13:58:42 Started by user devspace 13:58:42 Running as SYSTEM 13:58:43 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server 13:58:43 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7317282700785497468.sh 13:58:43 + source /home/settings.env 13:58:43 ++ OMERO_DB_HOST=pg 13:58:43 ++ OMERO_DB_USER=postgres 13:58:43 ++ OMERO_DB_PASS= 13:58:43 ++ OMERO_ROOT_PASS=omero 13:58:43 ++ OMERO_DATA_DIR=/OMERO 13:58:43 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR 13:58:43 + OMERO_DB_NAME=OMERO-server 13:58:43 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server 13:58:43 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 13:58:43 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 13:58:43 + OMERO_DATA_DIR=/home/omero/omero-server-data 13:58:43 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']' 13:58:43 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate 13:58:43 ++ deactivate nondestructive 13:58:43 ++ '[' -n '' ']' 13:58:43 ++ '[' -n '' ']' 13:58:43 ++ hash -r 13:58:43 ++ '[' -n '' ']' 13:58:43 ++ unset VIRTUAL_ENV 13:58:43 ++ unset VIRTUAL_ENV_PROMPT 13:58:43 ++ '[' '!' nondestructive = nondestructive ']' 13:58:43 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 13:58:43 ++ export VIRTUAL_ENV 13:58:43 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 13:58:43 ++ 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 13:58:43 ++ export PATH 13:58:43 ++ '[' -n '' ']' 13:58:43 ++ '[' -z '' ']' 13:58:43 ++ _OLD_VIRTUAL_PS1= 13:58:43 ++ PS1='(.venv3) ' 13:58:43 ++ export PS1 13:58:43 ++ VIRTUAL_ENV_PROMPT='(.venv3) ' 13:58:43 ++ export VIRTUAL_ENV_PROMPT 13:58:43 ++ hash -r 13:58:43 + omero admin stop 13:59:26 Server not running 13:59:26 + echo not running 13:59:26 not running 13:59:26 + sleep 5 13:59:31 + deactivate 13:59:31 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' 13:59:31 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 13:59:31 + export PATH 13:59:31 + unset _OLD_VIRTUAL_PATH 13:59:31 + '[' -n '' ']' 13:59:31 + hash -r 13:59:31 + '[' -n '' ']' 13:59:31 + unset VIRTUAL_ENV 13:59:31 + unset VIRTUAL_ENV_PROMPT 13:59:31 + '[' '!' '' = nondestructive ']' 13:59:31 + unset -f deactivate 13:59:31 + rm -rf /home/omero/workspace/OMERO-server/.venv3 14:02:46 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3 14:03:12 + '[' false = true ']' 14:03:12 + echo 'Skipping PURGE_DATA:CleanDbAndRepo' 14:03:12 Skipping PURGE_DATA:CleanDbAndRepo 14:03:12 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.6-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.23.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.10.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.33.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties 14:03:22 Copied 1 artifact from "OMERO-build" build number 73 14:03:23 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 64 14:03:23 Copied 2 artifacts from "OMERO-build-build" build number 75 14:03:23 [OMERO-server] $ /bin/bash -xe /tmp/jenkins16396352072866940913.sh 14:03:23 + source /home/settings.env 14:03:23 ++ OMERO_DB_HOST=pg 14:03:23 ++ OMERO_DB_USER=postgres 14:03:23 ++ OMERO_DB_PASS= 14:03:23 ++ OMERO_ROOT_PASS=omero 14:03:23 ++ OMERO_DATA_DIR=/OMERO 14:03:23 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR 14:03:23 + OMERO_DB_NAME=OMERO-server 14:03:23 + OMERO_DATA_DIR=/home/omero/omero-server-data 14:03:23 + mkdir -p /home/omero/omero-server-data 14:03:23 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server 14:03:23 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 14:03:23 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 14:03:23 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip 14:03:23 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip 14:03:23 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties 14:03:23 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties 14:03:23 ++ ls OMERO.server-5.6.3-677-ab3492c05b-ice36-b73.zip 14:03:23 + ZIP=OMERO.server-5.6.3-677-ab3492c05b-ice36-b73.zip 14:03:23 + '[' '!' -z '' ']' 14:03:23 + DIST=OMERO.server-5.6.3-677-ab3492c05b-ice36-b73 14:03:23 + unzip OMERO.server-5.6.3-677-ab3492c05b-ice36-b73.zip 14:03:23 Archive: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73.zip 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/blitz/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/grid/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/profiles/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/error/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/grid/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/luts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/luts/janelia/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/luts/matplotlib/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/luts/ncsa_paledit/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/luts/seaborn/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/luts/wcif/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/analysis_scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/annotation_scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/export_scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/figure_scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/import_scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/scripts/omero/util_scripts/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/server/ 14:03:23 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/share/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/share/licenses/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/misc/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__1/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__10/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__11/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__2/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__3/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__4/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__5/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__6/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__7/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__8/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3A__9/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3__4/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3__5/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3__6/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO3__7/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO4.1__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO4.2__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO4.2__0/t/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO4.3__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO4.4__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO4__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.0__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.1__1/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.2__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4DEV__1/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4DEV__2/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4DEV__3/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/var/ 14:03:24 creating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/var/tmp/ 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/LICENSE.txt 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/backup.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/blitz/mail-senders.example 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/blitz/mail-server.example 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/build.properties 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/env.bat 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/env.sh 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/hibernate.properties 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/ice.config 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/logback-cli.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/logback-indexing-cli.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/logback-indexing.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/logback.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/mime.types 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/node1.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/node2.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/omero.properties 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/profiles/psql 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/rollover.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/Windows.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/error/maintainance.html 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/grid/README 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/grid/default.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/grid/templates.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/grid/windefault.xml 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/ice.config 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/internal.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/master.cfg 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/templates/robot.template 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/etc/testdropbox.config 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/history.rst 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/OMEZarrReader.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/accessors-smart.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/activation.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aggdesigner-algorithm.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aircompressor.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/annotations.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/antlr.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aopalliance.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/apache-client.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/apiguardian-api.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/arns.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/asm.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/auth.jar 14:03:24 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/avatica-core.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/avatica-metrics.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aws-core.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aws-java-sdk-core.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aws-java-sdk-kms.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aws-java-sdk-s3.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aws-query-protocol.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/aws-xml-protocol.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/base.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/batik-anim.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/batik-awt-util.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/batik-bridge.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/batik-codec.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/batik-constants.jar 14:03:25 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/lib/client/batik-css.jar 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OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.2__0/OMERO5.1__1.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/OMERO5.2__0.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/delete-ns-orphans.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/OMERO5.3__0.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/OMERO5.3__1.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/psql-footer.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/psql-header.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/schema.sql 14:03:46 inflating: OMERO.server-5.6.3-677-ab3492c05b-ice36-b73/sql/psql/OMERO5.4__0/views.sql 14:03:47 + rm -f OMERO.server-5.6.3-677-ab3492c05b-ice36-b73.zip 14:03:47 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-677-ab3492c05b-ice36-b73 /home/omero/workspace/OMERO-server/OMERO.server 14:03:47 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate 14:03:47 ++ deactivate nondestructive 14:03:47 ++ '[' -n '' ']' 14:03:47 ++ '[' -n '' ']' 14:03:47 ++ hash -r 14:03:47 ++ '[' -n '' ']' 14:03:47 ++ unset VIRTUAL_ENV 14:03:47 ++ unset VIRTUAL_ENV_PROMPT 14:03:47 ++ '[' '!' nondestructive = nondestructive ']' 14:03:47 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 14:03:47 ++ export VIRTUAL_ENV 14:03:47 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 14:03:47 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 14:03:47 ++ export PATH 14:03:47 ++ '[' -n '' ']' 14:03:47 ++ '[' -z '' ']' 14:03:47 ++ _OLD_VIRTUAL_PS1= 14:03:47 ++ PS1='(.venv3) ' 14:03:47 ++ export PS1 14:03:47 ++ VIRTUAL_ENV_PROMPT='(.venv3) ' 14:03:47 ++ export VIRTUAL_ENV_PROMPT 14:03:47 ++ hash -r 14:03:47 + pip install -U pip 14:03:48 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1) 14:03:48 Collecting pip 14:03:48 Using cached pip-26.2.1-py3-none-any.whl (1.8 MB) 14:03:48 Installing collected packages: pip 14:03:48 Attempting uninstall: pip 14:03:48 Found existing installation: pip 22.3.1 14:03:49 Uninstalling pip-22.3.1: 14:03:49 Successfully uninstalled pip-22.3.1 14:04:06 Successfully installed pip-26.2.1 14:04:06 + 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 14:04:08 Collecting zeroc-ice==3.6.5 14:04:08 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB) 14:04:10 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 15.2 MB/s 0:00:02 14:04:11 Installing collected packages: zeroc-ice 14:04:15 Successfully installed zeroc-ice-3.6.5 14:04:15 + pip install markdown 14:04:17 Collecting markdown 14:04:17 Using cached markdown-3.10.3-py3-none-any.whl.metadata (5.1 kB) 14:04:17 Using cached markdown-3.10.3-py3-none-any.whl (110 kB) 14:04:17 Installing collected packages: markdown 14:04:18 Successfully installed markdown-3.10.3 14:04:18 + pip install reportlab 14:04:20 Collecting reportlab 14:04:20 Using cached reportlab-5.0.1-py3-none-any.whl.metadata (1.6 kB) 14:04:21 Collecting pillow>=9.0.0 (from reportlab) 14:04:21 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB) 14:04:21 Collecting charset-normalizer (from reportlab) 14:04:21 Using cached charset_normalizer-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (45 kB) 14:04:21 Using cached reportlab-5.0.1-py3-none-any.whl (2.0 MB) 14:04:21 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB) 14:04:21 Using cached charset_normalizer-3.5.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (262 kB) 14:04:22 Installing collected packages: pillow, charset-normalizer, reportlab 14:04:33 14:04:33 Successfully installed charset-normalizer-3.5.1 pillow-12.3.0 reportlab-5.0.1 14:04:33 + pip install pyarrow 14:04:35 Collecting pyarrow 14:04:35 Using cached pyarrow-25.0.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.0 kB) 14:04:35 Using cached pyarrow-25.0.1-cp311-cp311-manylinux_2_28_x86_64.whl (50.1 MB) 14:04:35 Installing collected packages: pyarrow 14:04:56 Successfully installed pyarrow-25.0.1 14:04:56 + pip install omego 14:05:02 Collecting omego 14:05:02 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB) 14:05:02 Collecting future (from omego) 14:05:02 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB) 14:05:03 Collecting yaclifw>=0.1.1 (from omego) 14:05:03 Using cached yaclifw-0.2.0-py3-none-any.whl 14:05:03 Collecting six (from yaclifw>=0.1.1->omego) 14:05:03 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB) 14:05:03 Using cached omego-0.8.0-py3-none-any.whl (41 kB) 14:05:03 Using cached future-1.0.0-py3-none-any.whl (491 kB) 14:05:03 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB) 14:05:04 Installing collected packages: six, future, yaclifw, omego 14:05:20 14:05:20 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0 14:05:20 + pip install tables 14:05:26 Collecting tables 14:05:26 Using cached tables-3.11.1-cp311-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.1 kB) 14:05:26 Collecting numpy>=1.20.0 (from tables) 14:05:26 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB) 14:05:27 Collecting numexpr>=2.6.2 (from tables) 14:05:27 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB) 14:05:27 Collecting packaging (from tables) 14:05:27 Using cached packaging-26.3-py3-none-any.whl.metadata (3.5 kB) 14:05:27 Collecting py-cpuinfo (from tables) 14:05:27 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes) 14:05:28 Collecting blosc2>=2.3.0 (from tables) 14:05:28 Using cached blosc2-4.12.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (7.8 kB) 14:05:28 Collecting ndindex (from blosc2>=2.3.0->tables) 14:05:28 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB) 14:05:28 Collecting msgpack (from blosc2>=2.3.0->tables) 14:05:29 Using cached msgpack-1.2.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB) 14:05:29 Collecting pydantic (from blosc2>=2.3.0->tables) 14:05:29 Using cached pydantic-2.13.5-py3-none-any.whl.metadata (110 kB) 14:05:29 Collecting httpx[http2] (from blosc2>=2.3.0->tables) 14:05:29 Using cached httpx-0.28.1-py3-none-any.whl.metadata (7.1 kB) 14:05:29 Collecting rich (from blosc2>=2.3.0->tables) 14:05:29 Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB) 14:05:30 Collecting threadpoolctl (from blosc2>=2.3.0->tables) 14:05:30 Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB) 14:05:30 Collecting anyio (from httpx[http2]->blosc2>=2.3.0->tables) 14:05:30 Using cached anyio-4.15.1-py3-none-any.whl.metadata (4.7 kB) 14:05:30 Collecting certifi (from httpx[http2]->blosc2>=2.3.0->tables) 14:05:30 Using cached certifi-2026.7.22-py3-none-any.whl.metadata (2.5 kB) 14:05:31 Collecting httpcore==1.* (from httpx[http2]->blosc2>=2.3.0->tables) 14:05:31 Using cached httpcore-1.0.9-py3-none-any.whl.metadata (21 kB) 14:05:31 Collecting idna (from httpx[http2]->blosc2>=2.3.0->tables) 14:05:31 Using cached idna-3.19-py3-none-any.whl.metadata (9.2 kB) 14:05:31 Collecting h2<5,>=3 (from httpx[http2]->blosc2>=2.3.0->tables) 14:05:31 Using cached h2-4.4.1-py3-none-any.whl.metadata (3.8 kB) 14:05:32 Collecting hyperframe<7,>=6.1 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables) 14:05:32 Using cached hyperframe-6.1.0-py3-none-any.whl.metadata (4.3 kB) 14:05:32 Collecting hpack<5,>=4.2 (from h2<5,>=3->httpx[http2]->blosc2>=2.3.0->tables) 14:05:32 Using cached hpack-4.2.0-py3-none-any.whl.metadata (3.3 kB) 14:05:32 Collecting h11>=0.16 (from httpcore==1.*->httpx[http2]->blosc2>=2.3.0->tables) 14:05:32 Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB) 14:05:32 Collecting typing_extensions>=4.16.0 (from anyio->httpx[http2]->blosc2>=2.3.0->tables) 14:05:32 Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB) 14:05:33 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables) 14:05:33 Using cached annotated_types-0.8.0-py3-none-any.whl.metadata (15 kB) 14:05:34 Collecting pydantic-core==2.46.5 (from pydantic->blosc2>=2.3.0->tables) 14:05:34 Using cached pydantic_core-2.46.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB) 14:05:34 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables) 14:05:34 Using cached typing_inspection-0.4.4-py3-none-any.whl.metadata (2.6 kB) 14:05:34 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables) 14:05:34 Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB) 14:05:34 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables) 14:05:34 Using cached pygments-2.21.0-py3-none-any.whl.metadata (2.5 kB) 14:05:35 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables) 14:05:35 Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB) 14:05:35 Using cached tables-3.11.1-cp311-abi3-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (7.2 MB) 14:05:35 Using cached blosc2-4.12.0-cp311-abi3-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.6 MB) 14:05:35 Using cached numexpr-2.14.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (443 kB) 14:05:35 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB) 14:05:35 Using cached httpx-0.28.1-py3-none-any.whl (73 kB) 14:05:35 Using cached h2-4.4.1-py3-none-any.whl (62 kB) 14:05:35 Using cached hpack-4.2.0-py3-none-any.whl (34 kB) 14:05:35 Using cached httpcore-1.0.9-py3-none-any.whl (78 kB) 14:05:35 Using cached hyperframe-6.1.0-py3-none-any.whl (13 kB) 14:05:35 Using cached h11-0.16.0-py3-none-any.whl (37 kB) 14:05:36 Using cached anyio-4.15.1-py3-none-any.whl (132 kB) 14:05:36 Using cached idna-3.19-py3-none-any.whl (68 kB) 14:05:36 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB) 14:05:36 Using cached certifi-2026.7.22-py3-none-any.whl (136 kB) 14:05:36 Using cached msgpack-1.2.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (422 kB) 14:05:36 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB) 14:05:36 Using cached packaging-26.3-py3-none-any.whl (129 kB) 14:05:36 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB) 14:05:36 Using cached pydantic-2.13.5-py3-none-any.whl (472 kB) 14:05:36 Using cached pydantic_core-2.46.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB) 14:05:36 Using cached annotated_types-0.8.0-py3-none-any.whl (13 kB) 14:05:36 Using cached typing_inspection-0.4.4-py3-none-any.whl (14 kB) 14:05:37 Using cached rich-15.0.0-py3-none-any.whl (310 kB) 14:05:37 Using cached pygments-2.21.0-py3-none-any.whl (1.3 MB) 14:05:37 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB) 14:05:37 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB) 14:05:37 Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB) 14:05:38 Installing collected packages: py-cpuinfo, typing_extensions, threadpoolctl, pygments, packaging, numpy, ndindex, msgpack, mdurl, idna, hyperframe, hpack, h11, certifi, annotated-types, typing-inspection, pydantic-core, numexpr, markdown-it-py, httpcore, h2, anyio, rich, pydantic, httpx, blosc2, tables 14:07:42 14:07:42 Successfully installed annotated-types-0.8.0 anyio-4.15.1 blosc2-4.12.0 certifi-2026.7.22 h11-0.16.0 h2-4.4.1 hpack-4.2.0 httpcore-1.0.9 httpx-0.28.1 hyperframe-6.1.0 idna-3.19 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.2 ndindex-1.10.1 numexpr-2.14.2 numpy-2.4.6 packaging-26.3 py-cpuinfo-9.0.0 pydantic-2.13.5 pydantic-core-2.46.5 pygments-2.21.0 rich-15.0.0 tables-3.11.1 threadpoolctl-3.6.0 typing-inspection-0.4.4 typing_extensions-4.16.0 14:07:43 + pip install jinja2 14:07:44 Collecting jinja2 14:07:44 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB) 14:07:44 Collecting MarkupSafe>=2.0 (from jinja2) 14:07:44 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.7 kB) 14:07:45 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB) 14:07:45 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB) 14:07:45 Installing collected packages: MarkupSafe, jinja2 14:07:46 14:07:46 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6 14:07:46 + pip install omero-py 14:07:47 Collecting omero-py 14:07:48 Using cached omero_py-5.23.0-py3-none-any.whl.metadata (6.5 kB) 14:07:48 Collecting appdirs (from omero-py) 14:07:48 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB) 14:07:48 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0) 14:07:48 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6) 14:07:48 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0) 14:07:48 Collecting PyYAML (from omero-py) 14:07:48 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (2.4 kB) 14:07:48 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5) 14:07:48 Collecting requests (from omero-py) 14:07:48 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB) 14:07:48 Collecting portalocker (from omero-py) 14:07:48 Using cached portalocker-4.3.0-py3-none-any.whl.metadata (11 kB) 14:07:48 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.5.1) 14:07:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.19) 14:07:49 Collecting urllib3<3,>=1.26 (from requests->omero-py) 14:07:49 Using cached urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB) 14:07:49 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.7.22) 14:07:49 Using cached omero_py-5.23.0-py3-none-any.whl (2.8 MB) 14:07:49 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB) 14:07:49 Using cached portalocker-4.3.0-py3-none-any.whl (129 kB) 14:07:49 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB) 14:07:49 Using cached requests-2.34.2-py3-none-any.whl (73 kB) 14:07:49 Using cached urllib3-2.7.0-py3-none-any.whl (131 kB) 14:07:49 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, requests, omero-py 14:08:13 14:08:13 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.23.0 portalocker-4.3.0 requests-2.34.2 urllib3-2.7.0 14:08:14 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata 14:08:15 Collecting omero-metadata 14:08:15 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-bwjona77/omero-metadata_ae375070c7ef4d709d535ecde4c1f306 14:08:15 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-bwjona77/omero-metadata_ae375070c7ef4d709d535ecde4c1f306 14:08:16 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit ddc43810f4ab222e7bf6caa8920579fa0db2ee8f 14:08:16 Installing build dependencies: started 14:08:18 Installing build dependencies: finished with status 'done' 14:08:18 Getting requirements to build wheel: started 14:08:19 Getting requirements to build wheel: finished with status 'done' 14:08:19 Preparing metadata (pyproject.toml): started 14:08:19 Preparing metadata (pyproject.toml): finished with status 'done' 14:08:19 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.23.0) 14:08:20 Collecting pandas<3,>=2 (from omero-metadata) 14:08:20 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB) 14:08:20 Requirement already satisfied: numpy>=1.23.2 in ./.venv3/lib64/python3.11/site-packages (from pandas<3,>=2->omero-metadata) (2.4.6) 14:08:20 Collecting python-dateutil>=2.8.2 (from pandas<3,>=2->omero-metadata) 14:08:20 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB) 14:08:20 Collecting pytz>=2020.1 (from pandas<3,>=2->omero-metadata) 14:08:20 Using cached pytz-2026.3.post1-py2.py3-none-any.whl.metadata (22 kB) 14:08:20 Collecting tzdata>=2022.7 (from pandas<3,>=2->omero-metadata) 14:08:20 Using cached tzdata-2026.3-py2.py3-none-any.whl.metadata (1.4 kB) 14:08:20 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4) 14:08:20 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0) 14:08:20 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (12.3.0) 14:08:20 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (6.0.3) 14:08:20 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) 14:08:20 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2) 14:08:20 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (4.3.0) 14:08:20 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil>=2.8.2->pandas<3,>=2->omero-metadata) (1.17.0) 14:08:20 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.5.1) 14:08:20 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.19) 14:08:20 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.7.0) 14:08:20 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.7.22) 14:08:20 Using cached pandas-2.3.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (12.8 MB) 14:08:21 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB) 14:08:21 Using cached pytz-2026.3.post1-py2.py3-none-any.whl (508 kB) 14:08:21 Using cached tzdata-2026.3-py2.py3-none-any.whl (348 kB) 14:08:21 Building wheels for collected packages: omero-metadata 14:08:21 Building wheel for omero-metadata (pyproject.toml): started 14:08:21 Building wheel for omero-metadata (pyproject.toml): finished with status 'done' 14:08:21 Created wheel for omero-metadata: filename=omero_metadata-0.14.1.dev0-py3-none-any.whl size=39360 sha256=0e2e28dcc2e14a8c523014c37de9fbed60e02b8c227ce78d2480cb8922a311d9 14:08:21 Stored in directory: /tmp/pip-ephem-wheel-cache-_dsexws0/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b 14:08:21 Successfully built omero-metadata 14:08:21 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata 14:09:28 14:09:28 Successfully installed omero-metadata-0.14.1.dev0 pandas-2.3.3 python-dateutil-2.9.0.post0 pytz-2026.3.post1 tzdata-2026.3 14:09:28 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render 14:09:29 Collecting omero-cli-render 14:09:29 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-gv1qwpzk/omero-cli-render_1ec078c27e6f49b38c144e5aa8e25e94 14:09:29 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-gv1qwpzk/omero-cli-render_1ec078c27e6f49b38c144e5aa8e25e94 14:09:31 Running command git checkout -b merge_ci --track origin/merge_ci 14:09:31 Switched to a new branch 'merge_ci' 14:09:31 branch 'merge_ci' set up to track 'origin/merge_ci'. 14:09:31 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 8508d518482f59559f3ad683b75b6a30de8e52e5 14:09:31 Installing build dependencies: started 14:09:32 Installing build dependencies: finished with status 'done' 14:09:32 Getting requirements to build wheel: started 14:09:33 Getting requirements to build wheel: finished with status 'done' 14:09:33 Preparing metadata (pyproject.toml): started 14:09:33 Preparing metadata (pyproject.toml): finished with status 'done' 14:09:33 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3) 14:09:33 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.23.0) 14:09:33 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4) 14:09:33 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0) 14:09:33 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.6) 14:09:33 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (12.3.0) 14:09:33 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) 14:09:33 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2) 14:09:33 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (4.3.0) 14:09:33 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.5.1) 14:09:33 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.19) 14:09:33 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.7.0) 14:09:33 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.7.22) 14:09:33 Building wheels for collected packages: omero-cli-render 14:09:33 Building wheel for omero-cli-render (pyproject.toml): started 14:09:33 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done' 14:09:33 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19841 sha256=c048c20d47460d673d7d9a6220c9911303ede117131c7688706fda624c31466e 14:09:33 Stored in directory: /tmp/pip-ephem-wheel-cache-4uxa5d4q/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee 14:09:33 Successfully built omero-cli-render 14:09:33 Installing collected packages: omero-cli-render 14:09:34 Successfully installed omero-cli-render-0.8.2.dev0 14:09:34 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate 14:09:35 Collecting omero-cli-duplicate 14:09:35 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-34m3puou/omero-cli-duplicate_7a67f3a4423d4a7896485cd206bc45b9 14:09:35 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-34m3puou/omero-cli-duplicate_7a67f3a4423d4a7896485cd206bc45b9 14:09:36 Running command git checkout -b merge_ci --track origin/merge_ci 14:09:36 Switched to a new branch 'merge_ci' 14:09:36 branch 'merge_ci' set up to track 'origin/merge_ci'. 14:09:36 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 66ae71b196e8b63f0e16abffca7a95fa13787a32 14:09:36 Installing build dependencies: started 14:09:38 Installing build dependencies: finished with status 'done' 14:09:38 Getting requirements to build wheel: started 14:09:38 Getting requirements to build wheel: finished with status 'done' 14:09:38 Preparing metadata (pyproject.toml): started 14:09:39 Preparing metadata (pyproject.toml): finished with status 'done' 14:09:39 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.23.0) 14:09:39 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4) 14:09:39 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0) 14:09:39 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6) 14:09:39 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (12.3.0) 14:09:39 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3) 14:09:39 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) 14:09:39 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2) 14:09:39 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (4.3.0) 14:09:39 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.5.1) 14:09:39 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.19) 14:09:39 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.7.0) 14:09:39 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.7.22) 14:09:39 Building wheels for collected packages: omero-cli-duplicate 14:09:39 Building wheel for omero-cli-duplicate (pyproject.toml): started 14:09:39 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done' 14:09:39 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11540 sha256=a639a7daeed00af2a3924d18c4b71beec4a7b01ba06578a8803c2c79d2ee6233 14:09:39 Stored in directory: /tmp/pip-ephem-wheel-cache-my_2pyp5/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46 14:09:39 Successfully built omero-cli-duplicate 14:09:39 Installing collected packages: omero-cli-duplicate 14:09:39 Successfully installed omero-cli-duplicate-0.4.1.dev0 14:09:39 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr 14:09:40 Collecting omero-cli-zarr 14:09:40 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-kflwue0t/omero-cli-zarr_2b24676d7cee41b8ba289d124542562b 14:09:40 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-kflwue0t/omero-cli-zarr_2b24676d7cee41b8ba289d124542562b 14:09:42 Running command git checkout -b merge_ci --track origin/merge_ci 14:09:42 Switched to a new branch 'merge_ci' 14:09:42 branch 'merge_ci' set up to track 'origin/merge_ci'. 14:09:42 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 2828c4f470e9e67ba3e562000cb348e54798e432 14:09:42 Installing build dependencies: started 14:09:44 Installing build dependencies: finished with status 'done' 14:09:44 Getting requirements to build wheel: started 14:09:44 Getting requirements to build wheel: finished with status 'done' 14:09:44 Installing backend dependencies: started 14:09:46 Installing backend dependencies: finished with status 'done' 14:09:46 Preparing metadata (pyproject.toml): started 14:09:47 Preparing metadata (pyproject.toml): finished with status 'done' 14:09:47 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.23.0) 14:09:47 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr) 14:09:47 Using cached ome_zarr-0.18.0-py3-none-any.whl.metadata (2.9 kB) 14:09:47 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6) 14:09:47 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:47 Using cached dask-2026.8.0-py3-none-any.whl.metadata (3.8 kB) 14:09:47 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:47 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB) 14:09:47 Collecting fsspec!=2021.07.0,!=2023.9.0,>=0.8 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) 14:09:47 Using cached fsspec-2026.7.0-py3-none-any.whl.metadata (10 kB) 14:09:48 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:48 Using cached aiohttp-3.14.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB) 14:09:48 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2) 14:09:48 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:48 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB) 14:09:48 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:48 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB) 14:09:49 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:49 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes) 14:09:49 Collecting ome-zarr-models>=1.6 (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:49 Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB) 14:09:49 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr) 14:09:49 Using 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14:09:56 Using cached pydantic-2.12.5-py3-none-any.whl (463 kB) 14:09:56 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB) 14:09:56 Using cached partd-1.4.2-py3-none-any.whl (18 kB) 14:09:56 Using cached pydantic_zarr-0.9.2-py3-none-any.whl (52 kB) 14:09:56 Using cached s3fs-2026.7.0-py3-none-any.whl (32 kB) 14:09:57 Using cached aiobotocore-3.9.1-py3-none-any.whl (102 kB) 14:09:57 Using cached aiohttp-3.14.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB) 14:09:57 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB) 14:09:57 Using cached botocore-1.43.75-py3-none-any.whl (15.7 MB) 14:09:57 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB) 14:09:57 Downloading multidict-6.8.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (272 kB) 14:09:57 Using cached wrapt-2.4.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (217 kB) 14:09:57 Using cached yarl-1.24.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (111 kB) 14:09:57 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl (15 kB) 14:09:57 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB) 14:09:57 Using cached attrs-26.1.0-py3-none-any.whl (67 kB) 14:09:57 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB) 14:09:57 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (58 kB) 14:09:57 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB) 14:09:57 Using cached imageio-2.37.4-py3-none-any.whl (318 kB) 14:09:57 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB) 14:09:57 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB) 14:09:58 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB) 14:09:58 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB) 14:09:58 Using cached toolz-1.1.0-py3-none-any.whl (58 kB) 14:09:58 Using cached zarr-3.1.6-py3-none-any.whl (295 kB) 14:09:58 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB) 14:09:58 Using cached google_crc32c-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_5_x86_64.whl (33 kB) 14:09:58 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (9.1 MB) 14:09:58 Using cached zipp-4.1.0-py3-none-any.whl (10 kB) 14:09:58 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB) 14:09:58 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB) 14:09:58 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB) 14:09:59 Building wheels for collected packages: omero-cli-zarr 14:09:59 Building wheel for omero-cli-zarr (pyproject.toml): started 14:09:59 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done' 14:09:59 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev186+g2828c4f-py3-none-any.whl size=39538 sha256=90083c45fdb8a05e6211e4d225a177b89f551957d97718ea441570a2af5d2361 14:09:59 Stored in directory: /tmp/pip-ephem-wheel-cache-9_qwhs26/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529 14:09:59 Successfully built omero-cli-zarr 14:09:59 Installing collected packages: rangehttpserver, zipp, wrapt, toolz, tifffile, scipy, pydantic-core, propcache, numcodecs, networkx, multidict, locket, lazy-loader, jmespath, imageio, google-crc32c, fsspec, frozenlist, donfig, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, zarr, yarl, scikit-image, pydantic, partd, importlib_metadata, Deprecated, botocore, aiosignal, pydantic-zarr, dask, aiohttp, ome-zarr-models, aiobotocore, s3fs, ome-zarr, omero-cli-zarr 14:10:47 Attempting uninstall: pydantic-core 14:10:47 Found existing installation: pydantic_core 2.46.5 14:10:47 Uninstalling pydantic_core-2.46.5: 14:10:48 Successfully uninstalled pydantic_core-2.46.5 14:11:32 Attempting uninstall: pydantic 14:11:32 Found existing installation: pydantic 2.13.5 14:11:32 Uninstalling pydantic-2.13.5: 14:11:32 Successfully uninstalled pydantic-2.13.5 14:12:25 14:12:25 Successfully installed Deprecated-1.3.1 aiobotocore-3.9.1 aiohappyeyeballs-2.7.1 aiohttp-3.14.3 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.75 click-8.5.0 cloudpickle-3.1.2 dask-2026.8.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.7.0 google-crc32c-1.8.0 imageio-2.37.4 importlib_metadata-9.0.1 jmespath-1.1.0 lazy-loader-0.5 locket-1.0.0 multidict-6.8.0 networkx-3.6.1 numcodecs-0.16.5 ome-zarr-0.18.0 ome-zarr-models-1.7 omero-cli-zarr-0.5.5.dev186+g2828c4f partd-1.4.2 propcache-0.5.2 pydantic-2.12.5 pydantic-core-2.41.5 pydantic-zarr-0.9.2 rangehttpserver-1.4.0 s3fs-2026.7.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.4.0 yarl-1.24.5 zarr-3.1.6 zipp-4.1.0 14:12:26 + pip install omero-certificates 14:12:28 Collecting omero-certificates 14:12:28 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB) 14:12:28 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.23.0) 14:12:28 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4) 14:12:28 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0) 14:12:28 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6) 14:12:28 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (12.3.0) 14:12:28 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3) 14:12:28 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) 14:12:28 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2) 14:12:28 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (4.3.0) 14:12:29 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.5.1) 14:12:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.19) 14:12:29 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.7.0) 14:12:29 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.7.22) 14:12:29 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB) 14:12:29 Installing collected packages: omero-certificates 14:12:30 Successfully installed omero-certificates-0.4.0 14:12:30 + for x in *.tar.gz 14:12:30 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz 14:12:31 Processing ./omero_dropbox-5.7.1.dev0.tar.gz 14:12:31 Installing build dependencies: started 14:12:34 Installing build dependencies: finished with status 'done' 14:12:34 Getting requirements to build wheel: started 14:12:35 Getting requirements to build wheel: finished with status 'done' 14:12:35 Preparing metadata (pyproject.toml): started 14:12:35 Preparing metadata (pyproject.toml): finished with status 'done' 14:12:35 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.23.0) 14:12:35 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4) 14:12:35 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0) 14:12:35 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.6) 14:12:35 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (12.3.0) 14:12:35 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3) 14:12:35 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) 14:12:35 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2) 14:12:35 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (4.3.0) 14:12:35 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.5.1) 14:12:35 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.19) 14:12:35 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.7.0) 14:12:35 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.7.22) 14:12:35 Building wheels for collected packages: omero-dropbox 14:12:35 Building wheel for omero-dropbox (pyproject.toml): started 14:12:35 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done' 14:12:35 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49155 sha256=7591e5519f7c4c688a052f7397633b21361acbebe6684156b61c07a4bce4f81a 14:12:35 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92 14:12:35 Successfully built omero-dropbox 14:12:36 Installing collected packages: omero-dropbox 14:12:37 Successfully installed omero-dropbox-5.7.1.dev0 14:12:37 + for x in *.tar.gz 14:12:37 + pip install -U omero_marshal-0.9.2.dev0.tar.gz 14:12:39 Processing ./omero_marshal-0.9.2.dev0.tar.gz 14:12:39 Installing build dependencies: started 14:12:41 Installing build dependencies: finished with status 'done' 14:12:41 Getting requirements to build wheel: started 14:12:41 Getting requirements to build wheel: finished with status 'done' 14:12:41 Preparing metadata (pyproject.toml): started 14:12:42 Preparing metadata (pyproject.toml): finished with status 'done' 14:12:42 Building wheels for collected packages: omero_marshal 14:12:42 Building wheel for omero_marshal (pyproject.toml): started 14:12:42 Building wheel for omero_marshal (pyproject.toml): finished with status 'done' 14:12:42 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88121 sha256=8f9e98b5f283044f9c00fbc6bc983178d2056c2c07f5fe74654153c0e353bf0a 14:12:42 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230 14:12:42 Successfully built omero_marshal 14:12:43 Installing collected packages: omero_marshal 14:12:46 Successfully installed omero_marshal-0.9.2.dev0 14:12:46 + for x in *.tar.gz 14:12:46 + pip install -U omero_py-5.23.1.dev0.tar.gz 14:12:48 Processing ./omero_py-5.23.1.dev0.tar.gz 14:12:49 Installing build dependencies: started 14:12:51 Installing build dependencies: finished with status 'done' 14:12:51 Getting requirements to build wheel: started 14:12:51 Getting requirements to build wheel: finished with status 'done' 14:12:51 Preparing metadata (pyproject.toml): started 14:12:52 Preparing metadata (pyproject.toml): finished with status 'done' 14:12:52 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.4.4) 14:12:52 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (1.0.0) 14:12:52 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.4.6) 14:12:52 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (12.3.0) 14:12:52 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (6.0.3) 14:12:52 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (3.6.5) 14:12:52 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (2.34.2) 14:12:52 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.23.1.dev0) (4.3.0) 14:12:52 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.5.1) 14:12:52 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (3.19) 14:12:52 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2.7.0) 14:12:52 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.23.1.dev0) (2026.7.22) 14:12:52 Building wheels for collected packages: omero-py 14:12:52 Building wheel for omero-py (pyproject.toml): started 14:12:53 Building wheel for omero-py (pyproject.toml): finished with status 'done' 14:12:53 Created wheel for omero-py: filename=omero_py-5.23.1.dev0-py3-none-any.whl size=2787190 sha256=b9140c3dd342db33fed8d1bbebacb9ba18f0739b25c6ca4784bc0fb688cd799d 14:12:53 Stored in directory: /home/omero/.cache/pip/wheels/99/0a/38/75d301c3c2feff37b61c572a590c9d07ab2e52df205857b74d 14:12:53 Successfully built omero-py 14:12:53 Installing collected packages: omero-py 14:12:53 Attempting uninstall: omero-py 14:12:53 Found existing installation: omero-py 5.23.0 14:12:55 Uninstalling omero-py-5.23.0: 14:13:15 Successfully uninstalled omero-py-5.23.0 14:13:37 Successfully installed omero-py-5.23.1.dev0 14:13:37 + for x in *.tar.gz 14:13:37 + pip install -U omero_scripts-5.10.1.dev0.tar.gz 14:13:38 Processing ./omero_scripts-5.10.1.dev0.tar.gz 14:13:38 Installing build dependencies: started 14:13:39 Installing build dependencies: finished with status 'done' 14:13:39 Getting requirements to build wheel: started 14:13:40 Getting requirements to build wheel: finished with status 'done' 14:13:40 Preparing metadata (pyproject.toml): started 14:13:40 Preparing metadata (pyproject.toml): finished with status 'done' 14:13:40 Building wheels for collected packages: omero-scripts 14:13:40 Building wheel for omero-scripts (pyproject.toml): started 14:13:40 Building wheel for omero-scripts (pyproject.toml): finished with status 'done' 14:13:40 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137217 sha256=bcb94beca87475057818e439e993783ed31c566916d0fbb01051ca8c42643e3d 14:13:40 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e 14:13:40 Successfully built omero-scripts 14:13:41 Installing collected packages: omero-scripts 14:13:42 Successfully installed omero-scripts-5.10.1.dev0 14:13:42 + for x in *.tar.gz 14:13:42 + pip install -U omero_web-5.33.1.dev0.tar.gz 14:13:43 Processing ./omero_web-5.33.1.dev0.tar.gz 14:13:44 Installing build dependencies: started 14:13:46 Installing build dependencies: finished with status 'done' 14:13:46 Getting requirements to build wheel: started 14:13:46 Getting requirements to build wheel: finished with status 'done' 14:13:46 Preparing metadata (pyproject.toml): started 14:13:47 Preparing metadata (pyproject.toml): finished with status 'done' 14:13:47 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (5.23.1.dev0) 14:13:47 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.33.1.dev0) 14:13:47 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB) 14:13:47 Collecting Django<5.3,>=5.2.9 (from omero-web==5.33.1.dev0) 14:13:47 Using cached django-5.2.17-py3-none-any.whl.metadata (4.1 kB) 14:13:47 Collecting django-pipeline>=4.1.0 (from omero-web==5.33.1.dev0) 14:13:47 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB) 14:13:48 Collecting django-cors-headers==3.7.0 (from omero-web==5.33.1.dev0) 14:13:48 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB) 14:13:48 Collecting whitenoise>=5.3.0 (from omero-web==5.33.1.dev0) 14:13:48 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB) 14:13:48 Collecting gunicorn>=19.3 (from omero-web==5.33.1.dev0) 14:13:48 Using cached gunicorn-26.2.0-py3-none-any.whl.metadata (5.5 kB) 14:13:48 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (0.9.2.dev0) 14:13:48 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (12.3.0) 14:13:48 Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (2026.3.post1) 14:13:48 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (4.3.0) 14:13:48 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.33.1.dev0) (26.3) 14:13:48 Collecting importlib-resources (from omero-web==5.33.1.dev0) 14:13:48 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB) 14:13:48 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.33.1.dev0) 14:13:48 Using cached asgiref-3.12.1-py3-none-any.whl.metadata (9.4 kB) 14:13:48 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.33.1.dev0) 14:13:48 Using cached sqlparse-0.6.0-py3-none-any.whl.metadata (6.0 kB) 14:13:48 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.33.1.dev0) (65.5.1) 14:13:49 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.33.1.dev0) 14:13:49 Using cached wheel-0.48.0-py3-none-any.whl.metadata (2.3 kB) 14:13:49 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (1.4.4) 14:13:49 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (1.0.0) 14:13:49 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (2.4.6) 14:13:49 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (6.0.3) 14:13:49 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==5.33.1.dev0) (3.6.5) 14:13:49 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.33.1.dev0) (2.34.2) 14:13:49 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (3.5.1) 14:13:49 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (3.19) 14:13:49 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (2.7.0) 14:13:49 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.33.1.dev0) (2026.7.22) 14:13:49 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB) 14:13:49 Using cached django-5.2.17-py3-none-any.whl (8.3 MB) 14:13:49 Using cached asgiref-3.12.1-py3-none-any.whl (25 kB) 14:13:49 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB) 14:13:49 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB) 14:13:49 Using cached gunicorn-26.2.0-py3-none-any.whl (228 kB) 14:13:49 Using cached sqlparse-0.6.0-py3-none-any.whl (50 kB) 14:13:49 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB) 14:13:49 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB) 14:13:49 Using cached wheel-0.48.0-py3-none-any.whl (33 kB) 14:13:49 Building wheels for collected packages: omero-web 14:13:49 Building wheel for omero-web (pyproject.toml): started 14:13:51 Building wheel for omero-web (pyproject.toml): finished with status 'done' 14:13:51 Created wheel for omero-web: filename=omero_web-5.33.1.dev0-py3-none-any.whl size=2821687 sha256=e594d4613802d62f0060021df4db49b92014f00f326ed91952ba5a4b200c0956 14:13:51 Stored in directory: /home/omero/.cache/pip/wheels/77/f6/23/fc9c2b5a287f0e430435deaa5ed7a3a49a9c9a8f56769f82c4 14:13:51 Successfully built omero-web 14:13:51 Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web 14:15:21 14:15:21 Successfully installed Django-5.2.17 asgiref-3.12.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.2.0 importlib-resources-7.1.0 omero-web-5.33.1.dev0 sqlparse-0.6.0 wheel-0.48.0 whitenoise-6.12.0 14:15:21 + wget https://raw.githubusercontent.com/ome/figure/refs/heads/master/ome_figure/Figure_To_Pdf.py 14:15:22 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file. 14:15:22 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled. 14:15:22 --2026-09-09 14:15:22-- https://raw.githubusercontent.com/ome/figure/refs/heads/master/ome_figure/Figure_To_Pdf.py 14:15:22 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.111.133, 185.199.109.133, ... 14:15:22 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected. 14:15:22 HTTP request sent, awaiting response... 200 OK 14:15:22 Length: 133662 (131K) [text/plain] 14:15:22 Saving to: ‘Figure_To_Pdf.py’ 14:15:22 14:15:22 0K .......... .......... .......... .......... .......... 38% 2.95M 0s 14:15:22 50K .......... .......... .......... .......... .......... 76% 9.17M 0s 14:15:22 100K .......... .......... .......... 100% 7.47M=0.03s 14:15:22 14:15:22 2026-09-09 14:15:22 (4.93 MB/s) - ‘Figure_To_Pdf.py’ saved [133662/133662] 14:15:22 14:15:22 + chmod 755 Figure_To_Pdf.py 14:15:22 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts 14:15:22 + omero config set omero.db.name OMERO-server 14:15:37 + omero config set omero.db.host pg 14:15:47 + omero config set omero.db.user postgres 14:15:57 + omero config set omero.data.dir /home/omero/omero-server-data 14:16:06 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time% 14:16:18 + omero config set omero.db.poolsize 25 14:16:29 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts 14:16:38 + omero config set omero.security.trustStorePassword changeit 14:16:45 + omero config set omero.mail.config true 14:16:53 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0 14:17:01 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED' 14:17:09 + omero certificates 14:17:16 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026) 14:17:16 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12 14:17:16 + '[' false = true ']' 14:17:16 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade' 14:17:16 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade 14:17:16 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server 14:17:16 2026-09-09 14:17:16,801 [ omego.db] DEBUG dbcommand => upgrade 14:17:16 2026-09-09 14:17:16,802 [ omego.db] DEBUG dbhost => localhost 14:17:16 2026-09-09 14:17:16,802 [ omego.db] DEBUG dbname => OMERO-server 14:17:16 2026-09-09 14:17:16,802 [ omego.db] DEBUG dbpass => omero 14:17:16 2026-09-09 14:17:16,802 [ omego.db] DEBUG dbuser => omero 14:17:16 2026-09-09 14:17:16,802 [ omego.db] DEBUG rootpass => omero 14:17:16 2026-09-09 14:17:16,802 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server 14:17:16 2026-09-09 14:17:16,802 [omego.extern] INFO Executing : omero version 14:17:23 OMERO.py version: 14:17:24 OMERO.server version: 14:17:24 5.6.3-677-ab3492c05b-ice36-b73 14:17:24 5.23.1.dev0 14:17:24 2026-09-09 14:17:24,583 [omego.extern] INFO Completed [7.781 s] 14:17:24 2026-09-09 14:17:24,583 [omego.extern] DEBUG Using omero CLI from omero 14:17:24 2026-09-09 14:17:24,583 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ... 14:17:24 2026-09-09 14:17:24,583 [omego.extern] INFO Running [current environment]: omero config get --show-password 14:17:24 2026-09-09 14:17:24,583 [omego.extern] INFO Executing : omero config get --show-password 14:17:32 2026-09-09 14:17:32,150 [omego.extern] INFO Completed [7.567 s] 14:17:32 2026-09-09 14:17:32,151 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 14:17:32 2026-09-09 14:17:32,151 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version 14:17:32 2026-09-09 14:17:32,232 [omego.extern] INFO Completed [0.081 s] 14:17:32 2026-09-09 14:17:32,232 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n' 14:17:32 2026-09-09 14:17:32,232 [ omego.db] INFO psql version: psql (PostgreSQL) 16.14 14:17:32 14:17:32 2026-09-09 14:17:32,232 [omego.extern] INFO Running [current environment]: omero config get --show-password 14:17:32 2026-09-09 14:17:32,232 [omego.extern] INFO Executing : omero config get --show-password 14:17:40 2026-09-09 14:17:40,373 [omego.extern] INFO Completed [8.141 s] 14:17:40 2026-09-09 14:17:40,373 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 14:17:40 2026-09-09 14:17:40,374 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo 14:17:40 2026-09-09 14:17:40,435 [omego.extern] INFO Completed [0.061 s] 14:17:40 2026-09-09 14:17:40,435 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.6") at port "5432".\n' 14:17:40 2026-09-09 14:17:40,435 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 14:17:40 2026-09-09 14:17:40,435 [omego.extern] INFO Running [current environment]: omero config get --show-password 14:17:40 2026-09-09 14:17:40,435 [omego.extern] INFO Executing : omero config get --show-password 14:17:47 2026-09-09 14:17:47,836 [omego.extern] INFO Completed [7.401 s] 14:17:47 2026-09-09 14:17:47,836 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 14:17:47 2026-09-09 14:17:47,837 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 14:17:48 2026-09-09 14:17:48,357 [omego.extern] INFO Completed [0.521 s] 14:17:48 2026-09-09 14:17:48,357 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n' 14:17:48 2026-09-09 14:17:48,357 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0') 14:17:48 2026-09-09 14:17:48,528 [ omego.db] INFO Database is already at OMERO5.4__0 14:17:48 + export LANG=en_US.UTF-8 14:17:48 + LANG=en_US.UTF-8 14:17:48 + export LANGUAGE=en_US:en 14:17:48 + LANGUAGE=en_US:en 14:17:48 + export LC_ALL=en_US.UTF-8 14:17:48 + LC_ALL=en_US.UTF-8 14:17:48 + BUILD_ID=DONT_KILL_ME 14:17:48 + omero admin start 14:18:09 No descriptor given. Using etc/grid/default.xml 14:18:28 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master 14:18:28 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log 14:18:28 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry 14:18:28 Waiting on startup. Use CTRL-C to exit 14:18:29 + omero admin waitup 14:18:41 Waiting on startup. Use CTRL-C to exit 14:18:41 + omero admin diagnostics 14:18:56 14:18:56 ================================================================================ 14:18:56 OMERO Diagnostics (admin) 14:18:56 ================================================================================ 14:18:56 14:18:56 Commands: java -version 21.0.12 (/usr/bin/java) 14:18:56 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python) 14:18:56 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode) 14:18:56 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin) 14:18:56 Commands: psql --version 16.14 (/usr/bin/psql) 14:18:56 Commands: openssl version 3.5.527 (/usr/bin/openssl) 14:18:56 14:18:56 Component: OMERO.py 5.23.1.dev0 14:18:56 Component: OMERO.server 5.6.3-677-ab3492c05b-ice36-b73 14:18:56 14:18:56 Server: icegridnode running 14:18:56 Server: Blitz-0 active (pid = 1139, enabled) 14:18:56 Server: Indexer-0 active (pid = 1157, enabled) 14:18:56 Server: OMERO.Glacier2 active (pid = 1187, enabled) 14:18:56 Server: OMERO.IceStorm active (pid = 1159, enabled) 14:18:56 Server: Processor-0 active (pid = 1190, enabled) 14:18:56 Server: Tables-0 active (pid = 1195, enabled) 14:18:56 14:18:56 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists 14:18:56 Log files: Blitz-0.log 82.6 KB errors=0 warnings=1 14:18:56 Log files: DropBox.log n/a 14:18:56 Log files: FileServer.log n/a 14:18:56 Log files: Indexer-0.log 2.8 KB 14:18:56 Log files: MonitorServer.log n/a 14:18:56 Log files: Processor-0.log 3.9 KB 14:18:56 Log files: Tables-0.log 1.1 KB 14:18:56 Log files: TestDropBox.log n/a 14:18:56 Log files: master.err empty 14:18:56 Log files: master.out 30.7 KB 14:18:56 Log files: Total size 0.12 MB 14:18:56 14:18:56 14:18:56 Environment:OMERO_HOME=(unset) 14:18:56 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 14:18:56 Environment:OMERO_NODE=(unset) 14:18:56 Environment:OMERO_MASTER=(unset) 14:18:56 Environment:OMERO_USERDIR=(unset) 14:18:56 Environment:OMERO_TMPDIR=(unset) 14:18:56 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 14:18:56 Environment:PYTHONPATH=(unset) 14:18:56 Environment:ICE_HOME=/opt/ice-3.6.5 14:18:56 Environment:LD_LIBRARY_PATH=(unset) 14:18:56 Environment:DYLD_LIBRARY_PATH=(unset) 14:18:56 14:18:56 OMERO SSL port:4064 14:18:56 OMERO TCP port:4063 14:18:56 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True 14:18:56 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0) 14:18:56 14:18:56 JVM settings: Blitz-${index} -Xmx5007m 14:18:56 JVM settings: Indexer-${index} -Xmx3338m 14:18:56 JVM settings: PixelData-${index} -Xmx5007m 14:18:56 JVM settings: Repository-${index} -Xmx3338m 14:18:57 14:18:57 Jar: lib/server/formats-api.jar Bio-Formats API 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce 14:18:57 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce 14:18:57 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.5.0 18 March 2026 877c317e4e396381dc76e56c1539b24947f71dce 14:18:57 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.3 26 February 2026 70fd9b72a9834f1af4852c1e5b5676c57a2c360e 14:18:57 Jar: lib/server/ome-common.jar OME Common Java 6.2.1 27 February 2026 a24fbcbf04a3a3acba14e9575d7fb1d36a484dff 14:18:57 Jar: lib/server/ome-jai.jar OME JAI 0.1.5 30 June 2025 257a1c1410c0103485248d05752a5174262a38b6 14:18:57 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4 25 June 2025 57553b46e5f0cf9aefe5d97d2b1c8dd2073a4d37 14:18:57 Jar: lib/server/ome-poi.jar OME POI 5.3.11 11 November 2025 a2f3944ac71db9e7e51a6f64ec46beeb60613afb 14:18:57 Jar: lib/server/ome-xml.jar OME XML library 6.5.3 22 January 2026 21d1362abd9ce26e13888d2b2d028753d21ac96e 14:18:57 Jar: lib/server/omero-blitz.jar jar 5.8.6-SNAPSHOT 14:18:57 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT 14:18:57 Jar: lib/server/omero-gateway.jar jar 5.11.1-SNAPSHOT 14:18:57 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT 14:18:57 Jar: lib/server/omero-renderer.jar jar 5.6.6-SNAPSHOT 14:18:57 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT 14:18:57 Jar: lib/server/omero-server.jar jar 5.7.6-SNAPSHOT 14:18:57 Jar: lib/server/omero-zarr-pixel-buffer.jar OMERO Zarr Pixel Buffer 0.7.0-rc3 4c6a6c7d8fb12449c8080808fd12bf95e996e398 14:18:58 + deactivate 14:18:58 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' 14:18:58 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 14:18:58 + export PATH 14:18:58 + unset _OLD_VIRTUAL_PATH 14:18:58 + '[' -n '' ']' 14:18:58 + hash -r 14:18:58 + '[' -n '' ']' 14:18:58 + unset VIRTUAL_ENV 14:18:58 + unset VIRTUAL_ENV_PROMPT 14:18:58 + '[' '!' '' = nondestructive ']' 14:18:58 + unset -f deactivate 14:18:58 Finished: SUCCESS