00:48:58 Started by upstream project "Trigger" build number 51
00:48:58 originally caused by:
00:48:58 Started by timer
00:48:58 Running as SYSTEM
00:48:58 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:48:58 [OMERO-server] $ /bin/bash -xe /tmp/jenkins18329754651692703182.sh
00:48:59 + source /home/settings.env
00:48:59 ++ OMERO_DB_HOST=pg
00:48:59 ++ OMERO_DB_USER=postgres
00:48:59 ++ OMERO_DB_PASS=
00:48:59 ++ OMERO_ROOT_PASS=omero
00:48:59 ++ OMERO_DATA_DIR=/OMERO
00:48:59 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:48:59 + OMERO_DB_NAME=OMERO-server
00:48:59 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:48:59 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:59 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:48:59 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:48:59 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:48:59 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:48:59 ++ deactivate nondestructive
00:48:59 ++ '[' -n '' ']'
00:48:59 ++ '[' -n '' ']'
00:48:59 ++ '[' -n /bin/bash -o -n '' ']'
00:48:59 ++ hash -r
00:48:59 ++ '[' -n '' ']'
00:48:59 ++ unset VIRTUAL_ENV
00:48:59 ++ '[' '!' nondestructive = nondestructive ']'
00:48:59 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:48:59 ++ export VIRTUAL_ENV
00:48:59 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:48:59 ++ 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
00:48:59 ++ export PATH
00:48:59 ++ '[' -n '' ']'
00:48:59 ++ '[' -z '' ']'
00:48:59 ++ _OLD_VIRTUAL_PS1=
00:48:59 ++ PS1='(.venv3) '
00:48:59 ++ export PS1
00:48:59 ++ '[' -n /bin/bash -o -n '' ']'
00:48:59 ++ hash -r
00:48:59 + omero admin stop
00:49:10 Waiting on shutdown. Use CTRL-C to exit
00:49:10 .+ sleep 5
00:49:25 + deactivate
00:49:25 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:49:25 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:25 + export PATH
00:49:25 + unset _OLD_VIRTUAL_PATH
00:49:25 + '[' -n '' ']'
00:49:25 + '[' -n /bin/bash -o -n '' ']'
00:49:25 + hash -r
00:49:25 + '[' -n '' ']'
00:49:25 + unset VIRTUAL_ENV
00:49:25 + '[' '!' '' = nondestructive ']'
00:49:25 + unset -f deactivate
00:49:25 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:49:31 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:49:35 + '[' false = true ']'
00:49:35 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:49:35 Skipping PURGE_DATA:CleanDbAndRepo
00:49:35 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:49:38 Copied 1 artifact from "OMERO-build" build number 42
00:49:38 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 42
00:49:38 Copied 2 artifacts from "OMERO-build-build" build number 43
00:49:38 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12479801020454912144.sh
00:49:38 + source /home/settings.env
00:49:38 ++ OMERO_DB_HOST=pg
00:49:38 ++ OMERO_DB_USER=postgres
00:49:38 ++ OMERO_DB_PASS=
00:49:38 ++ OMERO_ROOT_PASS=omero
00:49:38 ++ OMERO_DATA_DIR=/OMERO
00:49:38 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:49:38 + OMERO_DB_NAME=OMERO-server
00:49:38 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:49:38 + mkdir -p /home/omero/omero-server-data
00:49:38 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:49:38 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:38 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:38 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:49:38 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:49:38 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:49:38 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:49:38 ++ ls OMERO.server-5.6.3-456-73becf04eb-ice36.zip
00:49:38 + ZIP=OMERO.server-5.6.3-456-73becf04eb-ice36.zip
00:49:38 + '[' '!' -z '' ']'
00:49:38 + DIST=OMERO.server-5.6.3-456-73becf04eb-ice36
00:49:38 + unzip OMERO.server-5.6.3-456-73becf04eb-ice36.zip
00:49:38 Archive: OMERO.server-5.6.3-456-73becf04eb-ice36.zip
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/blitz/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/grid/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/profiles/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/error/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/grid/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/luts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/luts/janelia/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/luts/ncsa_paledit/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/luts/wcif/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/analysis_scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/annotation_scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/export_scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/figure_scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/import_scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/scripts/omero/util_scripts/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/misc/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__1/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__10/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__11/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__2/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__3/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__4/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__5/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__6/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__7/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__8/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__9/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__4/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__5/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__6/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__7/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.1__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.2__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.2__0/t/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.3__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.4__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.0__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.1__1/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.2__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4DEV__1/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4DEV__2/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4DEV__3/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/
00:49:38 creating: OMERO.server-5.6.3-456-73becf04eb-ice36/var/
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/LICENSE.txt
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/backup.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/blitz/mail-senders.example
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/blitz/mail-server.example
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/build.properties
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/env.bat
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/env.sh
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/hibernate.properties
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/ice.config
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/logback-cli.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/logback-indexing-cli.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/logback-indexing.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/logback.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/mime.types
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/node1.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/node2.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/omero.properties
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/profiles/psql
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/rollover.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/Windows.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/error/maintainance.html
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/grid/README
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/grid/default.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/grid/templates.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/grid/windefault.xml
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/ice.config
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/internal.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/master.cfg
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/templates/robot.template
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/etc/testdropbox.config
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/history.rst
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/OMEZarrReader.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/activation.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/aggdesigner-algorithm.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/aircompressor.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/annotations.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/antlr.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/aopalliance.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/avatica-core.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/avatica-metrics.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/aws-java-sdk-core.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/aws-java-sdk-kms.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/aws-java-sdk-s3.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/base.jar
00:49:38 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-all.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-anim.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-awt-util.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-bridge.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-codec.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-constants.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-css.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-dom.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-ext.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-extension.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-gui-util.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-gvt.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-i18n.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-parser.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-rasterizer-ext.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-rasterizer.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-script.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-slideshow.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-squiggle-ext.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-squiggle.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-svg-dom.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-svgbrowser.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-svggen.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-svgpp.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-svgrasterizer.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-swing.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-transcoder.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-ttf2svg.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-util.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/batik-xml.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/btm.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/bufr.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/c3p0.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/calcite-core.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/calcite-linq4j.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/cdm-core.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/checker-qual.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/commons-beanutils.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/commons-codec.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/commons-collections.jar
00:49:39 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/client/commons-collections4.jar
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00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/protobuf-java.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/quartz.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/re2j.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/reflectasm.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/rhino.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/serializer.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/sketches-core.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/slf4j-api.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/snakeyaml.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/solr-analysis-extras.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/solr-commons-csv.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/solr-core.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/solr-solrj.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/specification.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-aop.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-beans.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-context-support.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-context.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-core.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-expression.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-jdbc.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-jms.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-ldap-core.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-messaging.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-orm.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-security-core.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-security-ldap.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/spring-tx.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/sqlite-jdbc.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/subethasmtp.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/turbojpeg.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/udunits.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xalan.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xercesImpl.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xml-apis-ext.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xml-apis.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xmlgraphics-commons.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xmpcore.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/lib/server/xpp3.jar
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/README
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/agpl.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/antlr.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/apache-v1.1.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/apache-v2.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/asm.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/bouncy_castle_license.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/bsd.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/cddl-v1.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/cpl-v10.html
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/crystalclear.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/django.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/dom4j.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/epl-v1.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/fbsd.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/freemarker.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/gpl-v2.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/gpl.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/gtest.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/iconsweets_license.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/jamon.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/jmock.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/jquery.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/jtidy.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/lgpl-3.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/lgpl-v2.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/lgpl-v2.1.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/lgpl-v3.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/lgpl.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/matplotlib.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/mit.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/mpl-v1_0.htm
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/npl-1_1.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/path.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/pil.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/postgresql.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/psf-v2.0.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/psf-v2.5.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/scons.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/slf4j.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/tablelayout.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/which.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/zlib-libpng.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/share/licenses/zpl-v2.1.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/README.txt
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/misc/Makefile
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/misc/current.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/misc/enums.py
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/schema.sql
00:49:41 inflating: OMERO.server-5.6.3-456-73becf04eb-ice36/sql/psql/OMERO5.4__0/views.sql
00:49:41 + rm -f OMERO.server-5.6.3-456-73becf04eb-ice36.zip
00:49:41 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-456-73becf04eb-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:49:41 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:49:41 ++ deactivate nondestructive
00:49:41 ++ '[' -n '' ']'
00:49:41 ++ '[' -n '' ']'
00:49:41 ++ '[' -n /bin/bash -o -n '' ']'
00:49:41 ++ hash -r
00:49:41 ++ '[' -n '' ']'
00:49:41 ++ unset VIRTUAL_ENV
00:49:41 ++ '[' '!' nondestructive = nondestructive ']'
00:49:41 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:49:41 ++ export VIRTUAL_ENV
00:49:41 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:41 ++ 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
00:49:41 ++ export PATH
00:49:41 ++ '[' -n '' ']'
00:49:41 ++ '[' -z '' ']'
00:49:41 ++ _OLD_VIRTUAL_PS1=
00:49:41 ++ PS1='(.venv3) '
00:49:41 ++ export PS1
00:49:41 ++ '[' -n /bin/bash -o -n '' ']'
00:49:41 ++ hash -r
00:49:41 + 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
00:49:41 Collecting zeroc-ice==3.6.5
00:49:42 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
00:49:44 Installing collected packages: zeroc-ice
00:49:45 Successfully installed zeroc-ice-3.6.5
00:49:45 + pip install -U pip future
00:49:46 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:49:46 Collecting pip
00:49:46 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
00:49:46 Collecting future
00:49:46 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:49:46 Installing collected packages: pip, future
00:49:46 Attempting uninstall: pip
00:49:46 Found existing installation: pip 21.2.3
00:49:46 Uninstalling pip-21.2.3:
00:49:46 Successfully uninstalled pip-21.2.3
00:49:48 Successfully installed future-1.0.0 pip-24.0
00:49:48 + pip install markdown
00:49:49 Collecting markdown
00:49:49 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
00:49:49 Collecting importlib-metadata>=4.4 (from markdown)
00:49:49 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
00:49:49 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
00:49:49 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
00:49:49 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
00:49:49 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
00:49:49 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
00:49:49 Installing collected packages: zipp, importlib-metadata, markdown
00:49:50 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
00:49:50 + pip install reportlab
00:49:51 Collecting reportlab
00:49:51 Using cached reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
00:49:51 Collecting pillow>=9.0.0 (from reportlab)
00:49:51 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
00:49:51 Collecting chardet (from reportlab)
00:49:51 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:49:51 Using cached reportlab-4.2.0-py3-none-any.whl (1.9 MB)
00:49:51 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
00:49:51 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:49:52 Installing collected packages: pillow, chardet, reportlab
00:49:53 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
00:49:53 + pip install omego
00:49:54 Collecting omego
00:49:54 Using cached omego-0.7.0-py3-none-any.whl
00:49:54 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:49:54 Collecting yaclifw>=0.1.1 (from omego)
00:49:54 Using cached yaclifw-0.2.0-py3-none-any.whl
00:49:54 Collecting six (from yaclifw>=0.1.1->omego)
00:49:54 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:49:54 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:49:54 Installing collected packages: six, yaclifw, omego
00:49:55 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:49:55 + pip install tables
00:49:55 Collecting tables
00:49:55 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:49:56 Collecting numpy>=1.19.0 (from tables)
00:49:56 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:49:56 Collecting numexpr>=2.6.2 (from tables)
00:49:56 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
00:49:56 Collecting packaging (from tables)
00:49:56 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
00:49:56 Collecting py-cpuinfo (from tables)
00:49:56 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:49:56 Collecting blosc2>=2.3.0 (from tables)
00:49:56 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:49:56 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:49:56 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:49:57 Collecting msgpack (from blosc2>=2.3.0->tables)
00:49:57 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
00:49:57 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:49:57 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:49:57 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
00:49:57 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:49:57 Using cached packaging-24.0-py3-none-any.whl (53 kB)
00:49:57 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:49:57 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:49:57 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
00:49:57 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:50:01 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
00:50:02 + pip install jinja2
00:50:02 Collecting jinja2
00:50:02 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
00:50:02 Collecting MarkupSafe>=2.0 (from jinja2)
00:50:02 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
00:50:02 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
00:50:02 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
00:50:03 Installing collected packages: MarkupSafe, jinja2
00:50:03 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
00:50:03 + pip install omero-py
00:50:03 Collecting omero-py
00:50:04 Downloading omero_py-5.19.2-py3-none-any.whl.metadata (6.6 kB)
00:50:04 Collecting urllib3<2 (from omero-py)
00:50:04 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
00:50:04 Collecting appdirs (from omero-py)
00:50:04 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:50:04 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:50:04 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
00:50:04 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
00:50:04 Collecting PyYAML (from omero-py)
00:50:04 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:50:04 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:50:04 Collecting requests (from omero-py)
00:50:04 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
00:50:04 Collecting portalocker (from omero-py)
00:50:04 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
00:50:04 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:50:04 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:50:04 Collecting idna<4,>=2.5 (from requests->omero-py)
00:50:04 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
00:50:05 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:50:05 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
00:50:05 Downloading omero_py-5.19.2-py3-none-any.whl (2.8 MB)
00:50:05 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.8/2.8 MB 17.1 MB/s eta 0:00:00
00:50:05 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
00:50:05 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:50:05 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
00:50:05 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
00:50:05 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
00:50:05 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
00:50:05 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:50:05 Using cached idna-3.7-py3-none-any.whl (66 kB)
00:50:05 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
00:50:08 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.2 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
00:50:08 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:50:09 Collecting omero-metadata
00:50:09 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-qs_jsvu8/omero-metadata_83b5eef985d845b8bbf7f3d977c110d8
00:50:09 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-qs_jsvu8/omero-metadata_83b5eef985d845b8bbf7f3d977c110d8
00:50:10 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit f3509297adb39927bf410e99a966668ef06cfae1
00:50:10 Installing build dependencies: started
00:50:13 Installing build dependencies: finished with status 'done'
00:50:13 Getting requirements to build wheel: started
00:50:13 Getting requirements to build wheel: finished with status 'done'
00:50:13 Installing backend dependencies: started
00:50:15 Installing backend dependencies: finished with status 'done'
00:50:15 Preparing metadata (pyproject.toml): started
00:50:15 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:15 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.2)
00:50:15 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
00:50:15 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
00:50:16 Collecting pandas (from omero-metadata)
00:50:16 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:50:16 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
00:50:16 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:50:16 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:50:16 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:50:16 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.3.0)
00:50:16 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:50:16 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
00:50:16 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
00:50:16 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:50:17 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:50:17 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:50:17 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:50:17 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
00:50:17 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:50:17 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:50:17 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
00:50:17 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
00:50:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
00:50:17 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
00:50:17 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:50:17 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:50:17 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
00:50:17 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:50:17 Building wheels for collected packages: omero-metadata
00:50:17 Building wheel for omero-metadata (pyproject.toml): started
00:50:18 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:50:18 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=67070e7e7c3b7472b8dcba2e54500fc4d91d55349cd765cd42cc1c9ca84cdb7f
00:50:18 Stored in directory: /tmp/pip-ephem-wheel-cache-xghhoq6b/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:50:18 Successfully built omero-metadata
00:50:18 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:50:24 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
00:50:24 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:50:24 Collecting omero-cli-render
00:50:24 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-d55l0cyg/omero-cli-render_b4ea80efd0444f6c937e4464030d4e03
00:50:24 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-d55l0cyg/omero-cli-render_b4ea80efd0444f6c937e4464030d4e03
00:50:25 Running command git checkout -b merge_ci --track origin/merge_ci
00:50:26 Switched to a new branch 'merge_ci'
00:50:26 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:50:26 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit a45f7fd4527d9e2b63c36fcb0355cfc685d72628
00:50:26 Installing build dependencies: started
00:50:28 Installing build dependencies: finished with status 'done'
00:50:28 Getting requirements to build wheel: started
00:50:28 Getting requirements to build wheel: finished with status 'done'
00:50:28 Installing backend dependencies: started
00:50:29 Installing backend dependencies: finished with status 'done'
00:50:29 Preparing metadata (pyproject.toml): started
00:50:29 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:29 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
00:50:29 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.2)
00:50:29 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
00:50:29 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
00:50:29 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:50:29 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:50:29 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.3.0)
00:50:29 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:50:29 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
00:50:29 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
00:50:29 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
00:50:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
00:50:29 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
00:50:29 Building wheels for collected packages: omero-cli-render
00:50:29 Building wheel for omero-cli-render (pyproject.toml): started
00:50:30 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:50:30 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=b7dbab429e9e8a14645f53f127457a51122f4ae8752ac5260e7ab2f4a7134c38
00:50:30 Stored in directory: /tmp/pip-ephem-wheel-cache-c09q_8ah/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:50:30 Successfully built omero-cli-render
00:50:30 Installing collected packages: omero-cli-render
00:50:30 Successfully installed omero-cli-render-0.8.1.dev0
00:50:30 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:50:30 Collecting omero-cli-duplicate
00:50:30 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-kbaf_2d9/omero-cli-duplicate_1319b5b969d24c729a48f330c3bfd4ea
00:50:30 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-kbaf_2d9/omero-cli-duplicate_1319b5b969d24c729a48f330c3bfd4ea
00:50:31 Running command git checkout -b merge_ci --track origin/merge_ci
00:50:32 Switched to a new branch 'merge_ci'
00:50:32 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:50:32 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 14f6ac4fce079623f6c4fd7507ba5a6a38266945
00:50:32 Installing build dependencies: started
00:50:34 Installing build dependencies: finished with status 'done'
00:50:34 Getting requirements to build wheel: started
00:50:34 Getting requirements to build wheel: finished with status 'done'
00:50:34 Installing backend dependencies: started
00:50:35 Installing backend dependencies: finished with status 'done'
00:50:35 Preparing metadata (pyproject.toml): started
00:50:36 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:36 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.2)
00:50:36 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
00:50:36 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:50:36 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:50:36 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:50:36 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.3.0)
00:50:36 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
00:50:36 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:50:36 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
00:50:36 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
00:50:36 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
00:50:36 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
00:50:36 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
00:50:36 Building wheels for collected packages: omero-cli-duplicate
00:50:36 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:50:36 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:50:36 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=73a6eb232a4a3c4d5457b5367441eb882fcf9b0b686a14756cf526ac8825c19e
00:50:36 Stored in directory: /tmp/pip-ephem-wheel-cache-72gx4u12/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:50:36 Successfully built omero-cli-duplicate
00:50:36 Installing collected packages: omero-cli-duplicate
00:50:36 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:50:36 + pip install omero-certificates
00:50:37 Collecting omero-certificates
00:50:37 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:50:37 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.2)
00:50:37 Collecting distro==1.8.0 (from omero-certificates)
00:50:37 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:50:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
00:50:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:50:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:50:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:50:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.3.0)
00:50:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
00:50:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:50:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
00:50:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
00:50:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
00:50:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
00:50:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
00:50:37 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:50:37 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:50:38 Installing collected packages: distro, omero-certificates
00:50:38 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:50:38 + for x in *.tar.gz
00:50:38 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
00:50:38 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
00:50:38 Installing build dependencies: started
00:50:41 Installing build dependencies: finished with status 'done'
00:50:41 Getting requirements to build wheel: started
00:50:41 Getting requirements to build wheel: finished with status 'done'
00:50:41 Installing backend dependencies: started
00:50:42 Installing backend dependencies: finished with status 'done'
00:50:42 Preparing metadata (pyproject.toml): started
00:50:42 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:42 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.2)
00:50:42 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
00:50:42 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
00:50:42 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
00:50:42 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
00:50:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.3.0)
00:50:42 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
00:50:42 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
00:50:42 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
00:50:42 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
00:50:42 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
00:50:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.7)
00:50:42 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
00:50:42 Building wheels for collected packages: omero-dropbox
00:50:42 Building wheel for omero-dropbox (pyproject.toml): started
00:50:43 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:50:43 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=fd51c382ada58d14b8437741359de231a9807a59face41dea3d7512c5a889925
00:50:43 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
00:50:43 Successfully built omero-dropbox
00:50:43 Installing collected packages: omero-dropbox
00:50:43 Successfully installed omero-dropbox-5.6.3.dev0
00:50:43 + for x in *.tar.gz
00:50:43 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:50:43 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:50:43 Installing build dependencies: started
00:50:46 Installing build dependencies: finished with status 'done'
00:50:46 Getting requirements to build wheel: started
00:50:46 Getting requirements to build wheel: finished with status 'done'
00:50:46 Installing backend dependencies: started
00:50:47 Installing backend dependencies: finished with status 'done'
00:50:47 Preparing metadata (pyproject.toml): started
00:50:48 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:48 Building wheels for collected packages: omero_marshal
00:50:48 Building wheel for omero_marshal (pyproject.toml): started
00:50:48 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:50:48 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=11510eef0614d8770569923ee330581bd66edec69da923567a68143181fa9bb7
00:50:48 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:50:48 Successfully built omero_marshal
00:50:48 Installing collected packages: omero_marshal
00:50:48 Successfully installed omero_marshal-0.9.1.dev0
00:50:49 + for x in *.tar.gz
00:50:49 + pip install -U omero_py-5.19.3.dev0.tar.gz
00:50:49 Processing ./omero_py-5.19.3.dev0.tar.gz
00:50:49 Installing build dependencies: started
00:50:52 Installing build dependencies: finished with status 'done'
00:50:52 Getting requirements to build wheel: started
00:50:52 Getting requirements to build wheel: finished with status 'done'
00:50:52 Installing backend dependencies: started
00:50:54 Installing backend dependencies: finished with status 'done'
00:50:54 Preparing metadata (pyproject.toml): started
00:50:54 Preparing metadata (pyproject.toml): finished with status 'done'
00:50:54 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.18)
00:50:54 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.4.4)
00:50:54 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.0.0)
00:50:54 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.4)
00:50:54 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (10.3.0)
00:50:54 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (6.0.1)
00:50:54 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (3.6.5)
00:50:54 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.31.0)
00:50:54 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.8.2)
00:50:54 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.3.2)
00:50:54 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.7)
00:50:54 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (2024.2.2)
00:50:54 Building wheels for collected packages: omero-py
00:50:54 Building wheel for omero-py (pyproject.toml): started
00:50:55 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:50:55 Created wheel for omero-py: filename=omero_py-5.19.3.dev0-py3-none-any.whl size=2783067 sha256=3eb208cbac01d908ec97850078d22036b7afb10b9cbed389db889d4b3e18a3f4
00:50:55 Stored in directory: /home/omero/.cache/pip/wheels/da/30/d3/f2a83bdd6a0fbad84aa00dad9eb9431eedebb0e1310be5dd41
00:50:55 Successfully built omero-py
00:50:56 Installing collected packages: omero-py
00:50:56 Attempting uninstall: omero-py
00:50:56 Found existing installation: omero-py 5.19.2
00:50:56 Uninstalling omero-py-5.19.2:
00:50:56 Successfully uninstalled omero-py-5.19.2
00:50:59 Successfully installed omero-py-5.19.3.dev0
00:50:59 + for x in *.tar.gz
00:50:59 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
00:51:00 Processing ./omero_scripts-5.8.3.dev0.tar.gz
00:51:00 Installing build dependencies: started
00:51:02 Installing build dependencies: finished with status 'done'
00:51:02 Getting requirements to build wheel: started
00:51:03 Getting requirements to build wheel: finished with status 'done'
00:51:03 Installing backend dependencies: started
00:51:04 Installing backend dependencies: finished with status 'done'
00:51:04 Preparing metadata (pyproject.toml): started
00:51:04 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:04 Building wheels for collected packages: omero-scripts
00:51:04 Building wheel for omero-scripts (pyproject.toml): started
00:51:04 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:51:04 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=83649258300bd25435e619f82a70fe851707f10f42494cfe6a28ab157b37c47d
00:51:04 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
00:51:04 Successfully built omero-scripts
00:51:05 Installing collected packages: omero-scripts
00:51:05 Successfully installed omero-scripts-5.8.3.dev0
00:51:05 + for x in *.tar.gz
00:51:05 + pip install -U omero_web-5.25.1.dev0.tar.gz
00:51:06 Processing ./omero_web-5.25.1.dev0.tar.gz
00:51:06 Installing build dependencies: started
00:51:09 Installing build dependencies: finished with status 'done'
00:51:09 Getting requirements to build wheel: started
00:51:09 Getting requirements to build wheel: finished with status 'done'
00:51:09 Installing backend dependencies: started
00:51:10 Installing backend dependencies: finished with status 'done'
00:51:10 Preparing metadata (pyproject.toml): started
00:51:11 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:11 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.3.dev0)
00:51:11 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
00:51:11 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:51:11 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
00:51:11 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
00:51:12 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
00:51:12 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:51:12 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
00:51:12 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:51:12 Collecting django-csp (from omero-web==5.25.1.dev0)
00:51:12 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:51:12 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
00:51:12 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
00:51:12 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
00:51:12 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
00:51:12 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
00:51:12 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
00:51:12 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
00:51:12 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
00:51:12 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
00:51:12 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:51:12 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:51:12 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:51:12 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
00:51:12 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
00:51:12 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
00:51:12 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
00:51:12 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
00:51:12 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
00:51:12 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==5.25.1.dev0) (3.6.5)
00:51:12 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
00:51:12 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:51:12 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
00:51:13 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
00:51:13 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.7)
00:51:13 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
00:51:13 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:51:13 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:51:13 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:51:13 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
00:51:13 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
00:51:13 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
00:51:13 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:51:13 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:51:13 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
00:51:13 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
00:51:13 Building wheels for collected packages: omero-web
00:51:13 Building wheel for omero-web (pyproject.toml): started
00:51:15 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:51:15 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2770170 sha256=2bcd3e767a4382c39630d13e6d77d5ecdb029f517af9632661fb2f5c154fc6d4
00:51:15 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
00:51:15 Successfully built omero-web
00:51:15 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:51:18 Successfully installed Django-4.2.11 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-22.0.0 omero-web-5.25.1.dev0 sqlparse-0.5.0 typing-extensions-4.11.0 whitenoise-6.6.0
00:51:18 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:51:19 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:51:19 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:51:19 --2024-04-25 00:51:19-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:51:19 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.111.133, 185.199.110.133, ...
00:51:19 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
00:51:19 HTTP request sent, awaiting response... 200 OK
00:51:19 Length: 94637 (92K) [text/plain]
00:51:19 Saving to: ‘Figure_To_Pdf.py’
00:51:19
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00:51:19
00:51:19 2024-04-25 00:51:19 (4.09 MB/s) - ‘Figure_To_Pdf.py’ saved [94637/94637]
00:51:19
00:51:19 + chmod 755 Figure_To_Pdf.py
00:51:19 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:51:19 + omero config set omero.db.name OMERO-server
00:51:22 + omero config set omero.db.host pg
00:51:24 + omero config set omero.db.user postgres
00:51:26 + omero config set omero.data.dir /home/omero/omero-server-data
00:51:28 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:51:30 + omero config set omero.db.poolsize 25
00:51:32 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:51:35 + omero config set omero.security.trustStorePassword changeit
00:51:37 + omero config set omero.mail.config true
00:51:39 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:51:41 + omero config set omero.mail.host smtp.dundee.ac.uk
00:51:43 + omero certificates
00:51:46 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:51:46 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:51:46 + '[' false = true ']'
00:51:46 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:51:46 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:51:46 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:51:46 2024-04-25 00:51:46,699 [ omego.db] DEBUG dbcommand => upgrade
00:51:46 2024-04-25 00:51:46,700 [ omego.db] DEBUG dbhost => localhost
00:51:46 2024-04-25 00:51:46,700 [ omego.db] DEBUG dbname => OMERO-server
00:51:46 2024-04-25 00:51:46,700 [ omego.db] DEBUG dbpass => omero
00:51:46 2024-04-25 00:51:46,700 [ omego.db] DEBUG dbuser => omero
00:51:46 2024-04-25 00:51:46,700 [ omego.db] DEBUG rootpass => omero
00:51:46 2024-04-25 00:51:46,700 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:51:46 2024-04-25 00:51:46,700 [omego.extern] INFO Executing : omero version
00:51:48 OMERO.py version:
00:51:48 OMERO.server version:
00:51:48 5.6.3-456-73becf04eb-ice36
00:51:48 5.19.3.dev0
00:51:48 2024-04-25 00:51:48,868 [omego.extern] INFO Completed [2.168 s]
00:51:48 2024-04-25 00:51:48,869 [omego.extern] DEBUG Using omero CLI from omero
00:51:48 2024-04-25 00:51:48,869 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:51:48 2024-04-25 00:51:48,869 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:48 2024-04-25 00:51:48,869 [omego.extern] INFO Executing : omero config get --show-password
00:51:50 2024-04-25 00:51:50,933 [omego.extern] INFO Completed [2.064 s]
00:51:50 2024-04-25 00:51:50,933 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:50 2024-04-25 00:51:50,933 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:51:51 2024-04-25 00:51:51,118 [omego.extern] INFO Completed [0.185 s]
00:51:51 2024-04-25 00:51:51,119 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:51:51 2024-04-25 00:51:51,119 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:51:51
00:51:51 2024-04-25 00:51:51,119 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:51 2024-04-25 00:51:51,119 [omego.extern] INFO Executing : omero config get --show-password
00:51:52 2024-04-25 00:51:52,853 [omego.extern] INFO Completed [1.734 s]
00:51:52 2024-04-25 00:51:52,853 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:52 2024-04-25 00:51:52,854 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:51:52 2024-04-25 00:51:52,987 [omego.extern] INFO Completed [0.133 s]
00:51:52 2024-04-25 00:51:52,988 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.8") at port "5432".\n'
00:51:52 2024-04-25 00:51:52,988 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:51:52 2024-04-25 00:51:52,988 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:51:52 2024-04-25 00:51:52,988 [omego.extern] INFO Executing : omero config get --show-password
00:51:54 2024-04-25 00:51:54,681 [omego.extern] INFO Completed [1.693 s]
00:51:54 2024-04-25 00:51:54,681 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:51:54 2024-04-25 00:51:54,682 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:51:54 2024-04-25 00:51:54,745 [omego.extern] INFO Completed [0.064 s]
00:51:54 2024-04-25 00:51:54,746 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:51:54 2024-04-25 00:51:54,746 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:51:54 2024-04-25 00:51:54,748 [ omego.db] INFO Database is already at OMERO5.4__0
00:51:54 + export LANG=en_US.UTF-8
00:51:54 + LANG=en_US.UTF-8
00:51:54 + export LANGUAGE=en_US:en
00:51:54 + LANGUAGE=en_US:en
00:51:54 + export LC_ALL=en_US.UTF-8
00:51:54 + LC_ALL=en_US.UTF-8
00:51:54 + BUILD_ID=DONT_KILL_ME
00:51:54 + omero admin start
00:52:08 No descriptor given. Using etc/grid/default.xml
00:52:24 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:52:24 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:52:24 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:52:24 Waiting on startup. Use CTRL-C to exit
00:52:25 + omero admin waitup
00:52:27 Waiting on startup. Use CTRL-C to exit
00:52:27 + omero admin diagnostics
00:52:29
00:52:29 ================================================================================
00:52:29 OMERO Diagnostics (admin)
00:52:29 ================================================================================
00:52:29
00:52:29 Commands: java -version 11.0.22 (/usr/bin/java)
00:52:29 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:52:29 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:52:29 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:52:29 Commands: psql --version 16.2 (/usr/bin/psql)
00:52:29 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:52:29
00:52:29 Component: OMERO.py 5.19.3.dev0
00:52:29 Component: OMERO.server 5.6.3-456-73becf04eb-ice36
00:52:29
00:52:29 Server: icegridnode running
00:52:29 Server: Blitz-0 active (pid = 21046, enabled)
00:52:30 Server: DropBox active (pid = 21070, enabled)
00:52:30 Server: FileServer active (pid = 21079, enabled)
00:52:30 Server: Indexer-0 activating (enabled)
00:52:30 Server: MonitorServer active (pid = 21082, enabled)
00:52:30 Server: OMERO.Glacier2 active (pid = 21080, enabled)
00:52:30 Server: OMERO.IceStorm active (pid = 21102, enabled)
00:52:30 Server: PixelData-0 activating (enabled)
00:52:30 Server: Processor-0 activating (enabled)
00:52:30 Server: Tables-0 activating (enabled)
00:52:30 Server: TestDropBox inactive (enabled)
00:52:30
00:52:30 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:52:30 Log files: Blitz-0.log 25.3 KB errors=0 warnings=1
00:52:30 Log files: DropBox.log 1.2 KB
00:52:30 Log files: FileServer.log 114 B
00:52:30 Log files: Indexer-0.log 2.4 KB
00:52:30 Log files: MonitorServer.log 1.1 KB
00:52:30 Log files: PixelData-0.log 1.6 KB
00:52:30 Log files: Processor-0.log 592 B
00:52:30 Log files: Tables-0.log 841 B
00:52:30 Log files: TestDropBox.log n/a
00:52:30 Log files: master.err 2.1 KB
00:52:30 Log files: master.out 41.5 KB
00:52:30 Log files: Total size 0.08 MB
00:52:30
00:52:30
00:52:30 Environment:OMERO_HOME=(unset)
00:52:30 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:52:30 Environment:OMERO_NODE=(unset)
00:52:30 Environment:OMERO_MASTER=(unset)
00:52:30 Environment:OMERO_USERDIR=(unset)
00:52:30 Environment:OMERO_TMPDIR=(unset)
00:52:30 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:52:30 Environment:PYTHONPATH=(unset)
00:52:30 Environment:ICE_HOME=/opt/ice-3.6.5
00:52:30 Environment:LD_LIBRARY_PATH=(unset)
00:52:30 Environment:DYLD_LIBRARY_PATH=(unset)
00:52:30
00:52:30 OMERO SSL port:4064
00:52:30 OMERO TCP port:4063
00:52:30 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:52:30 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:52:30
00:52:30 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:30 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:30 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:30 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:52:30
00:52:30 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 25 April 2024 2acec68a47dcea9e6ff24aac1f24acfb4ea0d5f2
00:52:30 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 25 April 2024 2acec68a47dcea9e6ff24aac1f24acfb4ea0d5f2
00:52:30 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 25 April 2024 2acec68a47dcea9e6ff24aac1f24acfb4ea0d5f2
00:52:30 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 25 April 2024 7d8ec494e4d2728b126eef59049d50a94f2c701e
00:52:30 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 25 April 2024 7d8ec494e4d2728b126eef59049d50a94f2c701e
00:52:30 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 25 April 2024 7d8ec494e4d2728b126eef59049d50a94f2c701e
00:52:30 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 25 April 2024 7d8ec494e4d2728b126eef59049d50a94f2c701e
00:52:30 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 25 April 2024 7d8ec494e4d2728b126eef59049d50a94f2c701e
00:52:30 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 25 April 2024 7d8ec494e4d2728b126eef59049d50a94f2c701e
00:52:30 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
00:52:30 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
00:52:30 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
00:52:30 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
00:52:30 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
00:52:30 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
00:52:30 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
00:52:31 + deactivate
00:52:31 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:52:31 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:52:31 + export PATH
00:52:31 + unset _OLD_VIRTUAL_PATH
00:52:31 + '[' -n '' ']'
00:52:31 + '[' -n /bin/bash -o -n '' ']'
00:52:31 + hash -r
00:52:31 + '[' -n '' ']'
00:52:31 + unset VIRTUAL_ENV
00:52:31 + '[' '!' '' = nondestructive ']'
00:52:31 + unset -f deactivate
00:52:31 Finished: SUCCESS
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