00:46:00 Started by upstream project "Trigger" build number 305
00:46:00 originally caused by:
00:46:00 Started by timer
00:46:00 Running as SYSTEM
00:46:00 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:46:01 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5178257186773980685.sh
00:46:01 + source /home/settings.env
00:46:01 ++ OMERO_DB_HOST=pg
00:46:01 ++ OMERO_DB_USER=postgres
00:46:01 ++ OMERO_DB_PASS=
00:46:01 ++ OMERO_ROOT_PASS=omero
00:46:01 ++ OMERO_DATA_DIR=/OMERO
00:46:01 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:46:01 + OMERO_DB_NAME=OMERO-server
00:46:01 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:46:01 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:01 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:01 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:46:01 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:46:01 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:46:01 ++ deactivate nondestructive
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ '[' -n /bin/bash -o -n '' ']'
00:46:01 ++ hash -r
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ unset VIRTUAL_ENV
00:46:01 ++ '[' '!' nondestructive = nondestructive ']'
00:46:01 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:46:01 ++ export VIRTUAL_ENV
00:46:01 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:01 ++ 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
00:46:01 ++ export PATH
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ '[' -z '' ']'
00:46:01 ++ _OLD_VIRTUAL_PS1=
00:46:01 ++ PS1='(.venv3) '
00:46:01 ++ export PS1
00:46:01 ++ '[' -n /bin/bash -o -n '' ']'
00:46:01 ++ hash -r
00:46:01 + omero admin stop
00:46:15 Waiting on shutdown. Use CTRL-C to exit
00:46:15 ...+ sleep 5
00:46:50 + deactivate
00:46:50 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:46:50 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:50 + export PATH
00:46:50 + unset _OLD_VIRTUAL_PATH
00:46:50 + '[' -n '' ']'
00:46:50 + '[' -n /bin/bash -o -n '' ']'
00:46:50 + hash -r
00:46:50 + '[' -n '' ']'
00:46:50 + unset VIRTUAL_ENV
00:46:50 + '[' '!' '' = nondestructive ']'
00:46:50 + unset -f deactivate
00:46:50 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:46:51 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:46:55 + '[' false = true ']'
00:46:55 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:46:55 Skipping PURGE_DATA:CleanDbAndRepo
00:46:55 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.1-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.6.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.4.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.28.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:47:11 Copied 1 artifact from "OMERO-build" build number 260
00:47:11 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 256
00:47:11 Copied 2 artifacts from "OMERO-build-build" build number 267
00:47:11 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14364219754969823500.sh
00:47:11 + source /home/settings.env
00:47:11 ++ OMERO_DB_HOST=pg
00:47:11 ++ OMERO_DB_USER=postgres
00:47:11 ++ OMERO_DB_PASS=
00:47:11 ++ OMERO_ROOT_PASS=omero
00:47:11 ++ OMERO_DATA_DIR=/OMERO
00:47:11 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:47:11 + OMERO_DB_NAME=OMERO-server
00:47:11 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:47:11 + mkdir -p /home/omero/omero-server-data
00:47:11 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:47:11 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:47:11 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:47:11 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:47:11 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:47:11 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:47:11 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:47:11 ++ ls OMERO.server-5.6.3-529-cb99513754-ice36.zip
00:47:11 + ZIP=OMERO.server-5.6.3-529-cb99513754-ice36.zip
00:47:11 + '[' '!' -z '' ']'
00:47:11 + DIST=OMERO.server-5.6.3-529-cb99513754-ice36
00:47:11 + unzip OMERO.server-5.6.3-529-cb99513754-ice36.zip
00:47:11 Archive: OMERO.server-5.6.3-529-cb99513754-ice36.zip
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/blitz/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/grid/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/profiles/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/error/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/grid/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/luts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/luts/janelia/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/luts/matplotlib/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/luts/ncsa_paledit/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/luts/seaborn/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/luts/wcif/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/analysis_scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/annotation_scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/export_scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/figure_scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/import_scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/scripts/omero/util_scripts/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/share/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/misc/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__1/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__10/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__11/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__2/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__3/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__4/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__5/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__6/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__7/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__8/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__9/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__4/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__5/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__6/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__7/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.1__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.2__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.2__0/t/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.3__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.4__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.0__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.1__1/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.2__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4DEV__1/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4DEV__2/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4DEV__3/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/
00:47:11 creating: OMERO.server-5.6.3-529-cb99513754-ice36/var/
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/LICENSE.txt
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/backup.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/blitz/mail-senders.example
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/blitz/mail-server.example
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/build.properties
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/env.bat
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/env.sh
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/hibernate.properties
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/ice.config
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/logback-cli.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/logback-indexing-cli.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/logback-indexing.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/logback.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/mime.types
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/node1.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/node2.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/omero.properties
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/profiles/psql
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/rollover.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/Windows.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/error/maintainance.html
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/grid/README
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/grid/default.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/grid/templates.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/grid/windefault.xml
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/ice.config
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/internal.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/master.cfg
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/templates/robot.template
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/etc/testdropbox.config
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/history.rst
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/OMEZarrReader.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/activation.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/aggdesigner-algorithm.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/aircompressor.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/annotations.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/antlr.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/aopalliance.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/avatica-core.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/avatica-metrics.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/aws-java-sdk-core.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/aws-java-sdk-kms.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/aws-java-sdk-s3.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/base.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-all.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-anim.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-awt-util.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-bridge.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-codec.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-constants.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-css.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-dom.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-ext.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-extension.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-gui-util.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-gvt.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-i18n.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-parser.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-rasterizer-ext.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-rasterizer.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-script.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-slideshow.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-squiggle-ext.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-squiggle.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-svg-dom.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-svgbrowser.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-svggen.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-svgpp.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-svgrasterizer.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-swing.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-transcoder.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-ttf2svg.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-util.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/batik-xml.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/btm.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/bufr.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/c3p0.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/calcite-core.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/calcite-linq4j.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/cdm-core.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/checker-qual.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/commons-beanutils.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/commons-codec.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/commons-collections.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/commons-collections4.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/commons-compiler.jar
00:47:11 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/client/commons-dbcp2.jar
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00:47:13 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/re2j.jar
00:47:13 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/reflectasm.jar
00:47:13 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/rhino.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/serializer.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/sketches-core.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/slf4j-api.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/snakeyaml.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/solr-analysis-extras.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/solr-commons-csv.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/solr-core.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/solr-solrj.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/specification.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-aop.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-beans.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-context-support.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-context.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-core.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-expression.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-jdbc.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-jms.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-ldap-core.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-messaging.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-orm.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-security-core.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-security-ldap.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/spring-tx.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/sqlite-jdbc.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/subethasmtp.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/turbojpeg.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/udunits.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xalan.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xercesImpl.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xml-apis-ext.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xml-apis.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xmlgraphics-commons.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xmpcore.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/lib/server/xpp3.jar
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/README
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/agpl.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/antlr.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/apache-v1.1.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/apache-v2.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/asm.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/bouncy_castle_license.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/bsd.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/cddl-v1.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/cpl-v10.html
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/crystalclear.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/django.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/dom4j.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/epl-v1.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/fbsd.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/freemarker.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/gpl-v2.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/gpl.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/gtest.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/iconsweets_license.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/jamon.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/jmock.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/jquery.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/jtidy.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/lgpl-3.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/lgpl-v2.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/lgpl-v2.1.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/lgpl-v3.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/lgpl.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/matplotlib.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/mit.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/mpl-v1_0.htm
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/npl-1_1.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/path.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/pil.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/postgresql.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/psf-v2.0.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/psf-v2.5.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/scons.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/slf4j.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/tablelayout.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/which.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/zlib-libpng.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/share/licenses/zpl-v2.1.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/README.txt
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/misc/Makefile
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/misc/current.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/misc/enums.py
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/schema.sql
00:47:14 inflating: OMERO.server-5.6.3-529-cb99513754-ice36/sql/psql/OMERO5.4__0/views.sql
00:47:14 + rm -f OMERO.server-5.6.3-529-cb99513754-ice36.zip
00:47:14 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-529-cb99513754-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:47:14 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:47:14 ++ deactivate nondestructive
00:47:14 ++ '[' -n '' ']'
00:47:14 ++ '[' -n '' ']'
00:47:14 ++ '[' -n /bin/bash -o -n '' ']'
00:47:14 ++ hash -r
00:47:14 ++ '[' -n '' ']'
00:47:14 ++ unset VIRTUAL_ENV
00:47:14 ++ '[' '!' nondestructive = nondestructive ']'
00:47:14 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:47:14 ++ export VIRTUAL_ENV
00:47:14 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:47:14 ++ 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
00:47:14 ++ export PATH
00:47:14 ++ '[' -n '' ']'
00:47:14 ++ '[' -z '' ']'
00:47:14 ++ _OLD_VIRTUAL_PS1=
00:47:14 ++ PS1='(.venv3) '
00:47:14 ++ export PS1
00:47:14 ++ '[' -n /bin/bash -o -n '' ']'
00:47:14 ++ hash -r
00:47:14 + 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
00:47:14 Collecting zeroc-ice==3.6.5
00:47:15 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)
00:47:17 Installing collected packages: zeroc-ice
00:47:18 Successfully installed zeroc-ice-3.6.5
00:47:18 + pip install -U pip future
00:47:18 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:47:18 Collecting pip
00:47:19 Using cached pip-24.3.1-py3-none-any.whl (1.8 MB)
00:47:19 Collecting future
00:47:19 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:47:19 Installing collected packages: pip, future
00:47:19 Attempting uninstall: pip
00:47:19 Found existing installation: pip 21.2.3
00:47:19 Uninstalling pip-21.2.3:
00:47:19 Successfully uninstalled pip-21.2.3
00:47:20 Successfully installed future-1.0.0 pip-24.3.1
00:47:20 + pip install markdown
00:47:21 Collecting markdown
00:47:21 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
00:47:21 Collecting importlib-metadata>=4.4 (from markdown)
00:47:21 Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
00:47:21 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
00:47:21 Using cached zipp-3.21.0-py3-none-any.whl.metadata (3.7 kB)
00:47:21 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
00:47:21 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
00:47:21 Using cached zipp-3.21.0-py3-none-any.whl (9.6 kB)
00:47:21 Installing collected packages: zipp, importlib-metadata, markdown
00:47:21 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.21.0
00:47:21 + pip install reportlab
00:47:22 Collecting reportlab
00:47:22 Using cached reportlab-4.2.5-py3-none-any.whl.metadata (1.5 kB)
00:47:22 Collecting pillow>=9.0.0 (from reportlab)
00:47:22 Using cached pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.1 kB)
00:47:23 Collecting chardet (from reportlab)
00:47:23 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:47:23 Using cached reportlab-4.2.5-py3-none-any.whl (1.9 MB)
00:47:23 Using cached pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.4 MB)
00:47:24 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:47:24 Installing collected packages: pillow, chardet, reportlab
00:47:25 Successfully installed chardet-5.2.0 pillow-11.0.0 reportlab-4.2.5
00:47:25 + pip install omego
00:47:25 Collecting omego
00:47:25 Using cached omego-0.7.0-py3-none-any.whl
00:47:26 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:47:26 Collecting yaclifw>=0.1.1 (from omego)
00:47:26 Using cached yaclifw-0.2.0-py3-none-any.whl
00:47:26 Collecting six (from yaclifw>=0.1.1->omego)
00:47:26 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:47:26 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:47:26 Installing collected packages: six, yaclifw, omego
00:47:26 Successfully installed omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:47:26 + pip install tables
00:47:27 Collecting tables
00:47:27 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:47:27 Collecting numpy>=1.19.0 (from tables)
00:47:27 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
00:47:27 Collecting numexpr>=2.6.2 (from tables)
00:47:27 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
00:47:27 Collecting packaging (from tables)
00:47:27 Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB)
00:47:27 Collecting py-cpuinfo (from tables)
00:47:27 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:47:28 Collecting blosc2>=2.3.0 (from tables)
00:47:28 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:47:28 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:47:28 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
00:47:28 Collecting msgpack (from blosc2>=2.3.0->tables)
00:47:28 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:47:28 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:47:28 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:47:28 Using cached numexpr-2.10.2-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (396 kB)
00:47:29 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
00:47:29 Using cached packaging-24.2-py3-none-any.whl (65 kB)
00:47:29 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:47:29 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
00:47:29 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
00:47:29 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:47:32 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.2 numpy-2.0.2 packaging-24.2 py-cpuinfo-9.0.0 tables-3.9.2
00:47:32 + pip install jinja2
00:47:33 Collecting jinja2
00:47:33 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
00:47:33 Collecting MarkupSafe>=2.0 (from jinja2)
00:47:33 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
00:47:33 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
00:47:33 Using cached MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB)
00:47:33 Installing collected packages: MarkupSafe, jinja2
00:47:34 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.4
00:47:34 + pip install omero-py
00:47:34 Collecting omero-py
00:47:34 Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
00:47:34 Collecting urllib3<2 (from omero-py)
00:47:34 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:47:34 Collecting appdirs (from omero-py)
00:47:34 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:47:34 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:47:35 Collecting numpy<2 (from omero-py)
00:47:35 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:47:35 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (11.0.0)
00:47:35 Collecting PyYAML (from omero-py)
00:47:35 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:47:35 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:47:35 Collecting requests (from omero-py)
00:47:35 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:47:35 Collecting portalocker (from omero-py)
00:47:35 Using cached portalocker-3.0.0-py3-none-any.whl.metadata (8.5 kB)
00:47:36 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:47:36 Using cached charset_normalizer-3.4.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (34 kB)
00:47:36 Collecting idna<4,>=2.5 (from requests->omero-py)
00:47:36 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:47:36 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:47:36 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
00:47:36 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB)
00:47:36 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:47:36 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:47:36 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:47:36 Using cached portalocker-3.0.0-py3-none-any.whl (19 kB)
00:47:36 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
00:47:36 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:47:36 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
00:47:36 Using cached charset_normalizer-3.4.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (144 kB)
00:47:37 Using cached idna-3.10-py3-none-any.whl (70 kB)
00:47:37 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
00:47:37 Attempting uninstall: numpy
00:47:37 Found existing installation: numpy 2.0.2
00:47:37 Uninstalling numpy-2.0.2:
00:47:37 Successfully uninstalled numpy-2.0.2
00:47:41 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.8.30 charset-normalizer-3.4.0 idna-3.10 numpy-1.26.4 omero-py-5.19.5 portalocker-3.0.0 requests-2.32.3 urllib3-1.26.20
00:47:41 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:47:42 Collecting omero-metadata
00:47:42 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-rl48lk_j/omero-metadata_e0ba6482ac6f40aebe1de8b8525b853d
00:47:42 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-rl48lk_j/omero-metadata_e0ba6482ac6f40aebe1de8b8525b853d
00:47:45 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 21a1c615937fd2c82b4a872ef2af7ecde9990991
00:47:45 Installing build dependencies: started
00:47:47 Installing build dependencies: finished with status 'done'
00:47:47 Getting requirements to build wheel: started
00:47:47 Getting requirements to build wheel: finished with status 'done'
00:47:47 Preparing metadata (pyproject.toml): started
00:47:48 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:48 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
00:47:48 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
00:47:48 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
00:47:48 Collecting pandas (from omero-metadata)
00:47:48 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
00:47:48 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:47:48 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:47:48 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:47:48 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:47:48 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (11.0.0)
00:47:48 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)
00:47:48 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
00:47:48 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.0.0)
00:47:48 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (3.0.2)
00:47:48 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:47:48 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:47:48 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:47:48 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
00:47:48 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:47:48 Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB)
00:47:48 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:47:48 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.0)
00:47:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
00:47:48 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)
00:47:48 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:47:49 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:47:49 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
00:47:49 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB)
00:47:49 Building wheels for collected packages: omero-metadata
00:47:49 Building wheel for omero-metadata (pyproject.toml): started
00:47:49 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:47:49 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39188 sha256=126cb5f9f3ff14fe3dbf9970e48458d4f22d7ad887cb7fb0f65ecfc7a8592f09
00:47:49 Stored in directory: /tmp/pip-ephem-wheel-cache-bt9nygsw/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:47:49 Successfully built omero-metadata
00:47:49 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:47:54 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2
00:47:55 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:47:55 Collecting omero-cli-render
00:47:55 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-75d_j09d/omero-cli-render_de0e8708b4874a229b3b0d80bea35f8c
00:47:55 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-75d_j09d/omero-cli-render_de0e8708b4874a229b3b0d80bea35f8c
00:47:56 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:56 Switched to a new branch 'merge_ci'
00:47:56 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:56 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 3f2681320892fc5440dc991af059c8960428ceac
00:47:56 Installing build dependencies: started
00:47:58 Installing build dependencies: finished with status 'done'
00:47:58 Getting requirements to build wheel: started
00:47:58 Getting requirements to build wheel: finished with status 'done'
00:47:58 Preparing metadata (pyproject.toml): started
00:47:58 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:58 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
00:47:58 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
00:47:58 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:47:58 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:47:58 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:47:58 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:47:58 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.0.0)
00:47:58 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)
00:47:58 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
00:47:58 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.0.0)
00:47:58 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.0)
00:47:58 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
00:47:58 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)
00:47:58 Building wheels for collected packages: omero-cli-render
00:47:58 Building wheel for omero-cli-render (pyproject.toml): started
00:47:59 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:47:59 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19513 sha256=0b4a6105aa810c1f72b8e73bd392fa4a05570d77fad8c00c5deae656193efb16
00:47:59 Stored in directory: /tmp/pip-ephem-wheel-cache-u6y_abot/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:47:59 Successfully built omero-cli-render
00:47:59 Installing collected packages: omero-cli-render
00:47:59 Successfully installed omero-cli-render-0.8.2.dev0
00:47:59 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:47:59 Collecting omero-cli-duplicate
00:47:59 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-xv_y___x/omero-cli-duplicate_cc4754ece1884b669218e7c6c7ce5ece
00:47:59 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-xv_y___x/omero-cli-duplicate_cc4754ece1884b669218e7c6c7ce5ece
00:48:00 Running command git checkout -b merge_ci --track origin/merge_ci
00:48:00 Switched to a new branch 'merge_ci'
00:48:00 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:48:00 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 3a45bb154f3bf48abad4e5f36df2fde6f389ebaf
00:48:00 Installing build dependencies: started
00:48:02 Installing build dependencies: finished with status 'done'
00:48:02 Getting requirements to build wheel: started
00:48:02 Getting requirements to build wheel: finished with status 'done'
00:48:02 Preparing metadata (pyproject.toml): started
00:48:03 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:03 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
00:48:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:48:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:48:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:48:03 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:48:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.0.0)
00:48:03 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:48:03 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)
00:48:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
00:48:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.0.0)
00:48:03 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.0)
00:48:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
00:48:03 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)
00:48:03 Building wheels for collected packages: omero-cli-duplicate
00:48:03 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:48:03 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:48:03 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=704a16f63def123a24de271a71937502d82d231a88fad9bb04cf9247b7eacdec
00:48:03 Stored in directory: /tmp/pip-ephem-wheel-cache-_6tp5c5r/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:48:03 Successfully built omero-cli-duplicate
00:48:03 Installing collected packages: omero-cli-duplicate
00:48:03 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:48:03 + pip install omero-certificates
00:48:04 Collecting omero-certificates
00:48:04 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:48:04 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
00:48:04 Collecting distro==1.8.0 (from omero-certificates)
00:48:04 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:48:04 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:48:04 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:48:04 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:48:04 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:48:04 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (11.0.0)
00:48:04 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:48:04 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)
00:48:04 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
00:48:04 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.0.0)
00:48:04 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.0)
00:48:04 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
00:48:04 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)
00:48:04 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:48:04 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:48:04 Installing collected packages: distro, omero-certificates
00:48:04 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:48:04 + for x in *.tar.gz
00:48:04 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:48:04 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:48:05 Installing build dependencies: started
00:48:06 Installing build dependencies: finished with status 'done'
00:48:06 Getting requirements to build wheel: started
00:48:06 Getting requirements to build wheel: finished with status 'done'
00:48:06 Preparing metadata (pyproject.toml): started
00:48:07 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:07 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
00:48:07 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:48:07 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:48:07 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:48:07 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
00:48:07 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.0.0)
00:48:07 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:48:07 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
00:48:07 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
00:48:07 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.0.0)
00:48:07 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.0)
00:48:07 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
00:48:07 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)
00:48:07 Building wheels for collected packages: omero-dropbox
00:48:07 Building wheel for omero-dropbox (pyproject.toml): started
00:48:07 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:48:07 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=a50f5884c9ea62d53d84cbcf33a6a8a73869c6262e87e6ff005a7f351aac1415
00:48:07 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
00:48:07 Successfully built omero-dropbox
00:48:07 Installing collected packages: omero-dropbox
00:48:07 Successfully installed omero-dropbox-5.7.1.dev0
00:48:07 + for x in *.tar.gz
00:48:07 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:48:08 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:48:08 Installing build dependencies: started
00:48:09 Installing build dependencies: finished with status 'done'
00:48:09 Getting requirements to build wheel: started
00:48:10 Getting requirements to build wheel: finished with status 'done'
00:48:10 Preparing metadata (pyproject.toml): started
00:48:10 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:10 Building wheels for collected packages: omero_marshal
00:48:10 Building wheel for omero_marshal (pyproject.toml): started
00:48:10 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:48:10 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88032 sha256=102940ce73b5aa12cf6bc976636ae5f48bab858465492336e89bcd29906c3b4b
00:48:10 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:48:10 Successfully built omero_marshal
00:48:10 Installing collected packages: omero_marshal
00:48:11 Successfully installed omero_marshal-0.9.1.dev0
00:48:11 + for x in *.tar.gz
00:48:11 + pip install -U omero_py-5.19.6.dev0.tar.gz
00:48:11 Processing ./omero_py-5.19.6.dev0.tar.gz
00:48:11 Installing build dependencies: started
00:48:16 Installing build dependencies: finished with status 'done'
00:48:16 Getting requirements to build wheel: started
00:48:17 Getting requirements to build wheel: finished with status 'done'
00:48:17 Preparing metadata (pyproject.toml): started
00:48:17 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:17 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
00:48:17 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
00:48:17 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
00:48:17 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
00:48:17 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (11.0.0)
00:48:17 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
00:48:17 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.6.5)
00:48:17 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
00:48:17 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.0.0)
00:48:17 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.4.0)
00:48:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
00:48:17 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (2024.8.30)
00:48:17 Building wheels for collected packages: omero-py
00:48:17 Building wheel for omero-py (pyproject.toml): started
00:48:18 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:48:18 Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783248 sha256=932872b5d1f6adf8dd8166ea4aabd6591ee0a0ea3879e527f09bfd6395454894
00:48:18 Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
00:48:18 Successfully built omero-py
00:48:18 Installing collected packages: omero-py
00:48:18 Attempting uninstall: omero-py
00:48:18 Found existing installation: omero-py 5.19.5
00:48:18 Uninstalling omero-py-5.19.5:
00:48:19 Successfully uninstalled omero-py-5.19.5
00:48:21 Successfully installed omero-py-5.19.6.dev0
00:48:21 + for x in *.tar.gz
00:48:21 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
00:48:21 Processing ./omero_scripts-5.8.4.dev0.tar.gz
00:48:21 Installing build dependencies: started
00:48:23 Installing build dependencies: finished with status 'done'
00:48:23 Getting requirements to build wheel: started
00:48:23 Getting requirements to build wheel: finished with status 'done'
00:48:23 Preparing metadata (pyproject.toml): started
00:48:23 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:23 Building wheels for collected packages: omero-scripts
00:48:23 Building wheel for omero-scripts (pyproject.toml): started
00:48:24 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:48:24 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116644 sha256=38ed62121f1a25da152dd1825ea84713c778293e98467762118a9fa44bebcffe
00:48:24 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
00:48:24 Successfully built omero-scripts
00:48:24 Installing collected packages: omero-scripts
00:48:24 Successfully installed omero-scripts-5.8.4.dev0
00:48:24 + for x in *.tar.gz
00:48:24 + pip install -U omero_web-5.28.1.dev0.tar.gz
00:48:24 Processing ./omero_web-5.28.1.dev0.tar.gz
00:48:25 Installing build dependencies: started
00:48:27 Installing build dependencies: finished with status 'done'
00:48:27 Getting requirements to build wheel: started
00:48:27 Getting requirements to build wheel: finished with status 'done'
00:48:27 Preparing metadata (pyproject.toml): started
00:48:27 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:27 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (5.19.6.dev0)
00:48:27 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.28.1.dev0)
00:48:27 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:48:28 Collecting Django<4.3,>=4.2.3 (from omero-web==5.28.1.dev0)
00:48:28 Using cached Django-4.2.17-py3-none-any.whl.metadata (4.1 kB)
00:48:28 Collecting django-pipeline (from omero-web==5.28.1.dev0)
00:48:28 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
00:48:28 Collecting django-cors-headers==3.7.0 (from omero-web==5.28.1.dev0)
00:48:28 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:48:28 Collecting django-csp (from omero-web==5.28.1.dev0)
00:48:28 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:48:28 Collecting whitenoise>=5.3.0 (from omero-web==5.28.1.dev0)
00:48:28 Using cached whitenoise-6.8.2-py3-none-any.whl.metadata (3.6 kB)
00:48:28 Collecting gunicorn>=19.3 (from omero-web==5.28.1.dev0)
00:48:28 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:48:28 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (0.9.1.dev0)
00:48:28 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (11.0.0)
00:48:28 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (2024.2)
00:48:28 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (3.0.0)
00:48:28 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.28.1.dev0) (24.2)
00:48:28 Collecting importlib-resources (from omero-web==5.28.1.dev0)
00:48:28 Using cached importlib_resources-6.4.5-py3-none-any.whl.metadata (4.0 kB)
00:48:28 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:48:28 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:48:28 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:48:28 Using cached sqlparse-0.5.2-py3-none-any.whl.metadata (3.9 kB)
00:48:28 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.26.20)
00:48:28 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.4.4)
00:48:28 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.0.0)
00:48:28 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (1.26.4)
00:48:28 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (6.0.2)
00:48:28 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.6.5)
00:48:28 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.28.1.dev0) (2.32.3)
00:48:28 Requirement already satisfied: setuptools in ./.venv3/lib/python3.9/site-packages (from django-pipeline->omero-web==5.28.1.dev0) (53.0.0)
00:48:29 Collecting wheel (from django-pipeline->omero-web==5.28.1.dev0)
00:48:29 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
00:48:29 Requirement already satisfied: zipp>=3.1.0 in ./.venv3/lib/python3.9/site-packages (from importlib-resources->omero-web==5.28.1.dev0) (3.21.0)
00:48:29 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.28.1.dev0)
00:48:29 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
00:48:29 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.4.0)
00:48:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (3.10)
00:48:29 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.28.1.dev0) (2024.8.30)
00:48:29 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:48:29 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:48:29 Using cached Django-4.2.17-py3-none-any.whl (8.0 MB)
00:48:29 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:48:29 Using cached whitenoise-6.8.2-py3-none-any.whl (20 kB)
00:48:29 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:48:29 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
00:48:29 Using cached importlib_resources-6.4.5-py3-none-any.whl (36 kB)
00:48:29 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:48:29 Using cached sqlparse-0.5.2-py3-none-any.whl (44 kB)
00:48:29 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
00:48:29 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
00:48:29 Building wheels for collected packages: omero-web
00:48:29 Building wheel for omero-web (pyproject.toml): started
00:48:31 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:48:31 Created wheel for omero-web: filename=omero_web-5.28.1.dev0-py3-none-any.whl size=2768199 sha256=a1cb138e8a01fb97e5646b59ae62066fc79f50001c671ae7e70d7c41ad20f37c
00:48:31 Stored in directory: /home/omero/.cache/pip/wheels/97/1e/88/508867809512b265cdeb53be905e01f64ea0b8d6c0b64f8ebd
00:48:31 Successfully built omero-web
00:48:31 Installing collected packages: whitenoise, wheel, typing-extensions, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, django-pipeline, asgiref, Django, django-csp, django-cors-headers, omero-web
00:48:34 Successfully installed Django-4.2.17 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.4.5 omero-web-5.28.1.dev0 sqlparse-0.5.2 typing-extensions-4.12.2 wheel-0.45.1 whitenoise-6.8.2
00:48:34 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:48:34 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:48:34 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:48:34 --2024-12-10 00:48:34-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:48:35 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.111.133, 185.199.108.133, ...
00:48:35 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
00:48:35 HTTP request sent, awaiting response... 200 OK
00:48:35 Length: 102311 (100K) [text/plain]
00:48:35 Saving to: ‘Figure_To_Pdf.py’
00:48:35
00:48:35 0K .......... .......... .......... .......... .......... 50% 2.34M 0s
00:48:35 50K .......... .......... .......... .......... ......... 100% 16.6M=0.02s
00:48:35
00:48:35 2024-12-10 00:48:35 (4.10 MB/s) - ‘Figure_To_Pdf.py’ saved [102311/102311]
00:48:35
00:48:35 + chmod 755 Figure_To_Pdf.py
00:48:35 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:48:35 + omero config set omero.db.name OMERO-server
00:48:36 + omero config set omero.db.host pg
00:48:38 + omero config set omero.db.user postgres
00:48:39 + omero config set omero.data.dir /home/omero/omero-server-data
00:48:41 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:48:42 + omero config set omero.db.poolsize 25
00:48:44 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:48:45 + omero config set omero.security.trustStorePassword changeit
00:48:46 + omero config set omero.mail.config true
00:48:48 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:48:49 + omero config set omero.mail.host smtp.dundee.ac.uk
00:48:51 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:48:52 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:48:53 + omero certificates
00:48:55 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:48:55 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:48:55 + '[' false = true ']'
00:48:55 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:48:55 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:48:55 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG dbcommand => upgrade
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG dbhost => localhost
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG dbname => OMERO-server
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG dbpass => omero
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG dbuser => omero
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG rootpass => omero
00:48:55 2024-12-10 00:48:55,872 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:48:55 2024-12-10 00:48:55,872 [omego.extern] INFO Executing : omero version
00:48:56 OMERO.py version:
00:48:57 OMERO.server version:
00:48:57 5.6.3-529-cb99513754-ice36
00:48:57 5.19.6.dev0
00:48:57 2024-12-10 00:48:57,249 [omego.extern] INFO Completed [1.377 s]
00:48:57 2024-12-10 00:48:57,249 [omego.extern] DEBUG Using omero CLI from omero
00:48:57 2024-12-10 00:48:57,249 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:48:57 2024-12-10 00:48:57,249 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:57 2024-12-10 00:48:57,250 [omego.extern] INFO Executing : omero config get --show-password
00:48:58 2024-12-10 00:48:58,619 [omego.extern] INFO Completed [1.369 s]
00:48:58 2024-12-10 00:48:58,619 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:58 2024-12-10 00:48:58,619 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:48:58 2024-12-10 00:48:58,879 [omego.extern] INFO Completed [0.260 s]
00:48:58 2024-12-10 00:48:58,879 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
00:48:58 2024-12-10 00:48:58,879 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4
00:48:58
00:48:58 2024-12-10 00:48:58,879 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:58 2024-12-10 00:48:58,879 [omego.extern] INFO Executing : omero config get --show-password
00:49:00 2024-12-10 00:49:00,212 [omego.extern] INFO Completed [1.333 s]
00:49:00 2024-12-10 00:49:00,213 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:49:00 2024-12-10 00:49:00,213 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:49:00 2024-12-10 00:49:00,501 [omego.extern] INFO Completed [0.288 s]
00:49:00 2024-12-10 00:49:00,501 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.2") at port "5432".\n'
00:49:00 2024-12-10 00:49:00,501 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:49:00 2024-12-10 00:49:00,501 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:49:00 2024-12-10 00:49:00,501 [omego.extern] INFO Executing : omero config get --show-password
00:49:01 2024-12-10 00:49:01,820 [omego.extern] INFO Completed [1.319 s]
00:49:01 2024-12-10 00:49:01,820 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:49:01 2024-12-10 00:49:01,821 [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
00:49:01 2024-12-10 00:49:01,891 [omego.extern] INFO Completed [0.070 s]
00:49:01 2024-12-10 00:49:01,891 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:49:01 2024-12-10 00:49:01,891 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:49:01 2024-12-10 00:49:01,893 [ omego.db] INFO Database is already at OMERO5.4__0
00:49:01 + export LANG=en_US.UTF-8
00:49:01 + LANG=en_US.UTF-8
00:49:01 + export LANGUAGE=en_US:en
00:49:01 + LANGUAGE=en_US:en
00:49:01 + export LC_ALL=en_US.UTF-8
00:49:01 + LC_ALL=en_US.UTF-8
00:49:01 + BUILD_ID=DONT_KILL_ME
00:49:01 + omero admin start
00:49:13 No descriptor given. Using etc/grid/default.xml
00:49:29 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:49:29 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:49:29 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:49:29 Waiting on startup. Use CTRL-C to exit
00:49:29 + omero admin waitup
00:49:31 Waiting on startup. Use CTRL-C to exit
00:49:31 + omero admin diagnostics
00:49:32
00:49:32 ================================================================================
00:49:32 OMERO Diagnostics (admin)
00:49:32 ================================================================================
00:49:32
00:49:32 Commands: java -version 11.0.24 (/usr/bin/java)
00:49:32 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:49:32 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:49:32 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:49:32 Commands: psql --version 16.4 (/usr/bin/psql)
00:49:32 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:49:32
00:49:32 Component: OMERO.py 5.19.6.dev0
00:49:32 Component: OMERO.server 5.6.3-529-cb99513754-ice36
00:49:32
00:49:32 Server: icegridnode running
00:49:32 Server: Blitz-0 active (pid = 63968, enabled)
00:49:32 Server: Indexer-0 active (pid = 63991, enabled)
00:49:32 Server: OMERO.Glacier2 active (pid = 63993, enabled)
00:49:32 Server: OMERO.IceStorm active (pid = 64000, enabled)
00:49:32 Server: Processor-0 activating (enabled)
00:49:32 Server: Tables-0 activating (enabled)
00:49:32
00:49:32 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:49:32 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
00:49:32 Log files: DropBox.log n/a
00:49:32 Log files: FileServer.log n/a
00:49:32 Log files: Indexer-0.log 2.6 KB
00:49:32 Log files: MonitorServer.log n/a
00:49:32 Log files: Processor-0.log 592 B
00:49:32 Log files: Tables-0.log 841 B
00:49:32 Log files: TestDropBox.log n/a
00:49:32 Log files: master.err 180 B
00:49:32 Log files: master.out 30.1 KB
00:49:32 Log files: Total size 0.06 MB
00:49:32
00:49:32
00:49:32 Environment:OMERO_HOME=(unset)
00:49:32 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:32 Environment:OMERO_NODE=(unset)
00:49:32 Environment:OMERO_MASTER=(unset)
00:49:32 Environment:OMERO_USERDIR=(unset)
00:49:32 Environment:OMERO_TMPDIR=(unset)
00:49:32 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
00:49:32 Environment:PYTHONPATH=(unset)
00:49:32 Environment:ICE_HOME=/opt/ice-3.6.5
00:49:32 Environment:LD_LIBRARY_PATH=(unset)
00:49:32 Environment:DYLD_LIBRARY_PATH=(unset)
00:49:33
00:49:33 OMERO SSL port:4064
00:49:33 OMERO TCP port:4063
00:49:33 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:49:33 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:49:33
00:49:33 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:33 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:33 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:33 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:33
00:49:33 Jar: lib/server/formats-api.jar Bio-Formats API 8.1.0-SNAPSHOT 10 December 2024 b3d08ae212d04f6fb327001ca64e8c62a6e602fc
00:49:33 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.1.0-SNAPSHOT 10 December 2024 b3d08ae212d04f6fb327001ca64e8c62a6e602fc
00:49:33 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.1.0-SNAPSHOT 10 December 2024 b3d08ae212d04f6fb327001ca64e8c62a6e602fc
00:49:33 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 10 December 2024 cc558bf8f7cf4993eab5528ad88e9d3eb5ea66a1
00:49:33 Jar: lib/server/ome-common.jar OME Common Java 6.0.25-SNAPSHOT 10 December 2024 cc558bf8f7cf4993eab5528ad88e9d3eb5ea66a1
00:49:33 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 10 December 2024 cc558bf8f7cf4993eab5528ad88e9d3eb5ea66a1
00:49:33 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 10 December 2024 cc558bf8f7cf4993eab5528ad88e9d3eb5ea66a1
00:49:33 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 10 December 2024 cc558bf8f7cf4993eab5528ad88e9d3eb5ea66a1
00:49:33 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 10 December 2024 cc558bf8f7cf4993eab5528ad88e9d3eb5ea66a1
00:49:33 Jar: lib/server/omero-blitz.jar jar 5.8.1-SNAPSHOT
00:49:33 Jar: lib/server/omero-common.jar jar 5.7.1-SNAPSHOT
00:49:33 Jar: lib/server/omero-gateway.jar jar 5.10.1-SNAPSHOT
00:49:33 Jar: lib/server/omero-model.jar jar 5.7.1-SNAPSHOT
00:49:33 Jar: lib/server/omero-renderer.jar jar 5.6.1-SNAPSHOT
00:49:33 Jar: lib/server/omero-romio.jar jar 5.8.1-SNAPSHOT
00:49:33 Jar: lib/server/omero-server.jar jar 5.7.1-SNAPSHOT
00:49:33 + deactivate
00:49:33 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:49:33 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:33 + export PATH
00:49:33 + unset _OLD_VIRTUAL_PATH
00:49:33 + '[' -n '' ']'
00:49:33 + '[' -n /bin/bash -o -n '' ']'
00:49:33 + hash -r
00:49:33 + '[' -n '' ']'
00:49:33 + unset VIRTUAL_ENV
00:49:33 + '[' '!' '' = nondestructive ']'
00:49:33 + unset -f deactivate
00:49:33 Finished: SUCCESS
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