00:42:30 Started by upstream project "Trigger" build number 556
00:42:30 originally caused by:
00:42:30 Started by timer
00:42:30 Running as SYSTEM
00:42:31 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:42:31 [OMERO-server] $ /bin/bash -xe /tmp/jenkins16315328100402408651.sh
00:42:31 + source /home/settings.env
00:42:31 ++ OMERO_DB_HOST=pg
00:42:31 ++ OMERO_DB_USER=postgres
00:42:31 ++ OMERO_DB_PASS=
00:42:31 ++ OMERO_ROOT_PASS=omero
00:42:31 ++ OMERO_DATA_DIR=/OMERO
00:42:31 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:42:31 + OMERO_DB_NAME=OMERO-server
00:42:31 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:42:31 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:42:31 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:42:31 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:42:31 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:42:31 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:42:31 ++ deactivate nondestructive
00:42:31 ++ '[' -n '' ']'
00:42:31 ++ '[' -n '' ']'
00:42:31 ++ hash -r
00:42:31 ++ '[' -n '' ']'
00:42:31 ++ unset VIRTUAL_ENV
00:42:31 ++ unset VIRTUAL_ENV_PROMPT
00:42:31 ++ '[' '!' nondestructive = nondestructive ']'
00:42:31 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:42:31 ++ export VIRTUAL_ENV
00:42:31 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:42:31 ++ 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
00:42:31 ++ export PATH
00:42:31 ++ '[' -n '' ']'
00:42:31 ++ '[' -z '' ']'
00:42:31 ++ _OLD_VIRTUAL_PS1=
00:42:31 ++ PS1='(.venv3) '
00:42:31 ++ export PS1
00:42:31 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:42:31 ++ export VIRTUAL_ENV_PROMPT
00:42:31 ++ hash -r
00:42:31 + omero admin stop
00:43:06 Server not running
00:43:06 + echo not running
00:43:06 not running
00:43:06 + sleep 5
00:43:11 + deactivate
00:43:11 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:43:11 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:43:11 + export PATH
00:43:11 + unset _OLD_VIRTUAL_PATH
00:43:11 + '[' -n '' ']'
00:43:11 + hash -r
00:43:11 + '[' -n '' ']'
00:43:11 + unset VIRTUAL_ENV
00:43:11 + unset VIRTUAL_ENV_PROMPT
00:43:11 + '[' '!' '' = nondestructive ']'
00:43:11 + unset -f deactivate
00:43:11 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:43:12 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
00:43:18 + '[' false = true ']'
00:43:18 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:43:18 Skipping PURGE_DATA:CleanDbAndRepo
00:43:18 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.4-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-5.21.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.9.2.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.29.2.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:43:20 Copied 1 artifact from "OMERO-build" build number 469
00:43:20 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 462
00:43:20 Copied 2 artifacts from "OMERO-build-build" build number 492
00:43:20 Copied 1 artifact from "OMERO-zarr-pixel-buffer-build" build number 1
00:43:20 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5850965201716006104.sh
00:43:20 + source /home/settings.env
00:43:20 ++ OMERO_DB_HOST=pg
00:43:20 ++ OMERO_DB_USER=postgres
00:43:20 ++ OMERO_DB_PASS=
00:43:20 ++ OMERO_ROOT_PASS=omero
00:43:20 ++ OMERO_DATA_DIR=/OMERO
00:43:20 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:43:20 + OMERO_DB_NAME=OMERO-server
00:43:20 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:43:20 + mkdir -p /home/omero/omero-server-data
00:43:21 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:43:21 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:43:21 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:43:21 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:43:21 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:43:21 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:43:21 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:43:21 ++ ls OMERO.server-5.6.3-569-bce9091b12-ice36-b469.zip
00:43:21 + ZIP=OMERO.server-5.6.3-569-bce9091b12-ice36-b469.zip
00:43:21 + '[' '!' -z '' ']'
00:43:21 + DIST=OMERO.server-5.6.3-569-bce9091b12-ice36-b469
00:43:21 + unzip OMERO.server-5.6.3-569-bce9091b12-ice36-b469.zip
00:43:21 Archive: OMERO.server-5.6.3-569-bce9091b12-ice36-b469.zip
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/blitz/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/grid/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/profiles/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/error/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/grid/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/luts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/luts/janelia/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/luts/matplotlib/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/luts/ncsa_paledit/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/luts/seaborn/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/luts/wcif/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/analysis_scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/annotation_scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/export_scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/figure_scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/import_scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/scripts/omero/util_scripts/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/server/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/share/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/share/licenses/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/misc/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__1/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__10/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__11/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__2/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__3/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__4/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__5/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__6/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__7/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__8/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3A__9/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3__4/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3__5/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3__6/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO3__7/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO4.1__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO4.2__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO4.2__0/t/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO4.3__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO4.4__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO4__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.0__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.1__1/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.2__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4DEV__1/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4DEV__2/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4DEV__3/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/
00:43:21 creating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/var/
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/LICENSE.txt
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/backup.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/blitz/mail-senders.example
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/blitz/mail-server.example
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/build.properties
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/env.bat
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/env.sh
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/hibernate.properties
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/ice.config
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/logback-cli.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/logback-indexing-cli.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/logback-indexing.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/logback.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/mime.types
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/node1.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/node2.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/omero.properties
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/profiles/psql
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/rollover.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/Windows.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/error/maintainance.html
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/grid/README
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/grid/default.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/grid/templates.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/grid/windefault.xml
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/ice.config
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/internal.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/master.cfg
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/templates/robot.template
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/etc/testdropbox.config
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/history.rst
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/OMEZarrReader.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/accessors-smart.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/activation.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/aggdesigner-algorithm.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/aircompressor.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/antlr.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/aopalliance.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/apiguardian-api.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/asm.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/avatica-core.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/avatica-metrics.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/aws-java-sdk-core.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/aws-java-sdk-kms.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/aws-java-sdk-s3.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/base.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-anim.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-awt-util.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-bridge.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-codec.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-constants.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-css.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-dom.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-ext.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-gvt.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-i18n.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-parser.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-script.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-shared-resources.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-svg-dom.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-svggen.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-transcoder.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-util.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/batik-xml.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/btm.jar
00:43:21 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/lib/client/calcite-core.jar
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00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/psql-footer.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/psql-header.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/schema.sql
00:43:23 inflating: OMERO.server-5.6.3-569-bce9091b12-ice36-b469/sql/psql/OMERO5.4__0/views.sql
00:43:23 + rm -f OMERO.server-5.6.3-569-bce9091b12-ice36-b469.zip
00:43:23 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-569-bce9091b12-ice36-b469 /home/omero/workspace/OMERO-server/OMERO.server
00:43:23 ++ ls omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar
00:43:23 + JAR=omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar
00:43:23 ++ basename omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar
00:43:23 + JAR_NAME=omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar
00:43:23 + mv /home/omero/workspace/OMERO-server/omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar /home/omero/workspace/OMERO-server/OMERO.server/lib/server/omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar
00:43:23 + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar
00:43:23 --2025-07-16 00:43:23-- https://repo1.maven.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar
00:43:24 Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209
00:43:24 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected.
00:43:24 HTTP request sent, awaiting response... 200 OK
00:43:24 Length: 889211 (868K) [application/java-archive]
00:43:24 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’
00:43:24
00:43:24 0K .......... .......... .......... .......... .......... 5% 3.88M 0s
00:43:24 50K .......... .......... .......... .......... .......... 11% 14.7M 0s
00:43:24 100K .......... .......... .......... .......... .......... 17% 6.90M 0s
00:43:24 150K .......... .......... .......... .......... .......... 23% 23.8M 0s
00:43:24 200K .......... .......... .......... .......... .......... 28% 8.08M 0s
00:43:24 250K .......... .......... .......... .......... .......... 34% 31.5M 0s
00:43:24 300K .......... .......... .......... .......... .......... 40% 24.7M 0s
00:43:24 350K .......... .......... .......... .......... .......... 46% 93.9M 0s
00:43:24 400K .......... .......... .......... .......... .......... 51% 66.7M 0s
00:43:24 450K .......... .......... .......... .......... .......... 57% 8.46M 0s
00:43:24 500K .......... .......... .......... .......... .......... 63% 22.0M 0s
00:43:24 550K .......... .......... .......... .......... .......... 69% 116M 0s
00:43:24 600K .......... .......... .......... .......... .......... 74% 31.1M 0s
00:43:24 650K .......... .......... .......... .......... .......... 80% 31.2M 0s
00:43:24 700K .......... .......... .......... .......... .......... 86% 8.49M 0s
00:43:24 750K .......... .......... .......... .......... .......... 92% 37.0M 0s
00:43:24 800K .......... .......... .......... .......... .......... 97% 130M 0s
00:43:24 850K .......... ........ 100% 17.0M=0.06s
00:43:24
00:43:24 2025-07-16 00:43:24 (15.2 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’ saved [889211/889211]
00:43:24
00:43:24 + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar
00:43:24 --2025-07-16 00:43:24-- https://repo1.maven.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar
00:43:24 Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209
00:43:24 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected.
00:43:24 HTTP request sent, awaiting response... 200 OK
00:43:24 Length: 73309 (72K) [application/java-archive]
00:43:24 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’
00:43:24
00:43:24 0K .......... .......... .......... .......... .......... 69% 3.65M 0s
00:43:24 50K .......... .......... . 100% 24.5M=0.01s
00:43:24
00:43:24 2025-07-16 00:43:24 (4.91 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’ saved [73309/73309]
00:43:24
00:43:24 + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar
00:43:24 --2025-07-16 00:43:24-- https://repo1.maven.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar
00:43:24 Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209
00:43:24 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected.
00:43:25 HTTP request sent, awaiting response... 200 OK
00:43:25 Length: 63303 (62K) [application/java-archive]
00:43:25 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’
00:43:25
00:43:25 0K .......... .......... .......... .......... .......... 80% 4.19M 0s
00:43:25 50K .......... . 100% 12.5M=0.01s
00:43:25
00:43:25 2025-07-16 00:43:25 (4.80 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’ saved [63303/63303]
00:43:25
00:43:25 + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar
00:43:25 --2025-07-16 00:43:25-- https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar
00:43:25 Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209
00:43:25 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected.
00:43:25 HTTP request sent, awaiting response... 200 OK
00:43:25 Length: 1271272 (1.2M) [application/java-archive]
00:43:25 Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’
00:43:25
00:43:25 0K .......... .......... .......... .......... .......... 4% 3.81M 0s
00:43:25 50K .......... .......... .......... .......... .......... 8% 5.92M 0s
00:43:25 100K .......... .......... .......... .......... .......... 12% 18.3M 0s
00:43:25 150K .......... .......... .......... .......... .......... 16% 18.0M 0s
00:43:25 200K .......... .......... .......... .......... .......... 20% 9.45M 0s
00:43:25 250K .......... .......... .......... .......... .......... 24% 22.0M 0s
00:43:25 300K .......... .......... .......... .......... .......... 28% 40.4M 0s
00:43:25 350K .......... .......... .......... .......... .......... 32% 45.9M 0s
00:43:25 400K .......... .......... .......... .......... .......... 36% 27.4M 0s
00:43:25 450K .......... .......... .......... .......... .......... 40% 7.57M 0s
00:43:25 500K .......... .......... .......... .......... .......... 44% 35.6M 0s
00:43:25 550K .......... .......... .......... .......... .......... 48% 160M 0s
00:43:25 600K .......... .......... .......... .......... .......... 52% 31.9M 0s
00:43:25 650K .......... .......... .......... .......... .......... 56% 36.8M 0s
00:43:25 700K .......... .......... .......... .......... .......... 60% 14.0M 0s
00:43:25 750K .......... .......... .......... .......... .......... 64% 15.2M 0s
00:43:25 800K .......... .......... .......... .......... .......... 68% 41.5M 0s
00:43:25 850K .......... .......... .......... .......... .......... 72% 41.1M 0s
00:43:25 900K .......... .......... .......... .......... .......... 76% 25.8M 0s
00:43:25 950K .......... .......... .......... .......... .......... 80% 16.4M 0s
00:43:25 1000K .......... .......... .......... .......... .......... 84% 14.9M 0s
00:43:25 1050K .......... .......... .......... .......... .......... 88% 41.5M 0s
00:43:25 1100K .......... .......... .......... .......... .......... 92% 35.7M 0s
00:43:25 1150K .......... .......... .......... .......... .......... 96% 10.5M 0s
00:43:25 1200K .......... .......... .......... .......... . 100% 183M=0.07s
00:43:25
00:43:25 2025-07-16 00:43:25 (16.5 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’ saved [1271272/1271272]
00:43:25
00:43:25 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:43:25 ++ deactivate nondestructive
00:43:25 ++ '[' -n '' ']'
00:43:25 ++ '[' -n '' ']'
00:43:25 ++ hash -r
00:43:25 ++ '[' -n '' ']'
00:43:25 ++ unset VIRTUAL_ENV
00:43:25 ++ unset VIRTUAL_ENV_PROMPT
00:43:25 ++ '[' '!' nondestructive = nondestructive ']'
00:43:25 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:43:25 ++ export VIRTUAL_ENV
00:43:25 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:43:25 ++ 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
00:43:25 ++ export PATH
00:43:25 ++ '[' -n '' ']'
00:43:25 ++ '[' -z '' ']'
00:43:25 ++ _OLD_VIRTUAL_PS1=
00:43:25 ++ PS1='(.venv3) '
00:43:25 ++ export PS1
00:43:25 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
00:43:25 ++ export VIRTUAL_ENV_PROMPT
00:43:25 ++ hash -r
00:43:25 + pip install -U pip
00:43:25 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
00:43:25 Collecting pip
00:43:26 Using cached pip-25.1.1-py3-none-any.whl (1.8 MB)
00:43:26 Installing collected packages: pip
00:43:26 Attempting uninstall: pip
00:43:26 Found existing installation: pip 22.3.1
00:43:26 Uninstalling pip-22.3.1:
00:43:26 Successfully uninstalled pip-22.3.1
00:43:27 Successfully installed pip-25.1.1
00:43:27 WARNING: There was an error checking the latest version of pip.
00:43:27 + pip install https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl
00:43:27 Collecting zeroc-ice==3.6.5
00:43:28 Downloading https://github.com/glencoesoftware/zeroc-ice-py-linux-x86_64/releases/download/20240202/zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
00:43:29 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 23.3 MB/s eta 0:00:00
00:43:29 Installing collected packages: zeroc-ice
00:43:30 Successfully installed zeroc-ice-3.6.5
00:43:30 + pip install markdown
00:43:31 Collecting markdown
00:43:31 Using cached markdown-3.8.2-py3-none-any.whl.metadata (5.1 kB)
00:43:31 Using cached markdown-3.8.2-py3-none-any.whl (106 kB)
00:43:31 Installing collected packages: markdown
00:43:31 Successfully installed markdown-3.8.2
00:43:31 + pip install reportlab
00:43:32 Collecting reportlab
00:43:32 Using cached reportlab-4.4.2-py3-none-any.whl.metadata (1.8 kB)
00:43:32 Collecting pillow>=9.0.0 (from reportlab)
00:43:32 Using cached pillow-11.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
00:43:32 Collecting charset-normalizer (from reportlab)
00:43:32 Using cached charset_normalizer-3.4.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB)
00:43:32 Using cached reportlab-4.4.2-py3-none-any.whl (2.0 MB)
00:43:32 Using cached pillow-11.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.6 MB)
00:43:33 Using cached charset_normalizer-3.4.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (147 kB)
00:43:33 Installing collected packages: pillow, charset-normalizer, reportlab
00:43:34
00:43:34 Successfully installed charset-normalizer-3.4.2 pillow-11.3.0 reportlab-4.4.2
00:43:34 + pip install pyarrow
00:43:34 Collecting pyarrow
00:43:34 Using cached pyarrow-20.0.0-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.3 kB)
00:43:34 Using cached pyarrow-20.0.0-cp311-cp311-manylinux_2_28_x86_64.whl (42.3 MB)
00:43:35 Installing collected packages: pyarrow
00:43:36 Successfully installed pyarrow-20.0.0
00:43:36 + pip install omego
00:43:37 Collecting omego
00:43:37 Using cached omego-0.7.0-py3-none-any.whl
00:43:37 Collecting future (from omego)
00:43:37 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
00:43:37 Collecting yaclifw>=0.1.1 (from omego)
00:43:37 Using cached yaclifw-0.2.0-py3-none-any.whl
00:43:37 Collecting six (from yaclifw>=0.1.1->omego)
00:43:37 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
00:43:37 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:43:37 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
00:43:37 Installing collected packages: six, future, yaclifw, omego
00:43:37
00:43:37 Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0
00:43:38 + pip install tables
00:43:38 Collecting tables
00:43:38 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB)
00:43:38 Collecting numpy>=1.20.0 (from tables)
00:43:38 Using cached numpy-2.3.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (62 kB)
00:43:39 Collecting numexpr>=2.6.2 (from tables)
00:43:39 Using cached numexpr-2.11.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
00:43:39 Collecting packaging (from tables)
00:43:39 Using cached packaging-25.0-py3-none-any.whl.metadata (3.3 kB)
00:43:39 Collecting py-cpuinfo (from tables)
00:43:39 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:43:39 Collecting blosc2>=2.3.0 (from tables)
00:43:39 Using cached blosc2-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (6.9 kB)
00:43:39 Collecting typing-extensions>=4.4.0 (from tables)
00:43:39 Using cached typing_extensions-4.14.1-py3-none-any.whl.metadata (3.0 kB)
00:43:39 Collecting ndindex (from blosc2>=2.3.0->tables)
00:43:39 Using cached ndindex-1.10.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.6 kB)
00:43:39 Collecting msgpack (from blosc2>=2.3.0->tables)
00:43:39 Using cached msgpack-1.1.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:43:39 Collecting platformdirs (from blosc2>=2.3.0->tables)
00:43:39 Using cached platformdirs-4.3.8-py3-none-any.whl.metadata (12 kB)
00:43:39 Collecting requests (from blosc2>=2.3.0->tables)
00:43:39 Using cached requests-2.32.4-py3-none-any.whl.metadata (4.9 kB)
00:43:40 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.2)
00:43:40 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
00:43:40 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:43:40 Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables)
00:43:40 Using cached urllib3-2.5.0-py3-none-any.whl.metadata (6.5 kB)
00:43:40 Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables)
00:43:40 Using cached certifi-2025.7.14-py3-none-any.whl.metadata (2.4 kB)
00:43:40 Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:43:40 Using cached blosc2-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (4.4 MB)
00:43:41 Using cached numexpr-2.11.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (401 kB)
00:43:41 Using cached numpy-2.3.1-cp311-cp311-manylinux_2_28_x86_64.whl (16.9 MB)
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00:43:41 Using cached msgpack-1.1.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (429 kB)
00:43:41 Using cached ndindex-1.10.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (528 kB)
00:43:42 Using cached packaging-25.0-py3-none-any.whl (66 kB)
00:43:42 Using cached platformdirs-4.3.8-py3-none-any.whl (18 kB)
00:43:42 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
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00:43:42 Using cached idna-3.10-py3-none-any.whl (70 kB)
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00:43:42 Using cached certifi-2025.7.14-py3-none-any.whl (162 kB)
00:43:42 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, certifi, requests, numexpr, blosc2, tables
00:43:46
00:43:46 Successfully installed blosc2-3.5.1 certifi-2025.7.14 idna-3.10 msgpack-1.1.1 ndindex-1.10.0 numexpr-2.11.0 numpy-2.3.1 packaging-25.0 platformdirs-4.3.8 py-cpuinfo-9.0.0 requests-2.32.4 tables-3.10.2 typing-extensions-4.14.1 urllib3-2.5.0
00:43:46 + pip install jinja2
00:43:47 Collecting jinja2
00:43:47 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
00:43:47 Collecting MarkupSafe>=2.0 (from jinja2)
00:43:47 Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB)
00:43:47 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
00:43:47 Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (23 kB)
00:43:47 Installing collected packages: MarkupSafe, jinja2
00:43:47
00:43:47 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.6
00:43:47 + pip install boto3
00:43:48 Collecting boto3
00:43:48 Downloading boto3-1.39.5-py3-none-any.whl.metadata (6.6 kB)
00:43:48 Collecting botocore<1.40.0,>=1.39.5 (from boto3)
00:43:48 Downloading botocore-1.39.5-py3-none-any.whl.metadata (5.7 kB)
00:43:49 Collecting jmespath<2.0.0,>=0.7.1 (from boto3)
00:43:49 Using cached jmespath-1.0.1-py3-none-any.whl.metadata (7.6 kB)
00:43:49 Collecting s3transfer<0.14.0,>=0.13.0 (from boto3)
00:43:49 Using cached s3transfer-0.13.0-py3-none-any.whl.metadata (1.7 kB)
00:43:49 Collecting python-dateutil<3.0.0,>=2.1 (from botocore<1.40.0,>=1.39.5->boto3)
00:43:49 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:43:49 Requirement already satisfied: urllib3!=2.2.0,<3,>=1.25.4 in ./.venv3/lib64/python3.11/site-packages (from botocore<1.40.0,>=1.39.5->boto3) (2.5.0)
00:43:49 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil<3.0.0,>=2.1->botocore<1.40.0,>=1.39.5->boto3) (1.17.0)
00:43:49 Downloading boto3-1.39.5-py3-none-any.whl (139 kB)
00:43:49 Downloading botocore-1.39.5-py3-none-any.whl (13.8 MB)
00:43:50 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 13.8/13.8 MB 22.9 MB/s eta 0:00:00
00:43:50 Using cached jmespath-1.0.1-py3-none-any.whl (20 kB)
00:43:50 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:43:50 Using cached s3transfer-0.13.0-py3-none-any.whl (85 kB)
00:43:50 Installing collected packages: python-dateutil, jmespath, botocore, s3transfer, boto3
00:43:51
00:43:51 Successfully installed boto3-1.39.5 botocore-1.39.5 jmespath-1.0.1 python-dateutil-2.9.0.post0 s3transfer-0.13.0
00:43:51 + pip install smart-open
00:43:52 Collecting smart-open
00:43:52 Using cached smart_open-7.3.0.post1-py3-none-any.whl.metadata (24 kB)
00:43:52 Collecting wrapt (from smart-open)
00:43:52 Using cached wrapt-1.17.2-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.4 kB)
00:43:52 Using cached smart_open-7.3.0.post1-py3-none-any.whl (61 kB)
00:43:52 Using cached wrapt-1.17.2-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (83 kB)
00:43:52 Installing collected packages: wrapt, smart-open
00:43:52
00:43:52 Successfully installed smart-open-7.3.0.post1 wrapt-1.17.2
00:43:52 + pip install omero-py
00:43:53 Collecting omero-py
00:43:53 Using cached omero_py-5.21.0-py3-none-any.whl.metadata (6.5 kB)
00:43:53 Collecting urllib3<2 (from omero-py)
00:43:53 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:43:53 Collecting appdirs (from omero-py)
00:43:53 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:43:53 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
00:43:53 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.3.1)
00:43:53 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (11.3.0)
00:43:53 Collecting PyYAML (from omero-py)
00:43:53 Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:43:53 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
00:43:53 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.4)
00:43:53 Collecting portalocker (from omero-py)
00:43:53 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
00:43:53 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.2)
00:43:53 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.10)
00:43:53 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2025.7.14)
00:43:53 Using cached omero_py-5.21.0-py3-none-any.whl (2.8 MB)
00:43:53 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:43:53 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:43:53 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
00:43:53 Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (762 kB)
00:43:53 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, omero-py
00:43:53 Attempting uninstall: urllib3
00:43:53 Found existing installation: urllib3 2.5.0
00:43:53 Uninstalling urllib3-2.5.0:
00:43:53 Successfully uninstalled urllib3-2.5.0
00:43:55
00:43:55 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 omero-py-5.21.0 portalocker-3.2.0 urllib3-1.26.20
00:43:55 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:43:55 Collecting omero-metadata
00:43:55 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-2g7y54e9/omero-metadata_69f6e41909854552a543aca2b2ea20c6
00:43:56 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-2g7y54e9/omero-metadata_69f6e41909854552a543aca2b2ea20c6
00:43:58 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit bad83f133169337ecddc46cc48c654307b61eeec
00:43:58 Installing build dependencies: started
00:43:59 Installing build dependencies: finished with status 'done'
00:43:59 Getting requirements to build wheel: started
00:43:59 Getting requirements to build wheel: finished with status 'done'
00:43:59 Preparing metadata (pyproject.toml): started
00:43:59 Preparing metadata (pyproject.toml): finished with status 'done'
00:43:59 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.21.0)
00:43:59 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.2)
00:43:59 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
00:43:59 Collecting pandas (from omero-metadata)
00:44:00 Using cached pandas-2.3.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (91 kB)
00:44:00 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:44:00 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:44:00 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:44:00 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.3.1)
00:44:00 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (11.3.0)
00:44:00 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:44:00 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.4)
00:44:00 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
00:44:00 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.2)
00:44:00 Requirement already satisfied: python-dateutil>=2.8.2 in ./.venv3/lib64/python3.11/site-packages (from pandas->omero-metadata) (2.9.0.post0)
00:44:00 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:44:00 Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
00:44:00 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:44:00 Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
00:44:00 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.17.0)
00:44:00 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.2)
00:44:00 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
00:44:00 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.7.14)
00:44:00 Using cached pandas-2.3.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (12.4 MB)
00:44:00 Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
00:44:00 Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
00:44:00 Building wheels for collected packages: omero-metadata
00:44:00 Building wheel for omero-metadata (pyproject.toml): started
00:44:01 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:44:01 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39282 sha256=e22e741b32338d82346a26b53257c888137bace2c63ee94dbf83cdd13e761479
00:44:01 Stored in directory: /tmp/pip-ephem-wheel-cache-3tmxbjqs/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
00:44:01 Successfully built omero-metadata
00:44:01 Installing collected packages: pytz, tzdata, pandas, omero-metadata
00:44:06
00:44:06 Successfully installed omero-metadata-0.13.1.dev0 pandas-2.3.1 pytz-2025.2 tzdata-2025.2
00:44:06 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:44:06 Collecting omero-cli-render
00:44:06 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-43ujncry/omero-cli-render_50886f0a486c4d529edfa05d20518505
00:44:06 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-43ujncry/omero-cli-render_50886f0a486c4d529edfa05d20518505
00:44:07 Running command git checkout -b merge_ci --track origin/merge_ci
00:44:07 Switched to a new branch 'merge_ci'
00:44:07 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:44:07 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit e3a0c81b7864b14e50901800005354203499341a
00:44:07 Installing build dependencies: started
00:44:08 Installing build dependencies: finished with status 'done'
00:44:08 Getting requirements to build wheel: started
00:44:08 Getting requirements to build wheel: finished with status 'done'
00:44:08 Preparing metadata (pyproject.toml): started
00:44:09 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:09 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.2)
00:44:09 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.21.0)
00:44:09 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:44:09 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:44:09 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:44:09 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.3.1)
00:44:09 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.3.0)
00:44:09 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:44:09 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.4)
00:44:09 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
00:44:09 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.2)
00:44:09 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
00:44:09 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.7.14)
00:44:09 Building wheels for collected packages: omero-cli-render
00:44:09 Building wheel for omero-cli-render (pyproject.toml): started
00:44:09 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:44:09 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19694 sha256=cf9b9ddd955f817562dd2dfc5a418130b87589665a0ffb638fe0f9ec562e2dd5
00:44:09 Stored in directory: /tmp/pip-ephem-wheel-cache-g767rl7h/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
00:44:09 Successfully built omero-cli-render
00:44:09 Installing collected packages: omero-cli-render
00:44:09 Successfully installed omero-cli-render-0.8.2.dev0
00:44:09 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:44:09 Collecting omero-cli-duplicate
00:44:09 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-7_zymofx/omero-cli-duplicate_77c94f4369264035a0276daba0b15279
00:44:09 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-7_zymofx/omero-cli-duplicate_77c94f4369264035a0276daba0b15279
00:44:10 Running command git checkout -b merge_ci --track origin/merge_ci
00:44:10 Switched to a new branch 'merge_ci'
00:44:10 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:44:10 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 84b349ae9f203dcbd3499fd20b027964fbc3372f
00:44:10 Installing build dependencies: started
00:44:11 Installing build dependencies: finished with status 'done'
00:44:11 Getting requirements to build wheel: started
00:44:12 Getting requirements to build wheel: finished with status 'done'
00:44:12 Preparing metadata (pyproject.toml): started
00:44:12 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:12 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.21.0)
00:44:12 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:44:12 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:44:12 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:44:12 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.3.1)
00:44:12 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.3.0)
00:44:12 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:44:12 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:44:12 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.4)
00:44:12 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
00:44:12 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.2)
00:44:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
00:44:12 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.7.14)
00:44:12 Building wheels for collected packages: omero-cli-duplicate
00:44:12 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:44:12 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:44:12 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11541 sha256=68790029de9c0415a3a6f06c9d09ec3e1245716ef1c810cc6ebcbd49c5a0f258
00:44:12 Stored in directory: /tmp/pip-ephem-wheel-cache-0r_0pyy0/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
00:44:12 Successfully built omero-cli-duplicate
00:44:12 Installing collected packages: omero-cli-duplicate
00:44:12 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:44:12 + pip install omero-certificates
00:44:13 Collecting omero-certificates
00:44:13 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
00:44:13 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.21.0)
00:44:13 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:44:13 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:44:13 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:44:13 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.3.1)
00:44:13 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (11.3.0)
00:44:13 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:44:13 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:44:13 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.4)
00:44:13 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
00:44:13 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.2)
00:44:13 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
00:44:13 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.7.14)
00:44:13 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
00:44:13 Installing collected packages: omero-certificates
00:44:13 Successfully installed omero-certificates-0.4.0
00:44:13 + for x in *.tar.gz
00:44:13 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:44:13 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:44:13 Installing build dependencies: started
00:44:14 Installing build dependencies: finished with status 'done'
00:44:14 Getting requirements to build wheel: started
00:44:14 Getting requirements to build wheel: finished with status 'done'
00:44:15 Preparing metadata (pyproject.toml): started
00:44:15 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:15 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.21.0)
00:44:15 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:44:15 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:44:15 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:44:15 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.3.1)
00:44:15 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.3.0)
00:44:15 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:44:15 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
00:44:15 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.4)
00:44:15 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
00:44:15 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.2)
00:44:15 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
00:44:15 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.7.14)
00:44:15 Building wheels for collected packages: omero-dropbox
00:44:15 Building wheel for omero-dropbox (pyproject.toml): started
00:44:15 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:44:15 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=f6aac57b5bc3cc33091ff059ece9843e26f99423129ed28ba21be0c313ab380d
00:44:15 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
00:44:15 Successfully built omero-dropbox
00:44:15 Installing collected packages: omero-dropbox
00:44:15 Successfully installed omero-dropbox-5.7.1.dev0
00:44:15 + for x in *.tar.gz
00:44:15 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:44:15 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:44:16 Installing build dependencies: started
00:44:16 Installing build dependencies: finished with status 'done'
00:44:16 Getting requirements to build wheel: started
00:44:17 Getting requirements to build wheel: finished with status 'done'
00:44:17 Preparing metadata (pyproject.toml): started
00:44:17 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:17 Building wheels for collected packages: omero_marshal
00:44:17 Building wheel for omero_marshal (pyproject.toml): started
00:44:17 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:44:17 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88126 sha256=0a63d50b3fc218a5a8c5cf35d4be608c54fa1cfa0515ff9de4ae720478fbc8cf
00:44:17 Stored in directory: /home/omero/.cache/pip/wheels/c6/fe/20/4909beb8cad01183b3ea19e12252f8ddec6c22448a9830df18
00:44:17 Successfully built omero_marshal
00:44:18 Installing collected packages: omero_marshal
00:44:18 Successfully installed omero_marshal-0.9.1.dev0
00:44:18 + for x in *.tar.gz
00:44:18 + pip install -U omero_py-5.21.1.dev0.tar.gz
00:44:18 Processing ./omero_py-5.21.1.dev0.tar.gz
00:44:18 Installing build dependencies: started
00:44:20 Installing build dependencies: finished with status 'done'
00:44:20 Getting requirements to build wheel: started
00:44:20 Getting requirements to build wheel: finished with status 'done'
00:44:20 Preparing metadata (pyproject.toml): started
00:44:20 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:20 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (1.26.20)
00:44:20 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (1.4.4)
00:44:20 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (1.0.0)
00:44:20 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (2.3.1)
00:44:20 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (11.3.0)
00:44:20 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (6.0.2)
00:44:20 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (3.6.5)
00:44:20 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (2.32.4)
00:44:20 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.21.1.dev0) (3.2.0)
00:44:20 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.21.1.dev0) (3.4.2)
00:44:20 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.21.1.dev0) (3.10)
00:44:20 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.21.1.dev0) (2025.7.14)
00:44:20 Building wheels for collected packages: omero-py
00:44:20 Building wheel for omero-py (pyproject.toml): started
00:44:22 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:44:22 Created wheel for omero-py: filename=omero_py-5.21.1.dev0-py3-none-any.whl size=2783499 sha256=2a3218ab336cd4ccccbac036884221755ed2b3aa34978fb1a6df6c81b662c63e
00:44:22 Stored in directory: /home/omero/.cache/pip/wheels/32/8a/68/256ffa196397e2ec55e537fc96a9b9c4178b3eab623cd87f3d
00:44:22 Successfully built omero-py
00:44:22 Installing collected packages: omero-py
00:44:22 Attempting uninstall: omero-py
00:44:22 Found existing installation: omero-py 5.21.0
00:44:22 Uninstalling omero-py-5.21.0:
00:44:22 Successfully uninstalled omero-py-5.21.0
00:44:24 Successfully installed omero-py-5.21.1.dev0
00:44:24 + for x in *.tar.gz
00:44:24 + pip install -U omero_scripts-5.9.2.dev0.tar.gz
00:44:25 Processing ./omero_scripts-5.9.2.dev0.tar.gz
00:44:25 Installing build dependencies: started
00:44:26 Installing build dependencies: finished with status 'done'
00:44:26 Getting requirements to build wheel: started
00:44:26 Getting requirements to build wheel: finished with status 'done'
00:44:26 Preparing metadata (pyproject.toml): started
00:44:26 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:26 Building wheels for collected packages: omero-scripts
00:44:26 Building wheel for omero-scripts (pyproject.toml): started
00:44:26 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:44:26 Created wheel for omero-scripts: filename=omero_scripts-5.9.2.dev0-py3-none-any.whl size=136847 sha256=6ffa1b5a1e58a6265047273fe02598f2f7952745104b78cedb993b420b8ee8b8
00:44:26 Stored in directory: /home/omero/.cache/pip/wheels/e3/db/94/c7ed73401c8459f3935212f514ee953d11b520ca8c20333850
00:44:26 Successfully built omero-scripts
00:44:27 Installing collected packages: omero-scripts
00:44:27 Successfully installed omero-scripts-5.9.2.dev0
00:44:27 + for x in *.tar.gz
00:44:27 + pip install -U omero_web-5.29.2.dev0.tar.gz
00:44:27 Processing ./omero_web-5.29.2.dev0.tar.gz
00:44:27 Installing build dependencies: started
00:44:28 Installing build dependencies: finished with status 'done'
00:44:28 Getting requirements to build wheel: started
00:44:29 Getting requirements to build wheel: finished with status 'done'
00:44:29 Preparing metadata (pyproject.toml): started
00:44:29 Preparing metadata (pyproject.toml): finished with status 'done'
00:44:29 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.2.dev0) (5.21.1.dev0)
00:44:29 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.29.2.dev0)
00:44:29 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl.metadata (23 kB)
00:44:29 Collecting Django<4.3,>=4.2.3 (from omero-web==5.29.2.dev0)
00:44:29 Using cached django-4.2.23-py3-none-any.whl.metadata (4.2 kB)
00:44:29 Collecting django-pipeline (from omero-web==5.29.2.dev0)
00:44:29 Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB)
00:44:29 Collecting django-cors-headers==3.7.0 (from omero-web==5.29.2.dev0)
00:44:29 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:44:29 Collecting django-csp (from omero-web==5.29.2.dev0)
00:44:29 Using cached django_csp-4.0-py3-none-any.whl.metadata (3.6 kB)
00:44:29 Collecting whitenoise>=5.3.0 (from omero-web==5.29.2.dev0)
00:44:29 Using cached whitenoise-6.9.0-py3-none-any.whl.metadata (3.6 kB)
00:44:29 Collecting gunicorn>=19.3 (from omero-web==5.29.2.dev0)
00:44:29 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:44:30 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.2.dev0) (0.9.1.dev0)
00:44:30 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.2.dev0) (11.3.0)
00:44:30 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.2.dev0) (2025.2)
00:44:30 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.2.dev0) (3.2.0)
00:44:30 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.2.dev0) (25.0)
00:44:30 Collecting importlib-resources (from omero-web==5.29.2.dev0)
00:44:30 Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB)
00:44:30 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.29.2.dev0)
00:44:30 Using cached asgiref-3.9.1-py3-none-any.whl.metadata (9.3 kB)
00:44:30 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.29.2.dev0)
00:44:30 Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB)
00:44:30 Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (1.26.20)
00:44:30 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (1.4.4)
00:44:30 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (1.0.0)
00:44:30 Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (2.3.1)
00:44:30 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (6.0.2)
00:44:30 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (3.6.5)
00:44:30 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.2.dev0) (2.32.4)
00:44:30 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.29.2.dev0) (65.5.1)
00:44:30 Collecting wheel (from django-pipeline->omero-web==5.29.2.dev0)
00:44:30 Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
00:44:30 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.2.dev0) (3.4.2)
00:44:30 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.2.dev0) (3.10)
00:44:30 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.2.dev0) (2025.7.14)
00:44:30 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:44:30 Using cached django-4.2.23-py3-none-any.whl (8.0 MB)
00:44:30 Using cached asgiref-3.9.1-py3-none-any.whl (23 kB)
00:44:30 Using cached concurrent_log_handler-0.9.28-py3-none-any.whl (28 kB)
00:44:30 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:44:30 Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB)
00:44:30 Using cached whitenoise-6.9.0-py3-none-any.whl (20 kB)
00:44:30 Using cached django_csp-4.0-py3-none-any.whl (25 kB)
00:44:30 Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB)
00:44:30 Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB)
00:44:30 Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
00:44:30 Building wheels for collected packages: omero-web
00:44:30 Building wheel for omero-web (pyproject.toml): started
00:44:32 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:44:32 Created wheel for omero-web: filename=omero_web-5.29.2.dev0-py3-none-any.whl size=2817943 sha256=aeaff5f3c6ba31c5cd359df3c150819863eeebf4cbd7f0a942af5325273d7670
00:44:32 Stored in directory: /home/omero/.cache/pip/wheels/8b/82/d4/64ba3d9f4efaa51110316831003d98aee03867a3665750278c
00:44:32 Successfully built omero-web
00:44:32 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-csp, django-cors-headers, omero-web
00:44:35
00:44:35 Successfully installed Django-4.2.23 asgiref-3.9.1 concurrent-log-handler-0.9.28 django-cors-headers-3.7.0 django-csp-4.0 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.29.2.dev0 sqlparse-0.5.3 wheel-0.45.1 whitenoise-6.9.0
00:44:35 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:44:35 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:44:35 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:44:35 --2025-07-16 00:44:35-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:44:35 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.108.133, 185.199.111.133, ...
00:44:35 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
00:44:35 HTTP request sent, awaiting response... 200 OK
00:44:35 Length: 125072 (122K) [text/plain]
00:44:35 Saving to: ‘Figure_To_Pdf.py’
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00:44:35 2025-07-16 00:44:35 (5.47 MB/s) - ‘Figure_To_Pdf.py’ saved [125072/125072]
00:44:35
00:44:35 + chmod 755 Figure_To_Pdf.py
00:44:35 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:44:35 + omero config set omero.db.name OMERO-server
00:44:36 + omero config set omero.db.host pg
00:44:38 + omero config set omero.db.user postgres
00:44:39 + omero config set omero.data.dir /home/omero/omero-server-data
00:44:40 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:44:41 + omero config set omero.db.poolsize 25
00:44:43 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:44:44 + omero config set omero.security.trustStorePassword changeit
00:44:45 + omero config set omero.mail.config true
00:44:46 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:44:48 + omero config set omero.mail.host smtp.dundee.ac.uk
00:44:49 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:44:50 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:44:51 + omero certificates
00:44:53 OpenSSL 3.2.2 4 Jun 2024 (Library: OpenSSL 3.2.2 4 Jun 2024)
00:44:53 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:44:53 + '[' false = true ']'
00:44:53 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:44:53 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:44:53 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG dbcommand => upgrade
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG dbhost => localhost
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG dbname => OMERO-server
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG dbpass => omero
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG dbuser => omero
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG rootpass => omero
00:44:53 2025-07-16 00:44:53,452 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:44:53 2025-07-16 00:44:53,452 [omego.extern] INFO Executing : omero version
00:44:54 OMERO.py version:
00:44:54 OMERO.server version:
00:44:54 5.6.3-569-bce9091b12-ice36-b469
00:44:54 5.21.1.dev0
00:44:54 2025-07-16 00:44:54,772 [omego.extern] INFO Completed [1.320 s]
00:44:54 2025-07-16 00:44:54,773 [omego.extern] DEBUG Using omero CLI from omero
00:44:54 2025-07-16 00:44:54,773 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:44:54 2025-07-16 00:44:54,773 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:44:54 2025-07-16 00:44:54,773 [omego.extern] INFO Executing : omero config get --show-password
00:44:56 2025-07-16 00:44:56,035 [omego.extern] INFO Completed [1.263 s]
00:44:56 2025-07-16 00:44:56,035 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:44:56 2025-07-16 00:44:56,036 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:44:56 2025-07-16 00:44:56,617 [omego.extern] INFO Completed [0.581 s]
00:44:56 2025-07-16 00:44:56,617 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.9\n'
00:44:56 2025-07-16 00:44:56,617 [ omego.db] INFO psql version: psql (PostgreSQL) 16.9
00:44:56
00:44:56 2025-07-16 00:44:56,617 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:44:56 2025-07-16 00:44:56,617 [omego.extern] INFO Executing : omero config get --show-password
00:44:57 2025-07-16 00:44:57,880 [omego.extern] INFO Completed [1.263 s]
00:44:57 2025-07-16 00:44:57,880 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:44:57 2025-07-16 00:44:57,880 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:44:57 2025-07-16 00:44:57,943 [omego.extern] INFO Completed [0.062 s]
00:44:57 2025-07-16 00:44:57,943 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.9") at port "5432".\n'
00:44:57 2025-07-16 00:44:57,943 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:44:57 2025-07-16 00:44:57,943 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:44:57 2025-07-16 00:44:57,943 [omego.extern] INFO Executing : omero config get --show-password
00:44:59 2025-07-16 00:44:59,215 [omego.extern] INFO Completed [1.272 s]
00:44:59 2025-07-16 00:44:59,215 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:44:59 2025-07-16 00:44:59,215 [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
00:44:59 2025-07-16 00:44:59,856 [omego.extern] INFO Completed [0.641 s]
00:44:59 2025-07-16 00:44:59,856 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:44:59 2025-07-16 00:44:59,856 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:44:59 2025-07-16 00:44:59,858 [ omego.db] INFO Database is already at OMERO5.4__0
00:44:59 + export LANG=en_US.UTF-8
00:44:59 + LANG=en_US.UTF-8
00:44:59 + export LANGUAGE=en_US:en
00:44:59 + LANGUAGE=en_US:en
00:44:59 + export LC_ALL=en_US.UTF-8
00:44:59 + LC_ALL=en_US.UTF-8
00:44:59 + BUILD_ID=DONT_KILL_ME
00:44:59 + omero admin start
00:45:05 No descriptor given. Using etc/grid/default.xml
00:45:17 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:45:17 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:45:17 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:45:17 Waiting on startup. Use CTRL-C to exit
00:45:17 + omero admin waitup
00:45:18 Waiting on startup. Use CTRL-C to exit
00:45:19 + omero admin diagnostics
00:45:21
00:45:21 ================================================================================
00:45:21 OMERO Diagnostics (admin)
00:45:21 ================================================================================
00:45:21
00:45:21 Commands: java -version 11.0.25 (/usr/bin/java)
00:45:21 Commands: python -V 3.11.11 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:45:21 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:45:21 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:45:21 Commands: psql --version 16.9 (/usr/bin/psql)
00:45:21 Commands: openssl version 3.2.24 (/usr/bin/openssl)
00:45:21
00:45:21 Component: OMERO.py 5.21.1.dev0
00:45:21 Component: OMERO.server 5.6.3-569-bce9091b12-ice36-b469
00:45:21
00:45:21 Server: icegridnode running
00:45:21 Server: Blitz-0 active (pid = 2362, enabled)
00:45:21 Server: Indexer-0 activating (enabled)
00:45:21 Server: OMERO.Glacier2 active (pid = 2387, enabled)
00:45:21 Server: OMERO.IceStorm active (pid = 2398, enabled)
00:45:21 Server: Processor-0 activating (enabled)
00:45:21 Server: Tables-0 activating (enabled)
00:45:21
00:45:21 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:45:21 Log files: Blitz-0.log 23.7 KB errors=0 warnings=1
00:45:21 Log files: DropBox.log n/a
00:45:21 Log files: FileServer.log n/a
00:45:21 Log files: Indexer-0.log 2.4 KB
00:45:21 Log files: MonitorServer.log n/a
00:45:21 Log files: Processor-0.log 592 B
00:45:21 Log files: Tables-0.log 841 B
00:45:21 Log files: TestDropBox.log n/a
00:45:21 Log files: master.err empty
00:45:21 Log files: master.out 30.5 KB
00:45:21 Log files: Total size 0.06 MB
00:45:21
00:45:21
00:45:21 Environment:OMERO_HOME=(unset)
00:45:21 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:45:21 Environment:OMERO_NODE=(unset)
00:45:21 Environment:OMERO_MASTER=(unset)
00:45:21 Environment:OMERO_USERDIR=(unset)
00:45:21 Environment:OMERO_TMPDIR=(unset)
00:45:21 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
00:45:21 Environment:PYTHONPATH=(unset)
00:45:21 Environment:ICE_HOME=/opt/ice-3.6.5
00:45:21 Environment:LD_LIBRARY_PATH=(unset)
00:45:21 Environment:DYLD_LIBRARY_PATH=(unset)
00:45:21
00:45:21 OMERO SSL port:4064
00:45:21 OMERO TCP port:4063
00:45:21 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:45:21 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:45:21
00:45:21 JVM settings: Blitz-${index} -Xmx7200m
00:45:21 JVM settings: Indexer-${index} -Xmx4800m
00:45:21 JVM settings: PixelData-${index} -Xmx7200m
00:45:21 JVM settings: Repository-${index} -Xmx4800m
00:45:21
00:45:21 Jar: lib/server/formats-api.jar Bio-Formats API 8.3.0-SNAPSHOT 16 July 2025 1a3c75b150ae11f8dfc6f632d1198414d59a1413
00:45:21 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.3.0-SNAPSHOT 16 July 2025 1a3c75b150ae11f8dfc6f632d1198414d59a1413
00:45:21 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.3.0-SNAPSHOT 16 July 2025 1a3c75b150ae11f8dfc6f632d1198414d59a1413
00:45:21 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.2-SNAPSHOT 16 July 2025 b70983cece011fb6557b06cf931c97046fa37c69
00:45:21 Jar: lib/server/ome-common.jar OME Common Java 6.0.27-SNAPSHOT 16 July 2025 b70983cece011fb6557b06cf931c97046fa37c69
00:45:21 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 16 July 2025 b70983cece011fb6557b06cf931c97046fa37c69
00:45:21 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 16 July 2025 b70983cece011fb6557b06cf931c97046fa37c69
00:45:21 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 16 July 2025 b70983cece011fb6557b06cf931c97046fa37c69
00:45:21 Jar: lib/server/ome-xml.jar OME XML library 6.5.1-SNAPSHOT 16 July 2025 b70983cece011fb6557b06cf931c97046fa37c69
00:45:21 Jar: lib/server/omero-blitz.jar jar 5.8.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-common.jar jar 5.7.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-gateway.jar jar 5.10.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-model.jar jar 5.7.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-renderer.jar jar 5.6.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-romio.jar jar 5.8.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-server.jar jar 5.7.4-SNAPSHOT
00:45:21 Jar: lib/server/omero-zarr-pixel-buffer-0.5.1-SNAPSHOT.jar OMERO Zarr Pixel Buffer 0.5.1-SNAPSHOT ce40b5862f64dde6497b4860b3a02ef8deb2d0e4
00:45:21 + deactivate
00:45:21 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:45:21 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:45:21 + export PATH
00:45:21 + unset _OLD_VIRTUAL_PATH
00:45:21 + '[' -n '' ']'
00:45:21 + hash -r
00:45:21 + '[' -n '' ']'
00:45:21 + unset VIRTUAL_ENV
00:45:21 + unset VIRTUAL_ENV_PROMPT
00:45:21 + '[' '!' '' = nondestructive ']'
00:45:21 + unset -f deactivate
00:45:22 Finished: SUCCESS
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