14:51:21 Started by upstream project "Trigger" build number 207
14:51:21 originally caused by:
14:51:21 Started by user devspace
14:51:21 Running as SYSTEM
14:51:21 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
14:51:21 [OMERO-server] $ /bin/bash -xe /tmp/jenkins10663291252014965527.sh
14:51:22 + source /home/settings.env
14:51:22 ++ OMERO_DB_HOST=pg
14:51:22 ++ OMERO_DB_USER=postgres
14:51:22 ++ OMERO_DB_PASS=
14:51:22 ++ OMERO_ROOT_PASS=omero
14:51:22 ++ OMERO_DATA_DIR=/OMERO
14:51:22 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:51:22 + OMERO_DB_NAME=OMERO-server
14:51:22 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:51:22 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:51:22 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:51:22 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:51:22 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
14:51:22 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:51:22 ++ deactivate nondestructive
14:51:22 ++ '[' -n '' ']'
14:51:22 ++ '[' -n '' ']'
14:51:22 ++ '[' -n /bin/bash -o -n '' ']'
14:51:22 ++ hash -r
14:51:22 ++ '[' -n '' ']'
14:51:22 ++ unset VIRTUAL_ENV
14:51:22 ++ '[' '!' nondestructive = nondestructive ']'
14:51:22 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:51:22 ++ export VIRTUAL_ENV
14:51:22 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:51:22 ++ 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
14:51:22 ++ export PATH
14:51:22 ++ '[' -n '' ']'
14:51:22 ++ '[' -z '' ']'
14:51:22 ++ _OLD_VIRTUAL_PS1=
14:51:22 ++ PS1='(.venv3) '
14:51:22 ++ export PS1
14:51:22 ++ '[' -n /bin/bash -o -n '' ']'
14:51:22 ++ hash -r
14:51:22 + omero admin stop
14:51:38 Waiting on shutdown. Use CTRL-C to exit
14:51:38 .+ sleep 5
14:51:53 + deactivate
14:51:53 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
14:51:53 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:51:53 + export PATH
14:51:53 + unset _OLD_VIRTUAL_PATH
14:51:53 + '[' -n '' ']'
14:51:53 + '[' -n /bin/bash -o -n '' ']'
14:51:53 + hash -r
14:51:53 + '[' -n '' ']'
14:51:53 + unset VIRTUAL_ENV
14:51:53 + '[' '!' '' = nondestructive ']'
14:51:53 + unset -f deactivate
14:51:53 + rm -rf /home/omero/workspace/OMERO-server/.venv3
14:51:55 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
14:51:59 + '[' false = true ']'
14:51:59 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
14:51:59 Skipping PURGE_DATA:CleanDbAndRepo
14:51:59 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.5-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.5.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.4.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.27.3.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
14:52:09 Copied 1 artifact from "OMERO-build" build number 172
14:52:09 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 170
14:52:09 Copied 2 artifacts from "OMERO-build-build" build number 178
14:52:09 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12464579603443687661.sh
14:52:09 + source /home/settings.env
14:52:09 ++ OMERO_DB_HOST=pg
14:52:09 ++ OMERO_DB_USER=postgres
14:52:09 ++ OMERO_DB_PASS=
14:52:09 ++ OMERO_ROOT_PASS=omero
14:52:09 ++ OMERO_DATA_DIR=/OMERO
14:52:09 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:52:09 + OMERO_DB_NAME=OMERO-server
14:52:09 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:52:09 + mkdir -p /home/omero/omero-server-data
14:52:09 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:52:09 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:52:09 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:52:09 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:52:09 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:52:09 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:52:09 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:52:09 ++ ls OMERO.server-5.6.3-504-ed618683bd-ice36.zip
14:52:09 + ZIP=OMERO.server-5.6.3-504-ed618683bd-ice36.zip
14:52:09 + '[' '!' -z '' ']'
14:52:09 + DIST=OMERO.server-5.6.3-504-ed618683bd-ice36
14:52:09 + unzip OMERO.server-5.6.3-504-ed618683bd-ice36.zip
14:52:09 Archive: OMERO.server-5.6.3-504-ed618683bd-ice36.zip
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/blitz/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/grid/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/profiles/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/error/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/grid/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/luts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/luts/janelia/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/luts/ncsa_paledit/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/luts/wcif/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/analysis_scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/annotation_scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/export_scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/figure_scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/import_scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/scripts/omero/util_scripts/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/misc/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__1/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__10/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__11/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__2/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__3/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__4/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__5/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__6/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__7/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__8/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__9/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__4/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__5/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__6/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__7/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.1__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.2__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.2__0/t/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.3__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.4__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.0__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.1__1/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.2__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4DEV__1/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4DEV__2/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4DEV__3/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/
14:52:09 creating: OMERO.server-5.6.3-504-ed618683bd-ice36/var/
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/LICENSE.txt
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/backup.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/blitz/mail-senders.example
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/blitz/mail-server.example
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/build.properties
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/env.bat
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/env.sh
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/hibernate.properties
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/ice.config
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/logback-cli.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/logback-indexing-cli.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/logback-indexing.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/logback.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/mime.types
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/node1.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/node2.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/omero.properties
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/profiles/psql
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/rollover.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/Windows.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/error/maintainance.html
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/grid/README
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/grid/default.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/grid/templates.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/grid/windefault.xml
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/ice.config
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/internal.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/master.cfg
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/templates/robot.template
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/etc/testdropbox.config
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/history.rst
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/OMEZarrReader.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/activation.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/aggdesigner-algorithm.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/aircompressor.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/annotations.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/antlr.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/aopalliance.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/avatica-core.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/avatica-metrics.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/aws-java-sdk-core.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/aws-java-sdk-kms.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/aws-java-sdk-s3.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/base.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-all.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-anim.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-awt-util.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-bridge.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-codec.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-constants.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-css.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-dom.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-ext.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-extension.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-gui-util.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-gvt.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-i18n.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-parser.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-rasterizer-ext.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-rasterizer.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-script.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-slideshow.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-squiggle-ext.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-squiggle.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-svg-dom.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-svgbrowser.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-svggen.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-svgpp.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-svgrasterizer.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-swing.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-transcoder.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-ttf2svg.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-util.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/batik-xml.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/btm.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/bufr.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/c3p0.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/calcite-core.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/calcite-linq4j.jar
14:52:09 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/cdm-core.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/checker-qual.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-beanutils.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-codec.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-collections.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-collections4.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-compiler.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-dbcp2.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-io.jar
14:52:10 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/client/commons-lang.jar
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14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-aop.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-beans.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-context-support.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-context.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-core.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-expression.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-jdbc.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-jms.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-ldap-core.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-messaging.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-orm.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-security-core.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-security-ldap.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/spring-tx.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/sqlite-jdbc.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/subethasmtp.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/turbojpeg.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/udunits.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xalan.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xercesImpl.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xml-apis-ext.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xml-apis.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xmlgraphics-commons.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xmpcore.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/lib/server/xpp3.jar
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/README
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/agpl.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/antlr.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/apache-v1.1.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/apache-v2.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/asm.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/bouncy_castle_license.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/bsd.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/cddl-v1.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/cpl-v10.html
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/crystalclear.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/django.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/dom4j.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/epl-v1.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/fbsd.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/freemarker.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/gpl-v2.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/gpl.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/gtest.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/iconsweets_license.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/jamon.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/jmock.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/jquery.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/jtidy.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/lgpl-3.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/lgpl-v2.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/lgpl-v2.1.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/lgpl-v3.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/lgpl.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/matplotlib.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/mit.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/mpl-v1_0.htm
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/npl-1_1.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/path.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/pil.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/postgresql.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/psf-v2.0.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/psf-v2.5.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/scons.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/slf4j.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/tablelayout.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/which.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/zlib-libpng.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/share/licenses/zpl-v2.1.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/README.txt
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/misc/Makefile
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/misc/current.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/misc/enums.py
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/psql-header.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/schema.sql
14:52:12 inflating: OMERO.server-5.6.3-504-ed618683bd-ice36/sql/psql/OMERO5.4__0/views.sql
14:52:12 + rm -f OMERO.server-5.6.3-504-ed618683bd-ice36.zip
14:52:12 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-504-ed618683bd-ice36 /home/omero/workspace/OMERO-server/OMERO.server
14:52:12 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:52:12 ++ deactivate nondestructive
14:52:12 ++ '[' -n '' ']'
14:52:12 ++ '[' -n '' ']'
14:52:12 ++ '[' -n /bin/bash -o -n '' ']'
14:52:12 ++ hash -r
14:52:12 ++ '[' -n '' ']'
14:52:12 ++ unset VIRTUAL_ENV
14:52:12 ++ '[' '!' nondestructive = nondestructive ']'
14:52:12 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:52:12 ++ export VIRTUAL_ENV
14:52:12 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:52:12 ++ 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
14:52:12 ++ export PATH
14:52:12 ++ '[' -n '' ']'
14:52:12 ++ '[' -z '' ']'
14:52:12 ++ _OLD_VIRTUAL_PS1=
14:52:12 ++ PS1='(.venv3) '
14:52:12 ++ export PS1
14:52:12 ++ '[' -n /bin/bash -o -n '' ']'
14:52:12 ++ hash -r
14:52:12 + 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
14:52:13 Collecting zeroc-ice==3.6.5
14:52:14 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)
14:52:15 Installing collected packages: zeroc-ice
14:52:16 Successfully installed zeroc-ice-3.6.5
14:52:16 + pip install -U pip future
14:52:16 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
14:52:17 Collecting pip
14:52:17 Using cached pip-24.2-py3-none-any.whl (1.8 MB)
14:52:17 Collecting future
14:52:17 Using cached future-1.0.0-py3-none-any.whl (491 kB)
14:52:17 Installing collected packages: pip, future
14:52:17 Attempting uninstall: pip
14:52:17 Found existing installation: pip 21.2.3
14:52:17 Uninstalling pip-21.2.3:
14:52:17 Successfully uninstalled pip-21.2.3
14:52:20 Successfully installed future-1.0.0 pip-24.2
14:52:20 + pip install markdown
14:52:21 Collecting markdown
14:52:21 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
14:52:21 Collecting importlib-metadata>=4.4 (from markdown)
14:52:21 Using cached importlib_metadata-8.4.0-py3-none-any.whl.metadata (4.7 kB)
14:52:21 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
14:52:21 Using cached zipp-3.20.1-py3-none-any.whl.metadata (3.7 kB)
14:52:21 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
14:52:21 Using cached importlib_metadata-8.4.0-py3-none-any.whl (26 kB)
14:52:21 Using cached zipp-3.20.1-py3-none-any.whl (9.0 kB)
14:52:21 Installing collected packages: zipp, importlib-metadata, markdown
14:52:21 Successfully installed importlib-metadata-8.4.0 markdown-3.7 zipp-3.20.1
14:52:21 + pip install reportlab
14:52:22 Collecting reportlab
14:52:22 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
14:52:22 Collecting pillow>=9.0.0 (from reportlab)
14:52:22 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
14:52:22 Collecting chardet (from reportlab)
14:52:22 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
14:52:22 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
14:52:22 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
14:52:22 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
14:52:23 Installing collected packages: pillow, chardet, reportlab
14:52:24 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
14:52:24 + pip install omego
14:52:25 Collecting omego
14:52:25 Using cached omego-0.7.0-py3-none-any.whl
14:52:25 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
14:52:25 Collecting yaclifw>=0.1.1 (from omego)
14:52:25 Using cached yaclifw-0.2.0-py3-none-any.whl
14:52:25 Collecting six (from yaclifw>=0.1.1->omego)
14:52:25 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
14:52:25 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
14:52:25 Installing collected packages: six, yaclifw, omego
14:52:25 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
14:52:25 + pip install tables
14:52:26 Collecting tables
14:52:26 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
14:52:26 Collecting numpy>=1.19.0 (from tables)
14:52:26 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
14:52:26 Collecting numexpr>=2.6.2 (from tables)
14:52:26 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
14:52:26 Collecting packaging (from tables)
14:52:26 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
14:52:26 Collecting py-cpuinfo (from tables)
14:52:26 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
14:52:27 Collecting blosc2>=2.3.0 (from tables)
14:52:27 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
14:52:27 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
14:52:27 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
14:52:27 Collecting msgpack (from blosc2>=2.3.0->tables)
14:52:27 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
14:52:27 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
14:52:27 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
14:52:27 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
14:52:27 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
14:52:27 Using cached packaging-24.1-py3-none-any.whl (53 kB)
14:52:27 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
14:52:27 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
14:52:27 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
14:52:27 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
14:52:31 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
14:52:31 + pip install jinja2
14:52:32 Collecting jinja2
14:52:32 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
14:52:32 Collecting MarkupSafe>=2.0 (from jinja2)
14:52:32 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
14:52:32 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
14:52:32 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
14:52:32 Installing collected packages: MarkupSafe, jinja2
14:52:32 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
14:52:32 + pip install omero-py
14:52:33 Collecting omero-py
14:52:33 Using cached omero_py-5.19.4-py3-none-any.whl.metadata (6.3 kB)
14:52:33 Collecting urllib3<2 (from omero-py)
14:52:33 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
14:52:33 Collecting appdirs (from omero-py)
14:52:33 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
14:52:33 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
14:52:34 Collecting numpy<2 (from omero-py)
14:52:34 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
14:52:34 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
14:52:34 Collecting PyYAML (from omero-py)
14:52:34 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
14:52:34 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
14:52:34 Collecting requests (from omero-py)
14:52:34 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
14:52:34 Collecting portalocker (from omero-py)
14:52:34 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
14:52:34 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
14:52:34 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
14:52:34 Collecting idna<4,>=2.5 (from requests->omero-py)
14:52:34 Using cached idna-3.8-py3-none-any.whl.metadata (9.9 kB)
14:52:34 Collecting certifi>=2017.4.17 (from requests->omero-py)
14:52:34 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
14:52:34 Using cached omero_py-5.19.4-py3-none-any.whl (2.8 MB)
14:52:34 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
14:52:34 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
14:52:34 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
14:52:35 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
14:52:35 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
14:52:35 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
14:52:35 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
14:52:35 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
14:52:35 Using cached idna-3.8-py3-none-any.whl (66 kB)
14:52:35 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
14:52:35 Attempting uninstall: numpy
14:52:35 Found existing installation: numpy 2.0.2
14:52:35 Uninstalling numpy-2.0.2:
14:52:35 Successfully uninstalled numpy-2.0.2
14:52:40 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
14:52:40 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
14:52:40 Collecting omero-metadata
14:52:40 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-4s_wvxct/omero-metadata_d21a5d071f2d4614aaa5b39d7f39ea89
14:52:40 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-4s_wvxct/omero-metadata_d21a5d071f2d4614aaa5b39d7f39ea89
14:52:41 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit a8a28d370a87648dc1a5b13858e87e085aac2be7
14:52:41 Installing build dependencies: started
14:52:43 Installing build dependencies: finished with status 'done'
14:52:43 Getting requirements to build wheel: started
14:52:44 Getting requirements to build wheel: finished with status 'done'
14:52:44 Preparing metadata (pyproject.toml): started
14:52:44 Preparing metadata (pyproject.toml): finished with status 'done'
14:52:44 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.4)
14:52:44 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
14:52:44 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
14:52:44 Collecting pandas (from omero-metadata)
14:52:44 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
14:52:44 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
14:52:44 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
14:52:44 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
14:52:44 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
14:52:44 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)
14:52:44 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)
14:52:44 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
14:52:44 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
14:52:44 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
14:52:44 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
14:52:44 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
14:52:44 Collecting pytz>=2020.1 (from pandas->omero-metadata)
14:52:44 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
14:52:45 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
14:52:45 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
14:52:45 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)
14:52:45 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)
14:52:45 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)
14:52:45 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)
14:52:45 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
14:52:45 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
14:52:45 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
14:52:45 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
14:52:45 Building wheels for collected packages: omero-metadata
14:52:45 Building wheel for omero-metadata (pyproject.toml): started
14:52:45 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
14:52:45 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39188 sha256=4f165d899b85e098c22ced2c701681cd5e386fbe7b3dd1301ededb56bd2fffcc
14:52:45 Stored in directory: /tmp/pip-ephem-wheel-cache-lxe412o6/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
14:52:45 Successfully built omero-metadata
14:52:45 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
14:52:51 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.1
14:52:51 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
14:52:52 Collecting omero-cli-render
14:52:52 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-narivih6/omero-cli-render_77e57a90e8ac43e6bf77de4a1273178b
14:52:52 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-narivih6/omero-cli-render_77e57a90e8ac43e6bf77de4a1273178b
14:52:52 Running command git checkout -b merge_ci --track origin/merge_ci
14:52:53 Switched to a new branch 'merge_ci'
14:52:53 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:52:53 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 05c7088fc2f2174a1e413210d9d8be46067b38b9
14:52:53 Installing build dependencies: started
14:52:55 Installing build dependencies: finished with status 'done'
14:52:55 Getting requirements to build wheel: started
14:52:55 Getting requirements to build wheel: finished with status 'done'
14:52:55 Preparing metadata (pyproject.toml): started
14:52:55 Preparing metadata (pyproject.toml): finished with status 'done'
14:52:55 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
14:52:55 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.4)
14:52:55 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
14:52:55 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
14:52:55 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
14:52:55 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
14:52:55 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)
14:52:55 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)
14:52:55 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
14:52:55 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
14:52:55 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)
14:52:55 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)
14:52:55 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)
14:52:55 Building wheels for collected packages: omero-cli-render
14:52:55 Building wheel for omero-cli-render (pyproject.toml): started
14:52:56 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
14:52:56 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18030 sha256=b782e801940906a4e07b4b971e5f250d08dc7359b4889467f78a766b708fe1bf
14:52:56 Stored in directory: /tmp/pip-ephem-wheel-cache-1dlul93y/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
14:52:56 Successfully built omero-cli-render
14:52:56 Installing collected packages: omero-cli-render
14:52:56 Successfully installed omero-cli-render-0.8.2.dev0
14:52:56 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
14:52:56 Collecting omero-cli-duplicate
14:52:56 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-dfkb2pxa/omero-cli-duplicate_e35c3879bb1249538498694c11b16d64
14:52:56 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-dfkb2pxa/omero-cli-duplicate_e35c3879bb1249538498694c11b16d64
14:52:57 Running command git checkout -b merge_ci --track origin/merge_ci
14:52:57 Switched to a new branch 'merge_ci'
14:52:57 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:52:57 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit e16577d5f03974ce0a42c8d31b82bd72dcc37966
14:52:57 Installing build dependencies: started
14:53:00 Installing build dependencies: finished with status 'done'
14:53:00 Getting requirements to build wheel: started
14:53:00 Getting requirements to build wheel: finished with status 'done'
14:53:00 Preparing metadata (pyproject.toml): started
14:53:00 Preparing metadata (pyproject.toml): finished with status 'done'
14:53:00 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.4)
14:53:00 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
14:53:00 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
14:53:00 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
14:53:00 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
14:53:00 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)
14:53:00 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
14:53:00 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)
14:53:00 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
14:53:00 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
14:53:00 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)
14:53:00 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)
14:53:00 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)
14:53:00 Building wheels for collected packages: omero-cli-duplicate
14:53:00 Building wheel for omero-cli-duplicate (pyproject.toml): started
14:53:01 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
14:53:01 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=7c754d536cd964f0dcb1c479f4ecf28d48ceac82b526609a5b5c88cd11e0962c
14:53:01 Stored in directory: /tmp/pip-ephem-wheel-cache-1em3e7v2/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
14:53:01 Successfully built omero-cli-duplicate
14:53:01 Installing collected packages: omero-cli-duplicate
14:53:01 Successfully installed omero-cli-duplicate-0.4.1.dev0
14:53:01 + pip install omero-certificates
14:53:01 Collecting omero-certificates
14:53:01 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
14:53:01 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.4)
14:53:01 Collecting distro==1.8.0 (from omero-certificates)
14:53:01 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
14:53:01 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
14:53:01 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
14:53:01 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
14:53:01 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
14:53:01 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)
14:53:01 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
14:53:01 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)
14:53:01 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
14:53:01 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
14:53:01 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)
14:53:01 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)
14:53:01 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)
14:53:01 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
14:53:01 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
14:53:02 Installing collected packages: distro, omero-certificates
14:53:02 Successfully installed distro-1.8.0 omero-certificates-0.3.2
14:53:02 + for x in *.tar.gz
14:53:02 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
14:53:02 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
14:53:02 Installing build dependencies: started
14:53:04 Installing build dependencies: finished with status 'done'
14:53:04 Getting requirements to build wheel: started
14:53:04 Getting requirements to build wheel: finished with status 'done'
14:53:04 Preparing metadata (pyproject.toml): started
14:53:05 Preparing metadata (pyproject.toml): finished with status 'done'
14:53:05 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.4)
14:53:05 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
14:53:05 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
14:53:05 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
14:53:05 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
14:53:05 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)
14:53:05 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
14:53:05 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)
14:53:05 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
14:53:05 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
14:53:05 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)
14:53:05 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)
14:53:05 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)
14:53:05 Building wheels for collected packages: omero-dropbox
14:53:05 Building wheel for omero-dropbox (pyproject.toml): started
14:53:05 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
14:53:05 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49055 sha256=23c890cb4f6a2d2e72dc7d2263db63502700521cf002bf130d403ec5834cc0be
14:53:05 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
14:53:05 Successfully built omero-dropbox
14:53:05 Installing collected packages: omero-dropbox
14:53:05 Successfully installed omero-dropbox-5.7.1.dev0
14:53:05 + for x in *.tar.gz
14:53:05 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
14:53:06 Processing ./omero_marshal-0.9.1.dev0.tar.gz
14:53:06 Installing build dependencies: started
14:53:08 Installing build dependencies: finished with status 'done'
14:53:08 Getting requirements to build wheel: started
14:53:08 Getting requirements to build wheel: finished with status 'done'
14:53:08 Preparing metadata (pyproject.toml): started
14:53:08 Preparing metadata (pyproject.toml): finished with status 'done'
14:53:08 Building wheels for collected packages: omero_marshal
14:53:08 Building wheel for omero_marshal (pyproject.toml): started
14:53:09 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
14:53:09 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=a23ea62abf8b1e265487ba4a6f2f1369ba51b1593264fc8a60696737ac9ef58d
14:53:09 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
14:53:09 Successfully built omero_marshal
14:53:09 Installing collected packages: omero_marshal
14:53:09 Successfully installed omero_marshal-0.9.1.dev0
14:53:09 + for x in *.tar.gz
14:53:09 + pip install -U omero_py-5.19.5.dev0.tar.gz
14:53:09 Processing ./omero_py-5.19.5.dev0.tar.gz
14:53:10 Installing build dependencies: started
14:53:12 Installing build dependencies: finished with status 'done'
14:53:12 Getting requirements to build wheel: started
14:53:12 Getting requirements to build wheel: finished with status 'done'
14:53:12 Preparing metadata (pyproject.toml): started
14:53:12 Preparing metadata (pyproject.toml): finished with status 'done'
14:53:12 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.20)
14:53:12 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.4.4)
14:53:12 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.0.0)
14:53:12 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (1.26.4)
14:53:12 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (10.4.0)
14:53:12 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (6.0.2)
14:53:12 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)
14:53:12 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.32.3)
14:53:12 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.5.dev0) (2.10.1)
14:53:12 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)
14:53:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.5.dev0) (3.8)
14:53:12 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)
14:53:12 Building wheels for collected packages: omero-py
14:53:12 Building wheel for omero-py (pyproject.toml): started
14:53:13 Building wheel for omero-py (pyproject.toml): finished with status 'done'
14:53:13 Created wheel for omero-py: filename=omero_py-5.19.5.dev0-py3-none-any.whl size=2782856 sha256=8bc33f8cf95c2552daf3ee9572629d2bcab9876bbdb3ca7c312517fbc90e5081
14:53:13 Stored in directory: /home/omero/.cache/pip/wheels/f8/22/3c/b4269ea2035cdd4c3f15d9990f88c807cd4a53e7b729c42a16
14:53:13 Successfully built omero-py
14:53:13 Installing collected packages: omero-py
14:53:13 Attempting uninstall: omero-py
14:53:13 Found existing installation: omero-py 5.19.4
14:53:13 Uninstalling omero-py-5.19.4:
14:53:14 Successfully uninstalled omero-py-5.19.4
14:53:16 Successfully installed omero-py-5.19.5.dev0
14:53:16 + for x in *.tar.gz
14:53:16 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
14:53:17 Processing ./omero_scripts-5.8.4.dev0.tar.gz
14:53:17 Installing build dependencies: started
14:53:19 Installing build dependencies: finished with status 'done'
14:53:19 Getting requirements to build wheel: started
14:53:20 Getting requirements to build wheel: finished with status 'done'
14:53:20 Preparing metadata (pyproject.toml): started
14:53:20 Preparing metadata (pyproject.toml): finished with status 'done'
14:53:20 Building wheels for collected packages: omero-scripts
14:53:20 Building wheel for omero-scripts (pyproject.toml): started
14:53:20 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
14:53:20 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116559 sha256=648e84e562005c68b62f3a7fa1ccf6dec303bd9a2b893845ed9807de4c76e36e
14:53:20 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
14:53:20 Successfully built omero-scripts
14:53:20 Installing collected packages: omero-scripts
14:53:20 Successfully installed omero-scripts-5.8.4.dev0
14:53:20 + for x in *.tar.gz
14:53:20 + pip install -U omero_web-5.27.3.dev0.tar.gz
14:53:21 Processing ./omero_web-5.27.3.dev0.tar.gz
14:53:21 Installing build dependencies: started
14:53:23 Installing build dependencies: finished with status 'done'
14:53:23 Getting requirements to build wheel: started
14:53:23 Getting requirements to build wheel: finished with status 'done'
14:53:23 Preparing metadata (pyproject.toml): started
14:53:24 Preparing metadata (pyproject.toml): finished with status 'done'
14:53:24 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)
14:53:24 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0)
14:53:24 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
14:53:24 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0)
14:53:24 Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB)
14:53:24 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0)
14:53:24 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
14:53:24 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0)
14:53:24 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
14:53:24 Collecting django-csp (from omero-web==5.27.3.dev0)
14:53:24 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
14:53:24 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0)
14:53:24 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
14:53:24 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0)
14:53:24 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
14:53:24 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)
14:53:24 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (10.4.0)
14:53:24 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2)
14:53:24 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1)
14:53:24 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1)
14:53:24 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
14:53:24 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
14:53:24 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
14:53:24 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
14:53:24 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)
14:53:24 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)
14:53:24 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)
14:53:24 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)
14:53:24 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)
14:53:24 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)
14:53:24 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)
14:53:24 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
14:53:24 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
14:53:24 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)
14:53:24 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)
14:53:24 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)
14:53:24 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
14:53:24 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
14:53:24 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
14:53:24 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB)
14:53:24 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
14:53:24 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
14:53:24 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
14:53:24 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
14:53:24 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
14:53:24 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
14:53:24 Building wheels for collected packages: omero-web
14:53:24 Building wheel for omero-web (pyproject.toml): started
14:53:26 Building wheel for omero-web (pyproject.toml): finished with status 'done'
14:53:26 Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766598 sha256=51afda5ff244b40c505571853bf3ff51ba3cb290c55fc78d3c350bca33afc94f
14:53:26 Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b
14:53:26 Successfully built omero-web
14:53:26 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
14:53:30 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
14:53:30 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:53:30 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
14:53:30 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
14:53:30 --2024-09-11 14:53:30-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:53:30 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.108.133, 185.199.109.133, ...
14:53:30 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
14:53:30 HTTP request sent, awaiting response... 200 OK
14:53:30 Length: 98989 (97K) [text/plain]
14:53:30 Saving to: ‘Figure_To_Pdf.py’
14:53:30
14:53:30 0K .......... .......... .......... .......... .......... 51% 1.14M 0s
14:53:30 50K .......... .......... .......... .......... ...... 100% 6.14M=0.05s
14:53:30
14:53:30 2024-09-11 14:53:30 (1.87 MB/s) - ‘Figure_To_Pdf.py’ saved [98989/98989]
14:53:30
14:53:30 + chmod 755 Figure_To_Pdf.py
14:53:30 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
14:53:30 + omero config set omero.db.name OMERO-server
14:53:32 + omero config set omero.db.host pg
14:53:34 + omero config set omero.db.user postgres
14:53:36 + omero config set omero.data.dir /home/omero/omero-server-data
14:53:37 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
14:53:39 + omero config set omero.db.poolsize 25
14:53:41 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
14:53:43 + omero config set omero.security.trustStorePassword changeit
14:53:45 + omero config set omero.mail.config true
14:53:47 + omero config set omero.mail.from qa@openmicroscopy.org.uk
14:53:49 + omero config set omero.mail.host smtp.dundee.ac.uk
14:53:50 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
14:53:52 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
14:53:54 + omero certificates
14:53:56 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
14:53:56 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
14:53:56 + '[' false = true ']'
14:53:56 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
14:53:56 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
14:53:56 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG dbcommand => upgrade
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG dbhost => localhost
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG dbname => OMERO-server
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG dbpass => omero
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG dbuser => omero
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG rootpass => omero
14:53:57 2024-09-11 14:53:57,252 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
14:53:57 2024-09-11 14:53:57,253 [omego.extern] INFO Executing : omero version
14:53:58 OMERO.py version:
14:53:58 OMERO.server version:
14:53:58 5.6.3-504-ed618683bd-ice36
14:53:58 5.19.5.dev0
14:53:59 2024-09-11 14:53:59,417 [omego.extern] INFO Completed [2.164 s]
14:53:59 2024-09-11 14:53:59,417 [omego.extern] DEBUG Using omero CLI from omero
14:53:59 2024-09-11 14:53:59,418 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
14:53:59 2024-09-11 14:53:59,418 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:53:59 2024-09-11 14:53:59,418 [omego.extern] INFO Executing : omero config get --show-password
14:54:01 2024-09-11 14:54:01,149 [omego.extern] INFO Completed [1.731 s]
14:54:01 2024-09-11 14:54:01,149 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:54:01 2024-09-11 14:54:01,149 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
14:54:01 2024-09-11 14:54:01,501 [omego.extern] INFO Completed [0.352 s]
14:54:01 2024-09-11 14:54:01,501 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
14:54:01 2024-09-11 14:54:01,502 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
14:54:01
14:54:01 2024-09-11 14:54:01,502 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:54:01 2024-09-11 14:54:01,502 [omego.extern] INFO Executing : omero config get --show-password
14:54:03 2024-09-11 14:54:03,418 [omego.extern] INFO Completed [1.917 s]
14:54:03 2024-09-11 14:54:03,419 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:54:03 2024-09-11 14:54:03,419 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
14:54:03 2024-09-11 14:54:03,620 [omego.extern] INFO Completed [0.200 s]
14:54:03 2024-09-11 14:54:03,620 [ 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'
14:54:03 2024-09-11 14:54:03,620 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
14:54:03 2024-09-11 14:54:03,620 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:54:03 2024-09-11 14:54:03,620 [omego.extern] INFO Executing : omero config get --show-password
14:54:05 2024-09-11 14:54:05,241 [omego.extern] INFO Completed [1.620 s]
14:54:05 2024-09-11 14:54:05,241 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:54:05 2024-09-11 14:54:05,242 [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
14:54:05 2024-09-11 14:54:05,255 [omego.extern] INFO Completed [0.014 s]
14:54:05 2024-09-11 14:54:05,256 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
14:54:05 2024-09-11 14:54:05,256 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
14:54:05 2024-09-11 14:54:05,259 [ omego.db] INFO Database is already at OMERO5.4__0
14:54:05 + export LANG=en_US.UTF-8
14:54:05 + LANG=en_US.UTF-8
14:54:05 + export LANGUAGE=en_US:en
14:54:05 + LANGUAGE=en_US:en
14:54:05 + export LC_ALL=en_US.UTF-8
14:54:05 + LC_ALL=en_US.UTF-8
14:54:05 + BUILD_ID=DONT_KILL_ME
14:54:05 + omero admin start
14:54:17 No descriptor given. Using etc/grid/default.xml
14:54:30 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
14:54:30 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
14:54:30 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
14:54:30 Waiting on startup. Use CTRL-C to exit
14:54:30 + omero admin waitup
14:54:32 Waiting on startup. Use CTRL-C to exit
14:54:32 + omero admin diagnostics
14:54:34
14:54:34 ================================================================================
14:54:34 OMERO Diagnostics (admin)
14:54:34 ================================================================================
14:54:34
14:54:34 Commands: java -version 11.0.22 (/usr/bin/java)
14:54:34 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
14:54:34 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
14:54:34 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
14:54:34 Commands: psql --version 16.2 (/usr/bin/psql)
14:54:34 Commands: openssl version 3.0.71 (/usr/bin/openssl)
14:54:34
14:54:34 Component: OMERO.py 5.19.5.dev0
14:54:34 Component: OMERO.server 5.6.3-504-ed618683bd-ice36
14:54:34
14:54:34 Server: icegridnode running
14:54:34 Server: Blitz-0 active (pid = 8365, enabled)
14:54:34 Server: Indexer-0 activating (enabled)
14:54:34 Server: OMERO.Glacier2 active (pid = 8392, enabled)
14:54:34 Server: OMERO.IceStorm active (pid = 8417, enabled)
14:54:34 Server: Processor-0 activating (enabled)
14:54:34 Server: Tables-0 activating (enabled)
14:54:34
14:54:34 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
14:54:34 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
14:54:34 Log files: DropBox.log n/a
14:54:34 Log files: FileServer.log n/a
14:54:34 Log files: Indexer-0.log 598 B
14:54:34 Log files: MonitorServer.log n/a
14:54:34 Log files: Processor-0.log 592 B
14:54:34 Log files: Tables-0.log 841 B
14:54:34 Log files: TestDropBox.log n/a
14:54:34 Log files: master.err 180 B
14:54:34 Log files: master.out 30.1 KB
14:54:34 Log files: Total size 0.05 MB
14:54:34
14:54:34
14:54:34 Environment:OMERO_HOME=(unset)
14:54:34 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:54:34 Environment:OMERO_NODE=(unset)
14:54:34 Environment:OMERO_MASTER=(unset)
14:54:34 Environment:OMERO_USERDIR=(unset)
14:54:34 Environment:OMERO_TMPDIR=(unset)
14:54:34 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
14:54:34 Environment:PYTHONPATH=(unset)
14:54:34 Environment:ICE_HOME=/opt/ice-3.6.5
14:54:34 Environment:LD_LIBRARY_PATH=(unset)
14:54:34 Environment:DYLD_LIBRARY_PATH=(unset)
14:54:34
14:54:34 OMERO SSL port:4064
14:54:34 OMERO TCP port:4063
14:54:34 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
14:54:34 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
14:54:34
14:54:34 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
14:54:34 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
14:54:34 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
14:54:34 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
14:54:34
14:54:34 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 11 September 2024 8f02b2c752da1084dea21af65b825a3f8e224932
14:54:34 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 11 September 2024 8f02b2c752da1084dea21af65b825a3f8e224932
14:54:34 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 11 September 2024 8f02b2c752da1084dea21af65b825a3f8e224932
14:54:34 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 11 September 2024 3d5b5292f83211a8ce17848a4cb715b9d8cfc0f1
14:54:34 Jar: lib/server/ome-common.jar OME Common Java 6.0.24-SNAPSHOT 11 September 2024 3d5b5292f83211a8ce17848a4cb715b9d8cfc0f1
14:54:34 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 11 September 2024 3d5b5292f83211a8ce17848a4cb715b9d8cfc0f1
14:54:34 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 11 September 2024 3d5b5292f83211a8ce17848a4cb715b9d8cfc0f1
14:54:34 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 11 September 2024 3d5b5292f83211a8ce17848a4cb715b9d8cfc0f1
14:54:34 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 11 September 2024 3d5b5292f83211a8ce17848a4cb715b9d8cfc0f1
14:54:34 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT
14:54:34 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT
14:54:34 Jar: lib/server/omero-gateway.jar jar 5.9.4-SNAPSHOT
14:54:34 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT
14:54:34 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT
14:54:34 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT
14:54:34 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT
14:54:35 + deactivate
14:54:35 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
14:54:35 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:54:35 + export PATH
14:54:35 + unset _OLD_VIRTUAL_PATH
14:54:35 + '[' -n '' ']'
14:54:35 + '[' -n /bin/bash -o -n '' ']'
14:54:35 + hash -r
14:54:35 + '[' -n '' ']'
14:54:35 + unset VIRTUAL_ENV
14:54:35 + '[' '!' '' = nondestructive ']'
14:54:35 + unset -f deactivate
14:54:35 Finished: SUCCESS
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