09:28:21 Started by upstream project "Trigger" build number 166
09:28:21 originally caused by:
09:28:21 Started by user devspace
09:28:21 Running as SYSTEM
09:28:21 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
09:28:21 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7177581825683121560.sh
09:28:21 + source /home/settings.env
09:28:21 ++ OMERO_DB_HOST=pg
09:28:21 ++ OMERO_DB_USER=postgres
09:28:21 ++ OMERO_DB_PASS=
09:28:21 ++ OMERO_ROOT_PASS=omero
09:28:21 ++ OMERO_DATA_DIR=/OMERO
09:28:21 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:28:21 + OMERO_DB_NAME=OMERO-server
09:28:21 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:28:21 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:28:21 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:28:21 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:28:21 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
09:28:21 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:28:21 ++ deactivate nondestructive
09:28:21 ++ '[' -n '' ']'
09:28:21 ++ '[' -n '' ']'
09:28:21 ++ hash -r
09:28:21 ++ '[' -n '' ']'
09:28:21 ++ unset VIRTUAL_ENV
09:28:21 ++ unset VIRTUAL_ENV_PROMPT
09:28:21 ++ '[' '!' nondestructive = nondestructive ']'
09:28:21 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:28:21 ++ export VIRTUAL_ENV
09:28:21 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:28:21 ++ 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
09:28:21 ++ export PATH
09:28:21 ++ '[' -n '' ']'
09:28:21 ++ '[' -z '' ']'
09:28:21 ++ _OLD_VIRTUAL_PS1=
09:28:21 ++ PS1='(.venv3) '
09:28:21 ++ export PS1
09:28:21 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
09:28:21 ++ export VIRTUAL_ENV_PROMPT
09:28:21 ++ hash -r
09:28:21 + omero admin stop
09:28:23 Server not running
09:28:23 + echo not running
09:28:23 not running
09:28:23 + sleep 5
09:28:28 + deactivate
09:28:28 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:28:28 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:28:28 + export PATH
09:28:28 + unset _OLD_VIRTUAL_PATH
09:28:28 + '[' -n '' ']'
09:28:28 + hash -r
09:28:28 + '[' -n '' ']'
09:28:28 + unset VIRTUAL_ENV
09:28:28 + unset VIRTUAL_ENV_PROMPT
09:28:28 + '[' '!' '' = nondestructive ']'
09:28:28 + unset -f deactivate
09:28:28 + rm -rf /home/omero/workspace/OMERO-server/.venv3
09:28:29 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
09:28:32 + '[' false = true ']'
09:28:32 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
09:28:32 Skipping PURGE_DATA:CleanDbAndRepo
09:28:32 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.5-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.22.2.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-5.31.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
09:28:34 Copied 1 artifact from "OMERO-build" build number 130
09:28:34 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 121
09:28:34 Copied 2 artifacts from "OMERO-build-build" build number 138
09:28:34 [OMERO-server] $ /bin/bash -xe /tmp/jenkins11948901379927068540.sh
09:28:34 + source /home/settings.env
09:28:34 ++ OMERO_DB_HOST=pg
09:28:34 ++ OMERO_DB_USER=postgres
09:28:34 ++ OMERO_DB_PASS=
09:28:34 ++ OMERO_ROOT_PASS=omero
09:28:34 ++ OMERO_DATA_DIR=/OMERO
09:28:34 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
09:28:34 + OMERO_DB_NAME=OMERO-server
09:28:34 + OMERO_DATA_DIR=/home/omero/omero-server-data
09:28:34 + mkdir -p /home/omero/omero-server-data
09:28:34 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
09:28:34 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:28:34 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:28:34 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:28:34 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
09:28:34 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:28:34 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
09:28:34 ++ ls OMERO.server-5.6.3-594-db222df6ad-ice36-b130.zip
09:28:34 + ZIP=OMERO.server-5.6.3-594-db222df6ad-ice36-b130.zip
09:28:34 + '[' '!' -z '' ']'
09:28:34 + DIST=OMERO.server-5.6.3-594-db222df6ad-ice36-b130
09:28:34 + unzip OMERO.server-5.6.3-594-db222df6ad-ice36-b130.zip
09:28:34 Archive: OMERO.server-5.6.3-594-db222df6ad-ice36-b130.zip
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/blitz/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/grid/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/profiles/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/error/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/grid/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/luts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/luts/janelia/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/luts/matplotlib/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/luts/ncsa_paledit/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/luts/seaborn/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/luts/wcif/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/analysis_scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/annotation_scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/export_scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/figure_scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/import_scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/scripts/omero/util_scripts/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/server/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/share/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/share/licenses/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/misc/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__1/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__10/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__11/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__2/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__3/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__4/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__5/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__6/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__7/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__8/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3A__9/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3__4/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3__5/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3__6/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO3__7/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO4.1__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO4.2__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO4.2__0/t/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO4.3__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO4.4__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO4__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.0__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.1__1/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.2__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.3__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4DEV__1/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4DEV__2/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4DEV__3/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4__0/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/var/
09:28:34 creating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/var/tmp/
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/LICENSE.txt
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/backup.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/blitz/mail-senders.example
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/blitz/mail-server.example
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/build.properties
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/env.bat
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/env.sh
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/hibernate.properties
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/ice.config
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/logback-cli.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/logback-indexing-cli.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/logback-indexing.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/logback.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/mime.types
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/node1.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/node2.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/omero.properties
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/profiles/psql
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/rollover.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/Windows.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/error/maintainance.html
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/grid/README
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/grid/default.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/grid/templates.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/grid/windefault.xml
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/ice.config
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/internal.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/master.cfg
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/templates/robot.template
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/etc/testdropbox.config
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/history.rst
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/OMEZarrReader.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/accessors-smart.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/activation.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/aggdesigner-algorithm.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/aircompressor.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/antlr.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/aopalliance.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/apiguardian-api.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/asm.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/avatica-core.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/avatica-metrics.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/aws-java-sdk-core.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/aws-java-sdk-kms.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/aws-java-sdk-s3.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/base.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-anim.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-awt-util.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-bridge.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-codec.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-constants.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-css.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-dom.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-ext.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-gvt.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-i18n.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-parser.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-script.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-shared-resources.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-svg-dom.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-svggen.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-transcoder.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-util.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/batik-xml.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/btm.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/calcite-core.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/calcite-linq4j.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/cdm-core.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/checker-qual.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/commons-beanutils.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/commons-codec.jar
09:28:34 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/lib/client/commons-collections.jar
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09:28:36 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4__0/psql-footer.sql
09:28:36 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4__0/psql-header.sql
09:28:36 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4__0/schema.sql
09:28:36 inflating: OMERO.server-5.6.3-594-db222df6ad-ice36-b130/sql/psql/OMERO5.4__0/views.sql
09:28:36 + rm -f OMERO.server-5.6.3-594-db222df6ad-ice36-b130.zip
09:28:36 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-594-db222df6ad-ice36-b130 /home/omero/workspace/OMERO-server/OMERO.server
09:28:36 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
09:28:36 ++ deactivate nondestructive
09:28:36 ++ '[' -n '' ']'
09:28:36 ++ '[' -n '' ']'
09:28:36 ++ hash -r
09:28:36 ++ '[' -n '' ']'
09:28:36 ++ unset VIRTUAL_ENV
09:28:36 ++ unset VIRTUAL_ENV_PROMPT
09:28:36 ++ '[' '!' nondestructive = nondestructive ']'
09:28:36 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
09:28:36 ++ export VIRTUAL_ENV
09:28:36 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:28:36 ++ 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
09:28:36 ++ export PATH
09:28:36 ++ '[' -n '' ']'
09:28:36 ++ '[' -z '' ']'
09:28:36 ++ _OLD_VIRTUAL_PS1=
09:28:36 ++ PS1='(.venv3) '
09:28:36 ++ export PS1
09:28:36 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
09:28:36 ++ export VIRTUAL_ENV_PROMPT
09:28:36 ++ hash -r
09:28:36 + pip install -U pip
09:28:37 Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1)
09:28:37 Collecting pip
09:28:37 Using cached pip-26.0.1-py3-none-any.whl (1.8 MB)
09:28:37 Installing collected packages: pip
09:28:37 Attempting uninstall: pip
09:28:37 Found existing installation: pip 22.3.1
09:28:37 Uninstalling pip-22.3.1:
09:28:37 Successfully uninstalled pip-22.3.1
09:28:38 Successfully installed pip-26.0.1
09:28:38 WARNING: There was an error checking the latest version of pip.
09:28:38 + 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
09:28:38 Collecting zeroc-ice==3.6.5
09:28:39 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)
09:28:43 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 9.8 MB/s 0:00:03
09:28:43 Installing collected packages: zeroc-ice
09:28:43 Successfully installed zeroc-ice-3.6.5
09:28:44 + pip install markdown
09:28:44 Collecting markdown
09:28:44 Using cached markdown-3.10.2-py3-none-any.whl.metadata (5.1 kB)
09:28:44 Using cached markdown-3.10.2-py3-none-any.whl (108 kB)
09:28:44 Installing collected packages: markdown
09:28:44 Successfully installed markdown-3.10.2
09:28:44 + pip install reportlab
09:28:45 Collecting reportlab
09:28:45 Using cached reportlab-4.4.10-py3-none-any.whl.metadata (1.7 kB)
09:28:46 Collecting pillow>=9.0.0 (from reportlab)
09:28:46 Using cached pillow-12.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.8 kB)
09:28:46 Collecting charset-normalizer (from reportlab)
09:28:46 Using cached charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (40 kB)
09:28:46 Using cached reportlab-4.4.10-py3-none-any.whl (2.0 MB)
09:28:46 Using cached pillow-12.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.1 MB)
09:28:46 Using cached charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (214 kB)
09:28:46 Installing collected packages: pillow, charset-normalizer, reportlab
09:28:47
09:28:47 Successfully installed charset-normalizer-3.4.7 pillow-12.2.0 reportlab-4.4.10
09:28:47 + pip install omego
09:28:48 Collecting omego
09:28:48 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
09:28:48 Collecting future (from omego)
09:28:48 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
09:28:48 Collecting yaclifw>=0.1.1 (from omego)
09:28:48 Using cached yaclifw-0.2.0-py3-none-any.whl
09:28:48 Collecting six (from yaclifw>=0.1.1->omego)
09:28:48 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
09:28:48 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
09:28:48 Using cached future-1.0.0-py3-none-any.whl (491 kB)
09:28:48 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
09:28:48 Installing collected packages: six, future, yaclifw, omego
09:28:48
09:28:48 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
09:28:48 + pip install tables
09:28:48 Collecting tables
09:28:49 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)
09:28:49 Collecting numpy>=1.20.0 (from tables)
09:28:49 Using cached numpy-2.4.4-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
09:28:49 Collecting numexpr>=2.6.2 (from tables)
09:28:49 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
09:28:49 Collecting packaging (from tables)
09:28:49 Using cached packaging-26.1-py3-none-any.whl.metadata (3.5 kB)
09:28:49 Collecting py-cpuinfo (from tables)
09:28:49 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
09:28:49 Collecting blosc2>=2.3.0 (from tables)
09:28:49 Using cached blosc2-4.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (6.2 kB)
09:28:49 Collecting ndindex (from blosc2>=2.3.0->tables)
09:28:49 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
09:28:49 Collecting msgpack (from blosc2>=2.3.0->tables)
09:28:49 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
09:28:49 Collecting requests (from blosc2>=2.3.0->tables)
09:28:49 Using cached requests-2.33.1-py3-none-any.whl.metadata (4.8 kB)
09:28:49 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.7)
09:28:49 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
09:28:49 Using cached idna-3.11-py3-none-any.whl.metadata (8.4 kB)
09:28:49 Collecting urllib3<3,>=1.26 (from requests->blosc2>=2.3.0->tables)
09:28:49 Using cached urllib3-2.6.3-py3-none-any.whl.metadata (6.9 kB)
09:28:49 Collecting certifi>=2023.5.7 (from requests->blosc2>=2.3.0->tables)
09:28:49 Using cached certifi-2026.2.25-py3-none-any.whl.metadata (2.5 kB)
09:28:49 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)
09:28:49 Using cached blosc2-4.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (5.2 MB)
09:28:49 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
09:28:49 Using cached numpy-2.4.4-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
09:28:49 Using cached msgpack-1.1.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (426 kB)
09:28:49 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
09:28:49 Using cached packaging-26.1-py3-none-any.whl (95 kB)
09:28:49 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
09:28:49 Using cached requests-2.33.1-py3-none-any.whl (64 kB)
09:28:49 Using cached idna-3.11-py3-none-any.whl (71 kB)
09:28:49 Using cached urllib3-2.6.3-py3-none-any.whl (131 kB)
09:28:49 Using cached certifi-2026.2.25-py3-none-any.whl (153 kB)
09:28:49 Installing collected packages: py-cpuinfo, urllib3, packaging, numpy, ndindex, msgpack, idna, certifi, requests, numexpr, blosc2, tables
09:28:53
09:28:53 Successfully installed blosc2-4.1.2 certifi-2026.2.25 idna-3.11 msgpack-1.1.2 ndindex-1.10.1 numexpr-2.14.1 numpy-2.4.4 packaging-26.1 py-cpuinfo-9.0.0 requests-2.33.1 tables-3.11.1 urllib3-2.6.3
09:28:53 + pip install jinja2
09:28:53 Collecting jinja2
09:28:53 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
09:28:53 Collecting MarkupSafe>=2.0 (from jinja2)
09:28:53 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)
09:28:53 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
09:28:53 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
09:28:53 Installing collected packages: MarkupSafe, jinja2
09:28:53
09:28:53 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
09:28:54 + pip install omero-py
09:28:54 Collecting omero-py
09:28:54 Using cached omero_py-5.22.1-py3-none-any.whl.metadata (6.5 kB)
09:28:54 Collecting appdirs (from omero-py)
09:28:54 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
09:28:54 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
09:28:54 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.4)
09:28:54 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.2.0)
09:28:54 Collecting PyYAML (from omero-py)
09:28:54 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)
09:28:54 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
09:28:54 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.33.1)
09:28:54 Collecting portalocker (from omero-py)
09:28:54 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
09:28:54 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.7)
09:28:54 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.11)
09:28:54 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.6.3)
09:28:54 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.2.25)
09:28:54 Using cached omero_py-5.22.1-py3-none-any.whl (2.8 MB)
09:28:54 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
09:28:54 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
09:28:54 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
09:28:54 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
09:28:56
09:28:56 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.22.1 portalocker-3.2.0
09:28:56 + pip install pyarrow
09:28:56 Collecting pyarrow
09:28:56 Using cached pyarrow-23.0.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (3.1 kB)
09:28:56 Using cached pyarrow-23.0.1-cp311-cp311-manylinux_2_28_x86_64.whl (47.6 MB)
09:28:57 Installing collected packages: pyarrow
09:28:58 Successfully installed pyarrow-23.0.1
09:28:58 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
09:28:58 Collecting omero-metadata
09:28:58 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-d84hr3_9/omero-metadata_363a503f32874eadb4fdddd96d1ac347
09:28:58 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-d84hr3_9/omero-metadata_363a503f32874eadb4fdddd96d1ac347
09:28:59 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit e18ebaaec3735864b5835bcb86366d65ac118078
09:28:59 Installing build dependencies: started
09:29:00 Installing build dependencies: finished with status 'done'
09:29:00 Getting requirements to build wheel: started
09:29:00 Getting requirements to build wheel: finished with status 'done'
09:29:00 Preparing metadata (pyproject.toml): started
09:29:01 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:01 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.22.1)
09:29:01 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
09:29:01 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
09:29:01 Collecting pandas (from omero-metadata)
09:29:01 Using cached pandas-3.0.2-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
09:29:01 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
09:29:01 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
09:29:01 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.4)
09:29:01 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (12.2.0)
09:29:01 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)
09:29:01 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.33.1)
09:29:01 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
09:29:01 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
09:29:01 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
09:29:01 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
09:29:01 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)
09:29:01 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.7)
09:29:01 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.11)
09:29:01 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2.6.3)
09:29:01 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.2.25)
09:29:01 Using cached pandas-3.0.2-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (11.3 MB)
09:29:01 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
09:29:01 Building wheels for collected packages: omero-metadata
09:29:01 Building wheel for omero-metadata (pyproject.toml): started
09:29:01 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
09:29:01 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=176b65675c63d8889217f61cdc21a385e1c540db5e3bb54388838479d6ca33fc
09:29:01 Stored in directory: /tmp/pip-ephem-wheel-cache-_wm8i5oa/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
09:29:01 Successfully built omero-metadata
09:29:01 Installing collected packages: python-dateutil, pandas, omero-metadata
09:29:06
09:29:06 Successfully installed omero-metadata-0.13.1.dev0 pandas-3.0.2 python-dateutil-2.9.0.post0
09:29:06 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
09:29:06 Collecting omero-cli-render
09:29:06 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-dn_4jj1z/omero-cli-render_d54f23b6c9f14ad4ab4815400a26a718
09:29:06 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-dn_4jj1z/omero-cli-render_d54f23b6c9f14ad4ab4815400a26a718
09:29:07 Running command git checkout -b merge_ci --track origin/merge_ci
09:29:08 Switched to a new branch 'merge_ci'
09:29:08 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:29:08 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit f71b16e0000594af51092a4ff77291104c7b23c6
09:29:08 Installing build dependencies: started
09:29:09 Installing build dependencies: finished with status 'done'
09:29:09 Getting requirements to build wheel: started
09:29:09 Getting requirements to build wheel: finished with status 'done'
09:29:09 Preparing metadata (pyproject.toml): started
09:29:09 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:09 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
09:29:09 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.22.1)
09:29:09 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
09:29:09 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
09:29:09 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.4.4)
09:29:09 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (12.2.0)
09:29:09 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)
09:29:09 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.33.1)
09:29:09 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
09:29:09 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.7)
09:29:09 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.11)
09:29:09 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2.6.3)
09:29:09 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.2.25)
09:29:09 Building wheels for collected packages: omero-cli-render
09:29:09 Building wheel for omero-cli-render (pyproject.toml): started
09:29:10 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
09:29:10 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19839 sha256=c8037e4be8ba4135c88413b0949474f80a9a926ad8c3f0cbb9d45e5a42c1356f
09:29:10 Stored in directory: /tmp/pip-ephem-wheel-cache-5za_015r/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
09:29:10 Successfully built omero-cli-render
09:29:10 Installing collected packages: omero-cli-render
09:29:10 Successfully installed omero-cli-render-0.8.2.dev0
09:29:10 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
09:29:10 Collecting omero-cli-duplicate
09:29:10 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-cg9na7zm/omero-cli-duplicate_76a8faaf86654a4796d49a3113b934f8
09:29:10 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-cg9na7zm/omero-cli-duplicate_76a8faaf86654a4796d49a3113b934f8
09:29:12 Running command git checkout -b merge_ci --track origin/merge_ci
09:29:13 Switched to a new branch 'merge_ci'
09:29:13 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:29:13 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit a2aea32814d4fcc39cfcd151feef88b49ca51296
09:29:13 Installing build dependencies: started
09:29:14 Installing build dependencies: finished with status 'done'
09:29:14 Getting requirements to build wheel: started
09:29:14 Getting requirements to build wheel: finished with status 'done'
09:29:14 Preparing metadata (pyproject.toml): started
09:29:14 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:14 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.22.1)
09:29:14 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
09:29:14 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
09:29:14 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.4)
09:29:14 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (12.2.0)
09:29:14 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
09:29:14 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)
09:29:14 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.33.1)
09:29:14 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
09:29:14 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.7)
09:29:14 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.11)
09:29:14 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2.6.3)
09:29:14 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.2.25)
09:29:14 Building wheels for collected packages: omero-cli-duplicate
09:29:14 Building wheel for omero-cli-duplicate (pyproject.toml): started
09:29:14 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
09:29:14 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11539 sha256=1e40cbd4ebd7252b4a914bcbe842adfd07bb965f2ab2700468217eba64a8b87e
09:29:14 Stored in directory: /tmp/pip-ephem-wheel-cache-ej2f90by/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
09:29:14 Successfully built omero-cli-duplicate
09:29:14 Installing collected packages: omero-cli-duplicate
09:29:14 Successfully installed omero-cli-duplicate-0.4.1.dev0
09:29:15 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
09:29:15 Collecting omero-cli-zarr
09:29:15 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-_btr86s9/omero-cli-zarr_5b578b7d7928419d93e52fc38c8931c5
09:29:15 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-_btr86s9/omero-cli-zarr_5b578b7d7928419d93e52fc38c8931c5
09:29:16 Running command git checkout -b merge_ci --track origin/merge_ci
09:29:16 Switched to a new branch 'merge_ci'
09:29:16 branch 'merge_ci' set up to track 'origin/merge_ci'.
09:29:16 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit cab66f1f46a9233e92356233ba878a244a278620
09:29:16 Installing build dependencies: started
09:29:17 Installing build dependencies: finished with status 'done'
09:29:17 Getting requirements to build wheel: started
09:29:17 Getting requirements to build wheel: finished with status 'done'
09:29:17 Installing backend dependencies: started
09:29:18 Installing backend dependencies: finished with status 'done'
09:29:18 Preparing metadata (pyproject.toml): started
09:29:18 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:18 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.22.1)
09:29:18 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
09:29:18 Using cached ome_zarr-0.16.0-py3-none-any.whl.metadata (2.9 kB)
09:29:18 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.4)
09:29:18 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:18 Using cached dask-2026.3.0-py3-none-any.whl.metadata (3.9 kB)
09:29:18 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:18 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
09:29:18 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)
09:29:18 Using cached fsspec-2026.3.0-py3-none-any.whl.metadata (10 kB)
09:29:19 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached aiohttp-3.13.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB)
09:29:19 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.33.1)
09:29:19 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
09:29:19 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
09:29:19 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
09:29:19 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
09:29:19 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached click-8.3.2-py3-none-any.whl.metadata (2.6 kB)
09:29:19 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
09:29:19 Requirement already satisfied: packaging>=20.0 in ./.venv3/lib64/python3.11/site-packages (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr) (26.1)
09:29:19 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
09:29:19 Requirement already satisfied: pyyaml>=5.3.1 in ./.venv3/lib64/python3.11/site-packages (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr) (6.0.3)
09:29:19 Collecting importlib_metadata>=4.13.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached importlib_metadata-9.0.0-py3-none-any.whl.metadata (4.5 kB)
09:29:19 Collecting s3fs>2024.2.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:19 Using cached s3fs-2026.3.0-py3-none-any.whl.metadata (1.2 kB)
09:29:20 Collecting zipp>=3.20 (from importlib_metadata>=4.13.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached zipp-3.23.1-py3-none-any.whl.metadata (3.6 kB)
09:29:20 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
09:29:20 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
09:29:20 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (12.2.0)
09:29:20 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.6.5)
09:29:20 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.2.0)
09:29:20 Collecting locket (from partd>=1.4.0->dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
09:29:20 Collecting aiobotocore<4.0.0,>=2.19.0 (from s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached aiobotocore-3.4.0-py3-none-any.whl.metadata (27 kB)
09:29:20 Collecting aioitertools<1.0.0,>=0.5.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
09:29:20 Collecting botocore<1.42.85,>=1.42.79 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached botocore-1.42.84-py3-none-any.whl.metadata (5.9 kB)
09:29:20 Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in ./.venv3/lib64/python3.11/site-packages (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (2.9.0.post0)
09:29:20 Collecting jmespath<2.0.0,>=0.7.1 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached jmespath-1.1.0-py3-none-any.whl.metadata (7.6 kB)
09:29:20 Collecting multidict<7.0.0,>=6.0.0 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:20 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (5.3 kB)
09:29:21 Collecting wrapt<3.0.0,>=1.10.10 (from aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached wrapt-2.1.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
09:29:21 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl.metadata (5.9 kB)
09:29:21 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
09:29:21 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached attrs-26.1.0-py3-none-any.whl.metadata (8.8 kB)
09:29:21 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (20 kB)
09:29:21 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached propcache-0.4.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (13 kB)
09:29:21 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached yarl-1.23.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
09:29:21 Requirement already satisfied: urllib3!=2.2.0,<3,>=1.25.4 in ./.venv3/lib64/python3.11/site-packages (from botocore<1.42.85,>=1.42.79->aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (2.6.3)
09:29:21 Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil<3.0.0,>=2.1->aiobotocore<4.0.0,>=2.19.0->s3fs>2024.2.0->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr) (1.17.0)
09:29:21 Requirement already satisfied: idna>=2.0 in ./.venv3/lib64/python3.11/site-packages (from yarl<2.0,>=1.17.0->aiohttp->ome-zarr>=0.13.0->omero-cli-zarr) (3.11)
09:29:21 Collecting typing-extensions>=4.2 (from aiosignal>=1.4.0->aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
09:29:21 Collecting scipy>=1.11.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:21 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (62 kB)
09:29:21 Collecting networkx>=3.0 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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09:29:21 Collecting imageio!=2.35.0,>=2.33 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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09:29:22 Collecting tifffile>=2022.8.12 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:22 Using cached tifffile-2026.3.3-py3-none-any.whl.metadata (31 kB)
09:29:22 Collecting lazy-loader>=0.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
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09:29:22 Collecting donfig>=0.8 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:22 Using cached donfig-0.8.1.post1-py3-none-any.whl.metadata (5.0 kB)
09:29:22 Collecting google-crc32c>=1.5 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:22 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.metadata (1.7 kB)
09:29:22 Collecting numcodecs>=0.14 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
09:29:22 Using cached numcodecs-0.16.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (3.4 kB)
09:29:22 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (3.4.7)
09:29:22 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (2026.2.25)
09:29:22 Using cached ome_zarr-0.16.0-py3-none-any.whl (46 kB)
09:29:22 Using cached dask-2026.3.0-py3-none-any.whl (1.5 MB)
09:29:22 Using cached click-8.3.2-py3-none-any.whl (108 kB)
09:29:22 Using cached cloudpickle-3.1.2-py3-none-any.whl (22 kB)
09:29:22 Using cached fsspec-2026.3.0-py3-none-any.whl (202 kB)
09:29:22 Using cached importlib_metadata-9.0.0-py3-none-any.whl (27 kB)
09:29:22 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
09:29:22 Using cached s3fs-2026.3.0-py3-none-any.whl (32 kB)
09:29:22 Using cached aiobotocore-3.4.0-py3-none-any.whl (88 kB)
09:29:22 Using cached aiohttp-3.13.5-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB)
09:29:22 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
09:29:22 Using cached botocore-1.42.84-py3-none-any.whl (14.8 MB)
09:29:22 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
09:29:22 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (246 kB)
09:29:22 Using cached wrapt-2.1.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (114 kB)
09:29:22 Using cached yarl-1.23.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (102 kB)
09:29:22 Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl (15 kB)
09:29:22 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
09:29:22 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
09:29:22 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
09:29:22 Using cached propcache-0.4.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (210 kB)
09:29:22 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
09:29:22 Using cached imageio-2.37.3-py3-none-any.whl (317 kB)
09:29:22 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB)
09:29:22 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
09:29:22 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
09:29:22 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
09:29:22 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
09:29:22 Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
09:29:22 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
09:29:22 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
09:29:22 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)
09:29:22 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)
09:29:22 Using cached zipp-3.23.1-py3-none-any.whl (10 kB)
09:29:22 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
09:29:22 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
09:29:22 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
09:29:22 Building wheels for collected packages: omero-cli-zarr
09:29:22 Building wheel for omero-cli-zarr (pyproject.toml): started
09:29:22 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
09:29:22 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev162+gcab66f1-py3-none-any.whl size=38287 sha256=71b47bed24ba5011bc35ff87e3d74d35bda506c291ef052e774f7fbf407332fd
09:29:22 Stored in directory: /tmp/pip-ephem-wheel-cache-cwr8c5if/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
09:29:22 Successfully built omero-cli-zarr
09:29:23 Installing collected packages: rangehttpserver, zipp, wrapt, typing-extensions, toolz, tifffile, scipy, propcache, networkx, multidict, locket, lazy-loader, jmespath, imageio, google-crc32c, fsspec, frozenlist, donfig, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, yarl, scikit-image, partd, numcodecs, importlib_metadata, Deprecated, botocore, aiosignal, zarr, dask, aiohttp, aiobotocore, s3fs, ome-zarr, omero-cli-zarr
09:29:34
09:29:34 Successfully installed Deprecated-1.3.1 aiobotocore-3.4.0 aiohappyeyeballs-2.6.1 aiohttp-3.13.5 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.42.84 click-8.3.2 cloudpickle-3.1.2 dask-2026.3.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.3.0 google-crc32c-1.8.0 imageio-2.37.3 importlib_metadata-9.0.0 jmespath-1.1.0 lazy-loader-0.5 locket-1.0.0 multidict-6.7.1 networkx-3.6.1 numcodecs-0.16.5 ome-zarr-0.16.0 omero-cli-zarr-0.5.5.dev162+gcab66f1 partd-1.4.2 propcache-0.4.1 rangehttpserver-1.4.0 s3fs-2026.3.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 typing-extensions-4.15.0 wrapt-2.1.2 yarl-1.23.0 zarr-3.1.6 zipp-3.23.1
09:29:34 + pip install omero-certificates
09:29:35 Collecting omero-certificates
09:29:35 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
09:29:35 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.22.1)
09:29:35 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
09:29:35 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
09:29:35 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.4)
09:29:35 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (12.2.0)
09:29:35 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
09:29:35 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)
09:29:35 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.33.1)
09:29:35 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
09:29:35 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.7)
09:29:35 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.11)
09:29:35 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2.6.3)
09:29:35 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.2.25)
09:29:35 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
09:29:35 Installing collected packages: omero-certificates
09:29:35 Successfully installed omero-certificates-0.4.0
09:29:35 + for x in *.tar.gz
09:29:35 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
09:29:35 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
09:29:35 Installing build dependencies: started
09:29:36 Installing build dependencies: finished with status 'done'
09:29:36 Getting requirements to build wheel: started
09:29:36 Getting requirements to build wheel: finished with status 'done'
09:29:36 Preparing metadata (pyproject.toml): started
09:29:36 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:36 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.22.1)
09:29:36 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
09:29:36 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
09:29:36 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.4.4)
09:29:36 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (12.2.0)
09:29:36 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
09:29:36 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)
09:29:36 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.33.1)
09:29:36 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
09:29:36 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.7)
09:29:36 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.11)
09:29:36 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2.6.3)
09:29:36 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.2.25)
09:29:36 Building wheels for collected packages: omero-dropbox
09:29:36 Building wheel for omero-dropbox (pyproject.toml): started
09:29:37 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
09:29:37 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49154 sha256=8ef33b3473e31500caf966939af06fcd8739ce7c5a8f1799a670a532fe114843
09:29:37 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
09:29:37 Successfully built omero-dropbox
09:29:37 Installing collected packages: omero-dropbox
09:29:37 Successfully installed omero-dropbox-5.7.1.dev0
09:29:37 + for x in *.tar.gz
09:29:37 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
09:29:37 Processing ./omero_marshal-0.9.2.dev0.tar.gz
09:29:37 Installing build dependencies: started
09:29:38 Installing build dependencies: finished with status 'done'
09:29:38 Getting requirements to build wheel: started
09:29:38 Getting requirements to build wheel: finished with status 'done'
09:29:38 Preparing metadata (pyproject.toml): started
09:29:39 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:39 Building wheels for collected packages: omero_marshal
09:29:39 Building wheel for omero_marshal (pyproject.toml): started
09:29:39 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
09:29:39 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88131 sha256=8b57876118dcffd04c9fca70d60ca82044a3b7180deb3d4eeb6e66c625202356
09:29:39 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
09:29:39 Successfully built omero_marshal
09:29:39 Installing collected packages: omero_marshal
09:29:39 Successfully installed omero_marshal-0.9.2.dev0
09:29:39 + for x in *.tar.gz
09:29:39 + pip install -U omero_py-5.22.2.dev0.tar.gz
09:29:39 Processing ./omero_py-5.22.2.dev0.tar.gz
09:29:40 Installing build dependencies: started
09:29:40 Installing build dependencies: finished with status 'done'
09:29:40 Getting requirements to build wheel: started
09:29:41 Getting requirements to build wheel: finished with status 'done'
09:29:41 Preparing metadata (pyproject.toml): started
09:29:41 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:41 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.4.4)
09:29:41 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.0.0)
09:29:41 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.4.4)
09:29:41 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (12.2.0)
09:29:41 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (6.0.3)
09:29:41 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.6.5)
09:29:41 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.33.1)
09:29:41 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.2.0)
09:29:41 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.4.7)
09:29:41 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.11)
09:29:41 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2.6.3)
09:29:41 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2026.2.25)
09:29:41 Building wheels for collected packages: omero-py
09:29:41 Building wheel for omero-py (pyproject.toml): started
09:29:42 Building wheel for omero-py (pyproject.toml): finished with status 'done'
09:29:42 Created wheel for omero-py: filename=omero_py-5.22.2.dev0-py3-none-any.whl size=2786692 sha256=478a2260d5cb370ca0dc586b1c368482aeb8c1e879ef0cec106d449e5eac1837
09:29:42 Stored in directory: /home/omero/.cache/pip/wheels/ec/3f/72/4027ca0a7faf1f66d4577cc07619b0497ac8e99396d43dd8fa
09:29:42 Successfully built omero-py
09:29:42 Installing collected packages: omero-py
09:29:42 Attempting uninstall: omero-py
09:29:42 Found existing installation: omero-py 5.22.1
09:29:42 Uninstalling omero-py-5.22.1:
09:29:43 Successfully uninstalled omero-py-5.22.1
09:29:44 Successfully installed omero-py-5.22.2.dev0
09:29:44 + for x in *.tar.gz
09:29:44 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
09:29:45 Processing ./omero_scripts-5.10.1.dev0.tar.gz
09:29:45 Installing build dependencies: started
09:29:46 Installing build dependencies: finished with status 'done'
09:29:46 Getting requirements to build wheel: started
09:29:46 Getting requirements to build wheel: finished with status 'done'
09:29:46 Preparing metadata (pyproject.toml): started
09:29:46 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:46 Building wheels for collected packages: omero-scripts
09:29:46 Building wheel for omero-scripts (pyproject.toml): started
09:29:46 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
09:29:46 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=137001 sha256=f8d7714717a2987722fd2606acc953e5f1317413ca6b4d658ad616e22b7be49d
09:29:46 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
09:29:46 Successfully built omero-scripts
09:29:46 Installing collected packages: omero-scripts
09:29:47 Successfully installed omero-scripts-5.10.1.dev0
09:29:47 + for x in *.tar.gz
09:29:47 + pip install -U omero_web-5.31.1.dev0.tar.gz
09:29:47 Processing ./omero_web-5.31.1.dev0.tar.gz
09:29:47 Installing build dependencies: started
09:29:48 Installing build dependencies: finished with status 'done'
09:29:48 Getting requirements to build wheel: started
09:29:48 Getting requirements to build wheel: finished with status 'done'
09:29:48 Preparing metadata (pyproject.toml): started
09:29:49 Preparing metadata (pyproject.toml): finished with status 'done'
09:29:49 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (5.22.2.dev0)
09:29:49 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.31.1.dev0)
09:29:49 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
09:29:49 Collecting Django<5.3,>=5.2.9 (from omero-web==5.31.1.dev0)
09:29:49 Using cached django-5.2.13-py3-none-any.whl.metadata (4.1 kB)
09:29:49 Collecting django-pipeline>=4.1.0 (from omero-web==5.31.1.dev0)
09:29:49 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
09:29:49 Collecting django-cors-headers==3.7.0 (from omero-web==5.31.1.dev0)
09:29:49 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
09:29:49 Collecting whitenoise>=5.3.0 (from omero-web==5.31.1.dev0)
09:29:49 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
09:29:49 Collecting gunicorn>=19.3 (from omero-web==5.31.1.dev0)
09:29:49 Using cached gunicorn-25.3.0-py3-none-any.whl.metadata (5.5 kB)
09:29:49 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (0.9.2.dev0)
09:29:49 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (12.2.0)
09:29:49 Collecting pytz (from omero-web==5.31.1.dev0)
09:29:49 Using cached pytz-2026.1.post1-py2.py3-none-any.whl.metadata (22 kB)
09:29:49 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (3.2.0)
09:29:49 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.31.1.dev0) (26.1)
09:29:49 Collecting importlib-resources (from omero-web==5.31.1.dev0)
09:29:49 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
09:29:49 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.31.1.dev0)
09:29:49 Using cached asgiref-3.11.1-py3-none-any.whl.metadata (9.3 kB)
09:29:49 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.31.1.dev0)
09:29:49 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
09:29:49 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.31.1.dev0) (65.5.1)
09:29:49 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.31.1.dev0)
09:29:49 Using cached wheel-0.46.3-py3-none-any.whl.metadata (2.4 kB)
09:29:49 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (1.4.4)
09:29:49 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (1.0.0)
09:29:49 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.4.4)
09:29:49 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (6.0.3)
09:29:49 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==5.31.1.dev0) (3.6.5)
09:29:49 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.33.1)
09:29:49 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.4.7)
09:29:49 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (3.11)
09:29:49 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (2.6.3)
09:29:49 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.31.1.dev0) (2026.2.25)
09:29:49 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
09:29:49 Using cached django-5.2.13-py3-none-any.whl (8.3 MB)
09:29:49 Using cached asgiref-3.11.1-py3-none-any.whl (24 kB)
09:29:49 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
09:29:49 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
09:29:49 Using cached gunicorn-25.3.0-py3-none-any.whl (208 kB)
09:29:49 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
09:29:49 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
09:29:49 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
09:29:49 Using cached pytz-2026.1.post1-py2.py3-none-any.whl (510 kB)
09:29:49 Using cached wheel-0.46.3-py3-none-any.whl (30 kB)
09:29:49 Building wheels for collected packages: omero-web
09:29:49 Building wheel for omero-web (pyproject.toml): started
09:29:50 Building wheel for omero-web (pyproject.toml): finished with status 'done'
09:29:50 Created wheel for omero-web: filename=omero_web-5.31.1.dev0-py3-none-any.whl size=2819315 sha256=06970f1c0bae17cba8b9a8b95bfe9345d3c1ac37a9f5b80f1bedf41e9c6601a2
09:29:50 Stored in directory: /home/omero/.cache/pip/wheels/48/a3/5b/968853abf49b64e1726fdb37874d77f08ddad2d06b53de06b3
09:29:50 Successfully built omero-web
09:29:50 Installing collected packages: pytz, whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
09:29:53
09:29:53 Successfully installed Django-5.2.13 asgiref-3.11.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-25.3.0 importlib-resources-7.1.0 omero-web-5.31.1.dev0 pytz-2026.1.post1 sqlparse-0.5.5 wheel-0.46.3 whitenoise-6.12.0
09:29:53 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:29:53 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
09:29:53 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
09:29:53 --2026-04-20 09:29:53-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
09:29:53 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.111.133, 185.199.109.133, ...
09:29:53 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
09:29:53 HTTP request sent, awaiting response... 200 OK
09:29:54 Length: 139338 (136K) [text/plain]
09:29:54 Saving to: ‘Figure_To_Pdf.py’
09:29:54
09:29:54 0K .......... .......... .......... .......... .......... 36% 2.64M 0s
09:29:54 50K .......... .......... .......... .......... .......... 73% 8.83M 0s
09:29:54 100K .......... .......... .......... ...... 100% 4.00M=0.03s
09:29:54
09:29:54 2026-04-20 09:29:54 (4.05 MB/s) - ‘Figure_To_Pdf.py’ saved [139338/139338]
09:29:54
09:29:54 + chmod 755 Figure_To_Pdf.py
09:29:54 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
09:29:54 + omero config set omero.db.name OMERO-server
09:29:56 + omero config set omero.db.host pg
09:29:58 + omero config set omero.db.user postgres
09:30:00 + omero config set omero.data.dir /home/omero/omero-server-data
09:30:02 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
09:30:04 + omero config set omero.db.poolsize 25
09:30:06 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
09:30:08 + omero config set omero.security.trustStorePassword changeit
09:30:10 + omero config set omero.mail.config true
09:30:12 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
09:30:14 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED'
09:30:16 + omero certificates
09:30:17 OpenSSL 3.5.1 1 Jul 2025 (Library: OpenSSL 3.5.1 1 Jul 2025)
09:30:17 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
09:30:18 + '[' false = true ']'
09:30:18 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
09:30:18 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
09:30:18 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG dbcommand => upgrade
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG dbhost => localhost
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG dbname => OMERO-server
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG dbpass => omero
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG dbuser => omero
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG rootpass => omero
09:30:18 2026-04-20 09:30:18,164 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
09:30:18 2026-04-20 09:30:18,164 [omego.extern] INFO Executing : omero version
09:30:19 OMERO.py version:
09:30:19 OMERO.server version:
09:30:19 5.6.3-594-db222df6ad-ice36-b130
09:30:19 5.22.2.dev0
09:30:20 2026-04-20 09:30:20,210 [omego.extern] INFO Completed [2.045 s]
09:30:20 2026-04-20 09:30:20,210 [omego.extern] DEBUG Using omero CLI from omero
09:30:20 2026-04-20 09:30:20,210 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
09:30:20 2026-04-20 09:30:20,210 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:30:20 2026-04-20 09:30:20,210 [omego.extern] INFO Executing : omero config get --show-password
09:30:22 2026-04-20 09:30:22,188 [omego.extern] INFO Completed [1.979 s]
09:30:22 2026-04-20 09:30:22,189 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:30:22 2026-04-20 09:30:22,189 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
09:30:22 2026-04-20 09:30:22,194 [omego.extern] INFO Completed [0.005 s]
09:30:22 2026-04-20 09:30:22,194 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.11\n'
09:30:22 2026-04-20 09:30:22,194 [ omego.db] INFO psql version: psql (PostgreSQL) 16.11
09:30:22
09:30:22 2026-04-20 09:30:22,194 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:30:22 2026-04-20 09:30:22,194 [omego.extern] INFO Executing : omero config get --show-password
09:30:24 2026-04-20 09:30:24,161 [omego.extern] INFO Completed [1.967 s]
09:30:24 2026-04-20 09:30:24,161 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:30:24 2026-04-20 09:30:24,161 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
09:30:24 2026-04-20 09:30:24,170 [omego.extern] INFO Completed [0.009 s]
09:30:24 2026-04-20 09:30:24,170 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.4") at port "5432".\n'
09:30:24 2026-04-20 09:30:24,170 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
09:30:24 2026-04-20 09:30:24,170 [omego.extern] INFO Running [current environment]: omero config get --show-password
09:30:24 2026-04-20 09:30:24,171 [omego.extern] INFO Executing : omero config get --show-password
09:30:26 2026-04-20 09:30:26,220 [omego.extern] INFO Completed [2.049 s]
09:30:26 2026-04-20 09:30:26,220 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
09:30:26 2026-04-20 09:30:26,220 [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
09:30:26 2026-04-20 09:30:26,230 [omego.extern] INFO Completed [0.010 s]
09:30:26 2026-04-20 09:30:26,230 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
09:30:26 2026-04-20 09:30:26,230 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
09:30:26 2026-04-20 09:30:26,232 [ omego.db] INFO Database is already at OMERO5.4__0
09:30:26 + export LANG=en_US.UTF-8
09:30:26 + LANG=en_US.UTF-8
09:30:26 + export LANGUAGE=en_US:en
09:30:26 + LANGUAGE=en_US:en
09:30:26 + export LC_ALL=en_US.UTF-8
09:30:26 + LC_ALL=en_US.UTF-8
09:30:26 + BUILD_ID=DONT_KILL_ME
09:30:26 + omero admin start
09:30:31 No descriptor given. Using etc/grid/default.xml
09:30:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
09:30:39 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
09:30:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
09:30:39 Waiting on startup. Use CTRL-C to exit
09:30:39 + omero admin waitup
09:30:41 Waiting on startup. Use CTRL-C to exit
09:30:41 + omero admin diagnostics
09:30:43
09:30:43 ================================================================================
09:30:43 OMERO Diagnostics (admin)
09:30:43 ================================================================================
09:30:43
09:30:43 Commands: java -version 17.0.17 (/usr/bin/java)
09:30:43 Commands: python -V 3.11.13 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
09:30:43 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
09:30:43 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
09:30:43 Commands: psql --version 16.11 (/usr/bin/psql)
09:30:43 Commands: openssl version 3.5.11 (/usr/bin/openssl)
09:30:43
09:30:43 Component: OMERO.py 5.22.2.dev0
09:30:43 Component: OMERO.server 5.6.3-594-db222df6ad-ice36-b130
09:30:43
09:30:43 Server: icegridnode running
09:30:43 Server: Blitz-0 active (pid = 53080, enabled)
09:30:43 Server: Indexer-0 activating (enabled)
09:30:43 Server: OMERO.Glacier2 active (pid = 53114, enabled)
09:30:43 Server: OMERO.IceStorm active (pid = 53143, enabled)
09:30:43 Server: Processor-0 active (pid = 53131, enabled)
09:30:43 Server: Tables-0 active (pid = 53144, enabled)
09:30:43
09:30:43 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
09:30:43 Log files: Blitz-0.log 33.7 KB errors=0 warnings=1
09:30:43 Log files: DropBox.log n/a
09:30:43 Log files: FileServer.log n/a
09:30:43 Log files: Indexer-0.log 598 B
09:30:43 Log files: MonitorServer.log n/a
09:30:43 Log files: Processor-0.log 735 B
09:30:43 Log files: Tables-0.log 961 B
09:30:43 Log files: TestDropBox.log n/a
09:30:43 Log files: master.err empty
09:30:43 Log files: master.out 30.5 KB
09:30:43 Log files: Total size 0.07 MB
09:30:43
09:30:43
09:30:43 Environment:OMERO_HOME=(unset)
09:30:43 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
09:30:43 Environment:OMERO_NODE=(unset)
09:30:43 Environment:OMERO_MASTER=(unset)
09:30:43 Environment:OMERO_USERDIR=(unset)
09:30:43 Environment:OMERO_TMPDIR=(unset)
09:30:43 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
09:30:43 Environment:PYTHONPATH=(unset)
09:30:43 Environment:ICE_HOME=/opt/ice-3.6.5
09:30:43 Environment:LD_LIBRARY_PATH=(unset)
09:30:43 Environment:DYLD_LIBRARY_PATH=(unset)
09:30:43
09:30:43 OMERO SSL port:4064
09:30:43 OMERO TCP port:4063
09:30:43 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
09:30:43 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
09:30:43
09:30:43 JVM settings: Blitz-${index} -Xmx7200m
09:30:43 JVM settings: Indexer-${index} -Xmx4800m
09:30:43 JVM settings: PixelData-${index} -Xmx7200m
09:30:43 JVM settings: Repository-${index} -Xmx4800m
09:30:43
09:30:43 Jar: lib/server/formats-api.jar Bio-Formats API 8.6.0-SNAPSHOT 20 April 2026 e3d8f040fd499478190bf235d4db00c4895e704e
09:30:43 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.6.0-SNAPSHOT 20 April 2026 e3d8f040fd499478190bf235d4db00c4895e704e
09:30:43 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.6.0-SNAPSHOT 20 April 2026 e3d8f040fd499478190bf235d4db00c4895e704e
09:30:43 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.4-SNAPSHOT 20 April 2026 244248c56161e89a51bf27d9dfe6b5ac7421c622
09:30:43 Jar: lib/server/ome-common.jar OME Common Java 6.2.2-SNAPSHOT 20 April 2026 244248c56161e89a51bf27d9dfe6b5ac7421c622
09:30:43 Jar: lib/server/ome-jai.jar OME JAI 0.1.6-SNAPSHOT 20 April 2026 244248c56161e89a51bf27d9dfe6b5ac7421c622
09:30:43 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.5-SNAPSHOT 20 April 2026 244248c56161e89a51bf27d9dfe6b5ac7421c622
09:30:43 Jar: lib/server/ome-poi.jar OME POI 5.3.11-SNAPSHOT 20 April 2026 244248c56161e89a51bf27d9dfe6b5ac7421c622
09:30:43 Jar: lib/server/ome-xml.jar OME XML library 6.5.4-SNAPSHOT 20 April 2026 244248c56161e89a51bf27d9dfe6b5ac7421c622
09:30:44 Jar: lib/server/omero-blitz.jar jar 5.8.5-SNAPSHOT
09:30:44 Jar: lib/server/omero-common.jar jar 5.7.6-SNAPSHOT
09:30:44 Jar: lib/server/omero-gateway.jar jar 5.10.6-SNAPSHOT
09:30:44 Jar: lib/server/omero-model.jar jar 5.7.6-SNAPSHOT
09:30:44 Jar: lib/server/omero-renderer.jar jar 5.6.5-SNAPSHOT
09:30:44 Jar: lib/server/omero-romio.jar jar 5.8.6-SNAPSHOT
09:30:44 Jar: lib/server/omero-server.jar jar 5.7.5-SNAPSHOT
09:30:44 + deactivate
09:30:44 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
09:30:44 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
09:30:44 + export PATH
09:30:44 + unset _OLD_VIRTUAL_PATH
09:30:44 + '[' -n '' ']'
09:30:44 + hash -r
09:30:44 + '[' -n '' ']'
09:30:44 + unset VIRTUAL_ENV
09:30:44 + unset VIRTUAL_ENV_PROMPT
09:30:44 + '[' '!' '' = nondestructive ']'
09:30:44 + unset -f deactivate
09:30:44 Finished: SUCCESS
