 September 2024 adca6a7d4e002b5a08716ec3cc68fa4e28cbcac9
10:10:14 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 11 September 2024 adca6a7d4e002b5a08716ec3cc68fa4e28cbcac9
10:10:14 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT
10:10:14 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT
10:10:14 Jar: lib/server/omero-gateway.jar jar 5.9.4-SNAPSHOT
10:10:14 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT
10:10:14 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT
10:10:14 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT
10:10:14 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT
10:10:15 + deactivate
10:10:15 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
10:10:15 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
10:10:15 + export PATH
10:10:15 + unset _OLD_VIRTUAL_PATH
10:10:15 + '[' -n '' ']'
10:10:15 + '[' -n /bin/bash -o -n '' ']'
10:10:15 + hash -r
10:10:15 + '[' -n '' ']'
10:10:15 + unset VIRTUAL_ENV
10:10:15 + '[' '!' '' = nondestructive ']'
10:10:15 + unset -f deactivate
10:10:15 Finished: SUCCESS
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