14:01:28 Started by user devspace
14:01:28 Running as SYSTEM
14:01:28 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
14:01:28 [OMERO-server] $ /bin/bash -xe /tmp/jenkins10406877065650635953.sh
14:01:28 + source /home/settings.env
14:01:28 ++ OMERO_DB_HOST=pg
14:01:28 ++ OMERO_DB_USER=postgres
14:01:28 ++ OMERO_DB_PASS=
14:01:28 ++ OMERO_ROOT_PASS=omero
14:01:28 ++ OMERO_DATA_DIR=/OMERO
14:01:28 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:01:28 + OMERO_DB_NAME=OMERO-server
14:01:28 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:01:28 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:01:28 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:01:28 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:01:28 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
14:01:28 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
14:01:28 ++ deactivate nondestructive
14:01:28 ++ '[' -n '' ']'
14:01:28 ++ '[' -n '' ']'
14:01:28 ++ hash -r
14:01:28 ++ '[' -n '' ']'
14:01:28 ++ unset VIRTUAL_ENV
14:01:28 ++ unset VIRTUAL_ENV_PROMPT
14:01:28 ++ '[' '!' nondestructive = nondestructive ']'
14:01:28 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
14:01:28 ++ export VIRTUAL_ENV
14:01:28 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:01:28 ++ 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
14:01:28 ++ export PATH
14:01:28 ++ '[' -n '' ']'
14:01:28 ++ '[' -z '' ']'
14:01:28 ++ _OLD_VIRTUAL_PS1=
14:01:28 ++ PS1='(.venv3) '
14:01:28 ++ export PS1
14:01:28 ++ VIRTUAL_ENV_PROMPT='(.venv3) '
14:01:28 ++ export VIRTUAL_ENV_PROMPT
14:01:28 ++ hash -r
14:01:28 + omero admin stop
14:01:34 Server not running
14:01:35 + echo not running
14:01:35 not running
14:01:35 + sleep 5
14:01:40 + deactivate
14:01:40 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
14:01:40 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
14:01:40 + export PATH
14:01:40 + unset _OLD_VIRTUAL_PATH
14:01:40 + '[' -n '' ']'
14:01:40 + hash -r
14:01:40 + '[' -n '' ']'
14:01:40 + unset VIRTUAL_ENV
14:01:40 + unset VIRTUAL_ENV_PROMPT
14:01:40 + '[' '!' '' = nondestructive ']'
14:01:40 + unset -f deactivate
14:01:40 + rm -rf /home/omero/workspace/OMERO-server/.venv3
14:03:09 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3
14:03:29 + '[' false = true ']'
14:03:29 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
14:03:29 Skipping PURGE_DATA:CleanDbAndRepo
14:03:29 + 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-5.22.2.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-5.32.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
14:03:33 Copied 1 artifact from "OMERO-build" build number 2
14:03:34 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 1
14:03:34 Copied 2 artifacts from "OMERO-build-build" build number 9
14:03:34 Copied 1 artifact from "OMERO-zarr-pixel-buffer-build" build number 1
14:03:34 [OMERO-server] $ /bin/bash -xe /tmp/jenkins5721664216026594672.sh
14:03:34 + source /home/settings.env
14:03:34 ++ OMERO_DB_HOST=pg
14:03:34 ++ OMERO_DB_USER=postgres
14:03:34 ++ OMERO_DB_PASS=
14:03:34 ++ OMERO_ROOT_PASS=omero
14:03:34 ++ OMERO_DATA_DIR=/OMERO
14:03:34 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
14:03:34 + OMERO_DB_NAME=OMERO-server
14:03:34 + OMERO_DATA_DIR=/home/omero/omero-server-data
14:03:34 + mkdir -p /home/omero/omero-server-data
14:03:34 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
14:03:34 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:03:34 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
14:03:34 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:03:34 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
14:03:34 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:03:34 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
14:03:34 ++ ls OMERO.server-5.6.3-614-b7d1771417-ice36-b2.zip
14:03:34 + ZIP=OMERO.server-5.6.3-614-b7d1771417-ice36-b2.zip
14:03:34 + '[' '!' -z '' ']'
14:03:34 + DIST=OMERO.server-5.6.3-614-b7d1771417-ice36-b2
14:03:34 + unzip OMERO.server-5.6.3-614-b7d1771417-ice36-b2.zip
14:03:34 Archive: OMERO.server-5.6.3-614-b7d1771417-ice36-b2.zip
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/blitz/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/grid/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/profiles/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/error/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/grid/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/luts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/luts/janelia/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/luts/matplotlib/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/luts/ncsa_paledit/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/luts/seaborn/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/luts/wcif/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/analysis_scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/annotation_scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/export_scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/figure_scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/import_scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/scripts/omero/util_scripts/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/server/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/share/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/share/licenses/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/misc/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__1/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__10/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__11/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__2/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__3/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__4/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__5/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__6/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__7/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__8/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3A__9/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3__4/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3__5/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3__6/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO3__7/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO4.1__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO4.2__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO4.2__0/t/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO4.3__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO4.4__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO4__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.0__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.1__1/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.2__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.3__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4DEV__1/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4DEV__2/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4DEV__3/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/var/
14:03:34 creating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/var/tmp/
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/LICENSE.txt
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/backup.cfg
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/blitz/mail-senders.example
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/blitz/mail-server.example
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/build.properties
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/env.bat
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/env.sh
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/hibernate.properties
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/ice.config
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/logback-cli.xml
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/logback-indexing-cli.xml
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/logback-indexing.xml
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/logback.xml
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/mime.types
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/node1.cfg
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/node2.cfg
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/omero.properties
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/profiles/psql
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/rollover.cfg
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/Windows.cfg
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/error/maintainance.html
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/grid/README
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/grid/default.xml
14:03:34 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/grid/templates.xml
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/grid/windefault.xml
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/ice.config
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/internal.cfg
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/master.cfg
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/templates/robot.template
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/etc/testdropbox.config
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/history.rst
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/OMEZarrReader.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/accessors-smart.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/activation.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/aggdesigner-algorithm.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/aircompressor.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/antlr.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/aopalliance.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/apiguardian-api.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/asm.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/avatica-core.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/avatica-metrics.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/aws-java-sdk-core.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/aws-java-sdk-kms.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/aws-java-sdk-s3.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/base.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-anim.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-awt-util.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-bridge.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-codec.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-constants.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-css.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-dom.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-ext.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-gvt.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-i18n.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-parser.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-script.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-shared-resources.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-svg-dom.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-svggen.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-transcoder.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-util.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/batik-xml.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/btm.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/calcite-core.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/calcite-linq4j.jar
14:03:35 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/cdm-core.jar
14:03:36 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/lib/client/checker-qual.jar
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14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/psql-footer.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/psql-header.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/schema.sql
14:03:46 inflating: OMERO.server-5.6.3-614-b7d1771417-ice36-b2/sql/psql/OMERO5.4__0/views.sql
14:03:46 + rm -f OMERO.server-5.6.3-614-b7d1771417-ice36-b2.zip
14:03:46 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-614-b7d1771417-ice36-b2 /home/omero/workspace/OMERO-server/OMERO.server
14:03:46 + for x in *.jar
14:03:46 + mv omero-zarr-pixel-buffer-0.7.1-SNAPSHOT.jar /home/omero/workspace/OMERO-server/OMERO.server/lib/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-26.1.2-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
14:04:02 Successfully installed pip-26.1.2
14:04:02 + 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
14:04:03 Collecting zeroc-ice==3.6.5
14:04:03 Downloading zeroc_ice-3.6.5-cp311-cp311-manylinux_2_28_x86_64.whl (37.3 MB)
14:04:05 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 19.9 MB/s 0:00:01
14:04:05 Installing collected packages: zeroc-ice
14:04:09 Successfully installed zeroc-ice-3.6.5
14:04:09 + pip install markdown
14:04:10 Collecting markdown
14:04:10 Using cached markdown-3.10.2-py3-none-any.whl.metadata (5.1 kB)
14:04:10 Using cached markdown-3.10.2-py3-none-any.whl (108 kB)
14:04:10 Installing collected packages: markdown
14:04:11 Successfully installed markdown-3.10.2
14:04:11 + pip install reportlab
14:04:11 Collecting reportlab
14:04:11 Using cached reportlab-5.0.0-py3-none-any.whl.metadata (1.6 kB)
14:04:12 Collecting pillow>=9.0.0 (from reportlab)
14:04:12 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.1 kB)
14:04:12 Collecting charset-normalizer (from reportlab)
14:04:12 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)
14:04:12 Using cached reportlab-5.0.0-py3-none-any.whl (2.0 MB)
14:04:12 Using cached pillow-12.3.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (6.9 MB)
14:04:12 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)
14:04:12 Installing collected packages: pillow, charset-normalizer, reportlab
14:04:20
14:04:20 Successfully installed charset-normalizer-3.4.7 pillow-12.3.0 reportlab-5.0.0
14:04:20 + pip install omego
14:04:21 Collecting omego
14:04:21 Using cached omego-0.8.0-py3-none-any.whl.metadata (1.9 kB)
14:04:21 Collecting future (from omego)
14:04:21 Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB)
14:04:21 Collecting yaclifw>=0.1.1 (from omego)
14:04:21 Using cached yaclifw-0.2.0-py3-none-any.whl
14:04:21 Collecting six (from yaclifw>=0.1.1->omego)
14:04:21 Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
14:04:21 Using cached omego-0.8.0-py3-none-any.whl (41 kB)
14:04:21 Using cached future-1.0.0-py3-none-any.whl (491 kB)
14:04:21 Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
14:04:21 Installing collected packages: six, future, yaclifw, omego
14:04:27
14:04:27 Successfully installed future-1.0.0 omego-0.8.0 six-1.17.0 yaclifw-0.2.0
14:04:27 + pip install tables
14:04:27 Collecting tables
14:04:27 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)
14:04:28 Collecting numpy>=1.20.0 (from tables)
14:04:28 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
14:04:28 Collecting numexpr>=2.6.2 (from tables)
14:04:28 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (9.0 kB)
14:04:28 Collecting packaging (from tables)
14:04:28 Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
14:04:28 Collecting py-cpuinfo (from tables)
14:04:28 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
14:04:28 Collecting blosc2>=2.3.0 (from tables)
14:04:28 Using cached blosc2-4.7.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (7.8 kB)
14:04:28 Collecting ndindex (from blosc2>=2.3.0->tables)
14:04:28 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (3.6 kB)
14:04:28 Collecting msgpack (from blosc2>=2.3.0->tables)
14:04:28 Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
14:04:28 Collecting pydantic (from blosc2>=2.3.0->tables)
14:04:28 Using cached pydantic-2.13.4-py3-none-any.whl.metadata (109 kB)
14:04:28 Collecting requests (from blosc2>=2.3.0->tables)
14:04:28 Using cached requests-2.34.2-py3-none-any.whl.metadata (4.8 kB)
14:04:29 Collecting rich (from blosc2>=2.3.0->tables)
14:04:29 Using cached rich-15.0.0-py3-none-any.whl.metadata (18 kB)
14:04:29 Collecting threadpoolctl (from blosc2>=2.3.0->tables)
14:04:29 Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
14:04:29 Collecting annotated-types>=0.6.0 (from pydantic->blosc2>=2.3.0->tables)
14:04:29 Using cached annotated_types-0.7.0-py3-none-any.whl.metadata (15 kB)
14:04:29 Collecting pydantic-core==2.46.4 (from pydantic->blosc2>=2.3.0->tables)
14:04:29 Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB)
14:04:29 Collecting typing-extensions>=4.14.1 (from pydantic->blosc2>=2.3.0->tables)
14:04:29 Using cached typing_extensions-4.16.0-py3-none-any.whl.metadata (3.3 kB)
14:04:29 Collecting typing-inspection>=0.4.2 (from pydantic->blosc2>=2.3.0->tables)
14:04:29 Using cached typing_inspection-0.4.2-py3-none-any.whl.metadata (2.6 kB)
14:04:29 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->blosc2>=2.3.0->tables) (3.4.7)
14:04:30 Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables)
14:04:30 Using cached idna-3.18-py3-none-any.whl.metadata (6.1 kB)
14:04:30 Collecting urllib3<3,>=1.26 (from requests->blosc2>=2.3.0->tables)
14:04:30 Using cached urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB)
14:04:30 Collecting certifi>=2023.5.7 (from requests->blosc2>=2.3.0->tables)
14:04:30 Using cached certifi-2026.6.17-py3-none-any.whl.metadata (2.5 kB)
14:04:30 Collecting markdown-it-py>=2.2.0 (from rich->blosc2>=2.3.0->tables)
14:04:30 Using cached markdown_it_py-4.2.0-py3-none-any.whl.metadata (7.4 kB)
14:04:30 Collecting pygments<3.0.0,>=2.13.0 (from rich->blosc2>=2.3.0->tables)
14:04:30 Using cached pygments-2.20.0-py3-none-any.whl.metadata (2.5 kB)
14:04:30 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich->blosc2>=2.3.0->tables)
14:04:30 Using cached mdurl-0.1.2-py3-none-any.whl.metadata (1.6 kB)
14:04:30 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)
14:04:30 Using cached blosc2-4.7.0-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (6.8 MB)
14:04:30 Using cached numexpr-2.14.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (442 kB)
14:04:30 Using cached numpy-2.4.6-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.9 MB)
14:04:30 Using cached msgpack-1.2.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (423 kB)
14:04:30 Using cached ndindex-1.10.1-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (516 kB)
14:04:30 Using cached packaging-26.2-py3-none-any.whl (100 kB)
14:04:30 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
14:04:30 Using cached pydantic-2.13.4-py3-none-any.whl (472 kB)
14:04:30 Using cached pydantic_core-2.46.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
14:04:30 Using cached annotated_types-0.7.0-py3-none-any.whl (13 kB)
14:04:30 Using cached typing_extensions-4.16.0-py3-none-any.whl (45 kB)
14:04:30 Using cached typing_inspection-0.4.2-py3-none-any.whl (14 kB)
14:04:30 Using cached requests-2.34.2-py3-none-any.whl (73 kB)
14:04:30 Using cached idna-3.18-py3-none-any.whl (65 kB)
14:04:30 Using cached urllib3-2.7.0-py3-none-any.whl (131 kB)
14:04:30 Using cached certifi-2026.6.17-py3-none-any.whl (133 kB)
14:04:30 Using cached rich-15.0.0-py3-none-any.whl (310 kB)
14:04:30 Using cached pygments-2.20.0-py3-none-any.whl (1.2 MB)
14:04:30 Using cached markdown_it_py-4.2.0-py3-none-any.whl (91 kB)
14:04:30 Using cached mdurl-0.1.2-py3-none-any.whl (10.0 kB)
14:04:30 Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
14:04:30 Installing collected packages: py-cpuinfo, urllib3, typing-extensions, threadpoolctl, pygments, packaging, numpy, ndindex, msgpack, mdurl, idna, certifi, annotated-types, typing-inspection, requests, pydantic-core, numexpr, markdown-it-py, rich, pydantic, blosc2, tables
14:05:12
14:05:12 Successfully installed annotated-types-0.7.0 blosc2-4.7.0 certifi-2026.6.17 idna-3.18 markdown-it-py-4.2.0 mdurl-0.1.2 msgpack-1.2.1 ndindex-1.10.1 numexpr-2.14.1 numpy-2.4.6 packaging-26.2 py-cpuinfo-9.0.0 pydantic-2.13.4 pydantic-core-2.46.4 pygments-2.20.0 requests-2.34.2 rich-15.0.0 tables-3.11.1 threadpoolctl-3.6.0 typing-extensions-4.16.0 typing-inspection-0.4.2 urllib3-2.7.0
14:05:12 + pip install jinja2
14:05:13 Collecting jinja2
14:05:13 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
14:05:13 Collecting MarkupSafe>=2.0 (from jinja2)
14:05:13 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)
14:05:13 Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
14:05:13 Using cached markupsafe-3.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (22 kB)
14:05:14 Installing collected packages: MarkupSafe, jinja2
14:05:15
14:05:15 Successfully installed MarkupSafe-3.0.3 jinja2-3.1.6
14:05:15 + pip install omero-py
14:05:16 Collecting omero-py
14:05:16 Using cached omero_py-5.22.1-py3-none-any.whl.metadata (6.5 kB)
14:05:16 Collecting appdirs (from omero-py)
14:05:16 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
14:05:16 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0)
14:05:16 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.4.6)
14:05:16 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (12.3.0)
14:05:16 Collecting PyYAML (from omero-py)
14:05:16 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)
14:05:16 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5)
14:05:16 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.34.2)
14:05:16 Collecting portalocker (from omero-py)
14:05:16 Using cached portalocker-3.2.0-py3-none-any.whl.metadata (8.7 kB)
14:05:16 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.7)
14:05:16 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.18)
14:05:16 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2.7.0)
14:05:16 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2026.6.17)
14:05:16 Using cached omero_py-5.22.1-py3-none-any.whl (2.8 MB)
14:05:16 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
14:05:16 Using cached portalocker-3.2.0-py3-none-any.whl (22 kB)
14:05:16 Using cached pyyaml-6.0.3-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (806 kB)
14:05:16 Installing collected packages: appdirs, PyYAML, portalocker, omero-py
14:05:34
14:05:34 Successfully installed PyYAML-6.0.3 appdirs-1.4.4 omero-py-5.22.1 portalocker-3.2.0
14:05:34 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
14:05:35 Collecting omero-metadata
14:05:35 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-xim69ygl/omero-metadata_ed9c0d81c40246d1b60c00c6ae3221fc
14:05:35 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-xim69ygl/omero-metadata_ed9c0d81c40246d1b60c00c6ae3221fc
14:05:36 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 9588d7e4152c26ee74bcd4ccb828a95185c32a7b
14:05:36 Installing build dependencies: started
14:05:37 Installing build dependencies: finished with status 'done'
14:05:37 Getting requirements to build wheel: started
14:05:38 Getting requirements to build wheel: finished with status 'done'
14:05:38 Preparing metadata (pyproject.toml): started
14:05:38 Preparing metadata (pyproject.toml): finished with status 'done'
14:05:38 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.22.1)
14:05:38 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.3)
14:05:38 Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6)
14:05:38 Collecting pandas (from omero-metadata)
14:05:38 Using cached pandas-3.0.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (79 kB)
14:05:38 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
14:05:38 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
14:05:38 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.4.6)
14:05:38 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)
14:05:38 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)
14:05:38 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.34.2)
14:05:38 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.2.0)
14:05:38 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.3)
14:05:38 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
14:05:38 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
14:05:38 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)
14:05:38 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)
14:05:38 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.18)
14:05:38 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)
14:05:38 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2026.6.17)
14:05:38 Using cached pandas-3.0.3-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (11.3 MB)
14:05:38 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
14:05:38 Building wheels for collected packages: omero-metadata
14:05:38 Building wheel for omero-metadata (pyproject.toml): started
14:05:39 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
14:05:39 Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39373 sha256=a96f5c59899b559f4308fbb9f13ff7dc3315753e355fce46e488ecd1c790cf53
14:05:39 Stored in directory: /tmp/pip-ephem-wheel-cache-culygwrf/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b
14:05:39 Successfully built omero-metadata
14:05:39 Installing collected packages: python-dateutil, pandas, omero-metadata
14:06:18
14:06:18 Successfully installed omero-metadata-0.13.1.dev0 pandas-3.0.3 python-dateutil-2.9.0.post0
14:06:18 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
14:06:19 Collecting omero-cli-render
14:06:19 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-aqf3uop5/omero-cli-render_bcc293da6e774d3aa923a512557035fe
14:06:19 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-aqf3uop5/omero-cli-render_bcc293da6e774d3aa923a512557035fe
14:06:20 Running command git checkout -b merge_ci --track origin/merge_ci
14:06:20 Switched to a new branch 'merge_ci'
14:06:20 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:06:20 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 23d2d55d97ce42d2a31619c0a0b97e80d9109070
14:06:20 Installing build dependencies: started
14:06:22 Installing build dependencies: finished with status 'done'
14:06:22 Getting requirements to build wheel: started
14:06:22 Getting requirements to build wheel: finished with status 'done'
14:06:22 Preparing metadata (pyproject.toml): started
14:06:22 Preparing metadata (pyproject.toml): finished with status 'done'
14:06:22 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.3)
14:06:22 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.22.1)
14:06:22 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
14:06:22 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
14:06:22 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)
14:06:22 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)
14:06:22 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)
14:06:22 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.34.2)
14:06:22 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.2.0)
14:06:22 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)
14:06:22 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.18)
14:06:22 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)
14:06:22 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2026.6.17)
14:06:22 Building wheels for collected packages: omero-cli-render
14:06:22 Building wheel for omero-cli-render (pyproject.toml): started
14:06:23 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
14:06:23 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19838 sha256=a59063c06a5ff9c731f5e76a6c216b96fde63b0540d9cba7b509589d4c03a4a1
14:06:23 Stored in directory: /tmp/pip-ephem-wheel-cache-mcqar_fc/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee
14:06:23 Successfully built omero-cli-render
14:06:23 Installing collected packages: omero-cli-render
14:06:23 Successfully installed omero-cli-render-0.8.2.dev0
14:06:23 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
14:06:24 Collecting omero-cli-duplicate
14:06:24 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-ilvpb8q9/omero-cli-duplicate_b8532c98c84c47f7b8b05c04ef2ef5ba
14:06:24 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-ilvpb8q9/omero-cli-duplicate_b8532c98c84c47f7b8b05c04ef2ef5ba
14:06:25 Running command git checkout -b merge_ci --track origin/merge_ci
14:06:25 Switched to a new branch 'merge_ci'
14:06:25 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:06:25 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 42072ce7ddf58526c26735240d703594c4271806
14:06:25 Installing build dependencies: started
14:06:26 Installing build dependencies: finished with status 'done'
14:06:26 Getting requirements to build wheel: started
14:06:26 Getting requirements to build wheel: finished with status 'done'
14:06:26 Preparing metadata (pyproject.toml): started
14:06:27 Preparing metadata (pyproject.toml): finished with status 'done'
14:06:27 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.22.1)
14:06:27 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
14:06:27 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
14:06:27 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.4.6)
14:06:27 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)
14:06:27 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.3)
14:06:27 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)
14:06:27 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.34.2)
14:06:27 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.2.0)
14:06:27 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)
14:06:27 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.18)
14:06:27 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)
14:06:27 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2026.6.17)
14:06:27 Building wheels for collected packages: omero-cli-duplicate
14:06:27 Building wheel for omero-cli-duplicate (pyproject.toml): started
14:06:27 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
14:06:27 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11538 sha256=6e8503b8ada14d0f5a437173708b6729abf534aca873c52f44eb5d784cbbb967
14:06:27 Stored in directory: /tmp/pip-ephem-wheel-cache-f8a7zjki/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46
14:06:27 Successfully built omero-cli-duplicate
14:06:27 Installing collected packages: omero-cli-duplicate
14:06:27 Successfully installed omero-cli-duplicate-0.4.1.dev0
14:06:27 + pip install git+https://github.com/snoopycrimecop/omero-cli-zarr.git@merge_ci#egg=omero-cli-zarr
14:06:28 Collecting omero-cli-zarr
14:06:28 Cloning https://github.com/snoopycrimecop/omero-cli-zarr.git (to revision merge_ci) to /tmp/pip-install-w8viovh8/omero-cli-zarr_6c95ed39889543939d4d289acdb17806
14:06:28 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-zarr.git /tmp/pip-install-w8viovh8/omero-cli-zarr_6c95ed39889543939d4d289acdb17806
14:06:29 Running command git checkout -b merge_ci --track origin/merge_ci
14:06:29 Switched to a new branch 'merge_ci'
14:06:29 branch 'merge_ci' set up to track 'origin/merge_ci'.
14:06:29 Resolved https://github.com/snoopycrimecop/omero-cli-zarr.git to commit 018fb77e1d941a36c7acb85898c6ba659530e36e
14:06:29 Installing build dependencies: started
14:06:31 Installing build dependencies: finished with status 'done'
14:06:31 Getting requirements to build wheel: started
14:06:31 Getting requirements to build wheel: finished with status 'done'
14:06:31 Installing backend dependencies: started
14:06:32 Installing backend dependencies: finished with status 'done'
14:06:32 Preparing metadata (pyproject.toml): started
14:06:33 Preparing metadata (pyproject.toml): finished with status 'done'
14:06:33 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.22.1)
14:06:33 Collecting ome-zarr>=0.13.0 (from omero-cli-zarr)
14:06:33 Using cached ome_zarr-0.18.0-py3-none-any.whl.metadata (2.9 kB)
14:06:33 Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.4.6)
14:06:33 Collecting dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:33 Using cached dask-2026.7.0-py3-none-any.whl.metadata (3.8 kB)
14:06:33 Collecting zarr>=3.0.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:33 Using cached zarr-3.1.6-py3-none-any.whl.metadata (8.6 kB)
14:06:33 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)
14:06:33 Using cached fsspec-2026.6.0-py3-none-any.whl.metadata (10 kB)
14:06:34 Collecting aiohttp (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached aiohttp-3.14.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (8.3 kB)
14:06:34 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.13.0->omero-cli-zarr) (2.34.2)
14:06:34 Collecting scikit-image>=0.19.0 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB)
14:06:34 Collecting toolz (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached toolz-1.1.0-py3-none-any.whl.metadata (5.1 kB)
14:06:34 Collecting rangehttpserver (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl.metadata (769 bytes)
14:06:34 Collecting ome-zarr-models>=1.6 (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached ome_zarr_models-1.7-py3-none-any.whl.metadata (3.0 kB)
14:06:34 Collecting Deprecated (from ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached deprecated-1.3.1-py2.py3-none-any.whl.metadata (5.9 kB)
14:06:34 Collecting click>=8.1 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached click-8.4.2-py3-none-any.whl.metadata (2.6 kB)
14:06:34 Collecting cloudpickle>=3.0.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached cloudpickle-3.1.2-py3-none-any.whl.metadata (7.1 kB)
14:06:34 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) (26.2)
14:06:34 Collecting partd>=1.4.0 (from dask!=2025.12.*,!=2026.1.*,!=2026.2.*,>=2025.2.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB)
14:06:34 Requirement already satisfied: pyyaml>=5.4.1 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)
14:06:34 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)
14:06:34 Using cached importlib_metadata-9.0.0-py3-none-any.whl.metadata (4.5 kB)
14:06:34 Collecting s3fs>2024.2.0 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached s3fs-2026.6.0-py3-none-any.whl.metadata (1.2 kB)
14:06:34 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)
14:06:34 Using cached zipp-4.1.0-py3-none-any.whl.metadata (3.6 kB)
14:06:34 Collecting pydantic-zarr>=0.8.2 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:34 Using cached pydantic_zarr-0.9.2-py3-none-any.whl.metadata (4.0 kB)
14:06:35 Collecting pydantic<2.13,>=2.11.5 (from ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:35 Using cached pydantic-2.12.5-py3-none-any.whl.metadata (90 kB)
14:06:35 Requirement already satisfied: annotated-types>=0.6.0 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (0.7.0)
14:06:35 Collecting pydantic-core==2.41.5 (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:35 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.3 kB)
14:06:35 Requirement already satisfied: typing-extensions>=4.14.1 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (4.16.0)
14:06:35 Requirement already satisfied: typing-inspection>=0.4.2 in ./.venv3/lib64/python3.11/site-packages (from pydantic<2.13,>=2.11.5->ome-zarr-models>=1.6->ome-zarr>=0.13.0->omero-cli-zarr) (0.4.2)
14:06:35 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4)
14:06:35 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0)
14:06:35 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (12.3.0)
14:06:35 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.6.5)
14:06:35 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.2.0)
14:06:35 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)
14:06:35 Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB)
14:06:36 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)
14:06:36 Using cached aiobotocore-3.7.0-py3-none-any.whl.metadata (28 kB)
14:06:36 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)
14:06:36 Using cached aioitertools-0.13.0-py3-none-any.whl.metadata (3.3 kB)
14:06:36 Collecting botocore<1.43.1,>=1.42.90 (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)
14:06:36 Using cached botocore-1.43.0-py3-none-any.whl.metadata (5.5 kB)
14:06:36 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)
14:06:36 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)
14:06:36 Using cached jmespath-1.1.0-py3-none-any.whl.metadata (7.6 kB)
14:06:36 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)
14:06:36 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)
14:06:36 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)
14:06:36 Using cached wrapt-2.2.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl.metadata (7.4 kB)
14:06:37 Collecting aiohappyeyeballs>=2.5.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl.metadata (5.9 kB)
14:06:37 Collecting aiosignal>=1.4.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached aiosignal-1.4.0-py3-none-any.whl.metadata (3.7 kB)
14:06:37 Collecting attrs>=17.3.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached attrs-26.1.0-py3-none-any.whl.metadata (8.8 kB)
14:06:37 Collecting frozenlist>=1.1.1 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 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)
14:06:37 Collecting propcache>=0.2.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (16 kB)
14:06:37 Collecting yarl<2.0,>=1.17.0 (from aiohttp->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached yarl-1.24.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (94 kB)
14:06:37 Requirement already satisfied: urllib3!=2.2.0,<3,>=1.25.4 in ./.venv3/lib64/python3.11/site-packages (from botocore<1.43.1,>=1.42.90->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) (2.7.0)
14:06:37 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)
14:06:37 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) (3.18)
14:06:37 Collecting scipy>=1.11.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (62 kB)
14:06:37 Collecting networkx>=3.0 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached networkx-3.6.1-py3-none-any.whl.metadata (6.8 kB)
14:06:37 Collecting imageio!=2.35.0,>=2.33 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:37 Using cached imageio-2.37.3-py3-none-any.whl.metadata (9.7 kB)
14:06:38 Collecting tifffile>=2022.8.12 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:38 Using cached tifffile-2026.3.3-py3-none-any.whl.metadata (31 kB)
14:06:38 Collecting lazy-loader>=0.4 (from scikit-image>=0.19.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:38 Using cached lazy_loader-0.5-py3-none-any.whl.metadata (5.9 kB)
14:06:38 Collecting donfig>=0.8 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:38 Using cached donfig-0.8.1.post1-py3-none-any.whl.metadata (5.0 kB)
14:06:38 Collecting google-crc32c>=1.5 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:38 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)
14:06:38 Collecting numcodecs>=0.14 (from zarr>=3.0.0->ome-zarr>=0.13.0->omero-cli-zarr)
14:06:38 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)
14:06:38 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)
14:06:38 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.13.0->omero-cli-zarr) (2026.6.17)
14:06:38 Using cached ome_zarr-0.18.0-py3-none-any.whl (57 kB)
14:06:38 Using cached dask-2026.7.0-py3-none-any.whl (1.5 MB)
14:06:38 Using cached click-8.4.2-py3-none-any.whl (119 kB)
14:06:38 Using cached cloudpickle-3.1.2-py3-none-any.whl (22 kB)
14:06:38 Using cached fsspec-2026.6.0-py3-none-any.whl (203 kB)
14:06:38 Using cached importlib_metadata-9.0.0-py3-none-any.whl (27 kB)
14:06:38 Using cached ome_zarr_models-1.7-py3-none-any.whl (64 kB)
14:06:38 Using cached pydantic-2.12.5-py3-none-any.whl (463 kB)
14:06:38 Using cached pydantic_core-2.41.5-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.1 MB)
14:06:38 Using cached partd-1.4.2-py3-none-any.whl (18 kB)
14:06:38 Using cached pydantic_zarr-0.9.2-py3-none-any.whl (52 kB)
14:06:38 Using cached s3fs-2026.6.0-py3-none-any.whl (32 kB)
14:06:38 Using cached aiobotocore-3.7.0-py3-none-any.whl (89 kB)
14:06:38 Using cached aiohttp-3.14.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (1.8 MB)
14:06:38 Using cached aioitertools-0.13.0-py3-none-any.whl (24 kB)
14:06:38 Using cached botocore-1.43.0-py3-none-any.whl (15.0 MB)
14:06:38 Using cached jmespath-1.1.0-py3-none-any.whl (20 kB)
14:06:38 Using cached multidict-6.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (246 kB)
14:06:38 Using cached wrapt-2.2.2-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (159 kB)
14:06:38 Using cached yarl-1.24.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (106 kB)
14:06:38 Using cached aiohappyeyeballs-2.7.1-py3-none-any.whl (15 kB)
14:06:38 Using cached aiosignal-1.4.0-py3-none-any.whl (7.5 kB)
14:06:38 Using cached attrs-26.1.0-py3-none-any.whl (67 kB)
14:06:38 Using cached frozenlist-1.8.0-cp311-cp311-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (231 kB)
14:06:38 Using cached propcache-0.5.2-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (58 kB)
14:06:38 Using cached scikit_image-0.26.0-cp311-cp311-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl (13.7 MB)
14:06:38 Using cached imageio-2.37.3-py3-none-any.whl (317 kB)
14:06:38 Using cached lazy_loader-0.5-py3-none-any.whl (8.0 kB)
14:06:38 Using cached networkx-3.6.1-py3-none-any.whl (2.1 MB)
14:06:38 Using cached scipy-1.17.1-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.3 MB)
14:06:38 Using cached tifffile-2026.3.3-py3-none-any.whl (243 kB)
14:06:38 Using cached toolz-1.1.0-py3-none-any.whl (58 kB)
14:06:38 Using cached zarr-3.1.6-py3-none-any.whl (295 kB)
14:06:38 Using cached donfig-0.8.1.post1-py3-none-any.whl (21 kB)
14:06:38 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)
14:06:38 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)
14:06:38 Using cached zipp-4.1.0-py3-none-any.whl (10 kB)
14:06:38 Using cached deprecated-1.3.1-py2.py3-none-any.whl (11 kB)
14:06:38 Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB)
14:06:38 Using cached rangehttpserver-1.4.0-py2.py3-none-any.whl (7.8 kB)
14:06:39 Building wheels for collected packages: omero-cli-zarr
14:06:39 Building wheel for omero-cli-zarr (pyproject.toml): started
14:06:39 Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done'
14:06:39 Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.5.5.dev162+g018fb77-py3-none-any.whl size=38290 sha256=228690f472dcae84612fd655c43037e7e8190ff6d665f6de8540668f6368398a
14:06:39 Stored in directory: /tmp/pip-ephem-wheel-cache-_3hm7r4e/wheels/23/9b/a6/58188c5a16d0876457bd9f2c6a2fb9759c671db67032a0e529
14:06:39 Successfully built omero-cli-zarr
14:06:39 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
14:07:14 Attempting uninstall: pydantic-core
14:07:14 Found existing installation: pydantic_core 2.46.4
14:07:14 Uninstalling pydantic_core-2.46.4:
14:07:14 Successfully uninstalled pydantic_core-2.46.4
14:07:47 Attempting uninstall: pydantic
14:07:47 Found existing installation: pydantic 2.13.4
14:07:48 Uninstalling pydantic-2.13.4:
14:07:48 Successfully uninstalled pydantic-2.13.4
14:08:27
14:08:27 Successfully installed Deprecated-1.3.1 aiobotocore-3.7.0 aiohappyeyeballs-2.7.1 aiohttp-3.14.1 aioitertools-0.13.0 aiosignal-1.4.0 attrs-26.1.0 botocore-1.43.0 click-8.4.2 cloudpickle-3.1.2 dask-2026.7.0 donfig-0.8.1.post1 frozenlist-1.8.0 fsspec-2026.6.0 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-0.18.0 ome-zarr-models-1.7 omero-cli-zarr-0.5.5.dev162+g018fb77 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-2026.6.0 scikit-image-0.26.0 scipy-1.17.1 tifffile-2026.3.3 toolz-1.1.0 wrapt-2.2.2 yarl-1.24.2 zarr-3.1.6 zipp-4.1.0
14:08:27 + pip install omero-certificates
14:08:28 Collecting omero-certificates
14:08:28 Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB)
14:08:28 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.22.1)
14:08:28 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
14:08:28 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
14:08:28 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.4.6)
14:08:28 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)
14:08:28 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.3)
14:08:28 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)
14:08:28 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.34.2)
14:08:28 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.2.0)
14:08:28 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)
14:08:28 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.18)
14:08:28 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)
14:08:28 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2026.6.17)
14:08:28 Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB)
14:08:29 Installing collected packages: omero-certificates
14:08:29 Successfully installed omero-certificates-0.4.0
14:08:29 + for x in *.tar.gz
14:08:29 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
14:08:30 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
14:08:30 Installing build dependencies: started
14:08:31 Installing build dependencies: finished with status 'done'
14:08:31 Getting requirements to build wheel: started
14:08:31 Getting requirements to build wheel: finished with status 'done'
14:08:31 Preparing metadata (pyproject.toml): started
14:08:32 Preparing metadata (pyproject.toml): finished with status 'done'
14:08:32 Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.22.1)
14:08:32 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
14:08:32 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
14:08:32 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)
14:08:32 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)
14:08:32 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.3)
14:08:32 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)
14:08:32 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.34.2)
14:08:32 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.2.0)
14:08:32 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)
14:08:32 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.18)
14:08:32 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)
14:08:32 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2026.6.17)
14:08:32 Building wheels for collected packages: omero-dropbox
14:08:32 Building wheel for omero-dropbox (pyproject.toml): started
14:08:32 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
14:08:32 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49153 sha256=9595cf429b2c2a636510e5d2cc98ebdd2f17cdaba8e91daa9c628d57ac40b23e
14:08:32 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92
14:08:32 Successfully built omero-dropbox
14:08:32 Installing collected packages: omero-dropbox
14:08:33 Successfully installed omero-dropbox-5.7.1.dev0
14:08:33 + for x in *.tar.gz
14:08:33 + pip install -U omero_marshal-0.9.2.dev0.tar.gz
14:08:34 Processing ./omero_marshal-0.9.2.dev0.tar.gz
14:08:34 Installing build dependencies: started
14:08:35 Installing build dependencies: finished with status 'done'
14:08:35 Getting requirements to build wheel: started
14:08:35 Getting requirements to build wheel: finished with status 'done'
14:08:35 Preparing metadata (pyproject.toml): started
14:08:36 Preparing metadata (pyproject.toml): finished with status 'done'
14:08:36 Building wheels for collected packages: omero_marshal
14:08:36 Building wheel for omero_marshal (pyproject.toml): started
14:08:36 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
14:08:36 Created wheel for omero_marshal: filename=omero_marshal-0.9.2.dev0-py3-none-any.whl size=88129 sha256=f846c36683045e4f5527c0a72794e853f3de32356c68eb71c5b2aef5b7d3650f
14:08:36 Stored in directory: /home/omero/.cache/pip/wheels/38/19/f8/b7cbc5aa44dc10bd3c24777f40a22cf6ed1baeac622bbf8230
14:08:36 Successfully built omero_marshal
14:08:36 Installing collected packages: omero_marshal
14:08:39 Successfully installed omero_marshal-0.9.2.dev0
14:08:39 + for x in *.tar.gz
14:08:39 + pip install -U omero_py-5.22.2.dev0.tar.gz
14:08:39 Processing ./omero_py-5.22.2.dev0.tar.gz
14:08:40 Installing build dependencies: started
14:08:41 Installing build dependencies: finished with status 'done'
14:08:41 Getting requirements to build wheel: started
14:08:41 Getting requirements to build wheel: finished with status 'done'
14:08:41 Preparing metadata (pyproject.toml): started
14:08:42 Preparing metadata (pyproject.toml): finished with status 'done'
14:08:42 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.4.4)
14:08:42 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (1.0.0)
14:08:42 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.4.6)
14:08:42 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (12.3.0)
14:08:42 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (6.0.3)
14:08:42 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)
14:08:42 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (2.34.2)
14:08:42 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.22.2.dev0) (3.2.0)
14:08:42 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)
14:08:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (3.18)
14:08:42 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2.7.0)
14:08:42 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.22.2.dev0) (2026.6.17)
14:08:42 Building wheels for collected packages: omero-py
14:08:42 Building wheel for omero-py (pyproject.toml): started
14:08:43 Building wheel for omero-py (pyproject.toml): finished with status 'done'
14:08:43 Created wheel for omero-py: filename=omero_py-5.22.2.dev0-py3-none-any.whl size=2787060 sha256=cc3439d1ec758ff925709bf7329a2d5177c751f2e84d4156b743140b15a8ee82
14:08:43 Stored in directory: /home/omero/.cache/pip/wheels/ec/3f/72/4027ca0a7faf1f66d4577cc07619b0497ac8e99396d43dd8fa
14:08:43 Successfully built omero-py
14:08:43 Installing collected packages: omero-py
14:08:43 Attempting uninstall: omero-py
14:08:43 Found existing installation: omero-py 5.22.1
14:08:44 Uninstalling omero-py-5.22.1:
14:08:56 Successfully uninstalled omero-py-5.22.1
14:09:11 Successfully installed omero-py-5.22.2.dev0
14:09:11 + for x in *.tar.gz
14:09:11 + pip install -U omero_scripts-5.10.1.dev0.tar.gz
14:09:12 Processing ./omero_scripts-5.10.1.dev0.tar.gz
14:09:12 Installing build dependencies: started
14:09:13 Installing build dependencies: finished with status 'done'
14:09:13 Getting requirements to build wheel: started
14:09:14 Getting requirements to build wheel: finished with status 'done'
14:09:14 Preparing metadata (pyproject.toml): started
14:09:14 Preparing metadata (pyproject.toml): finished with status 'done'
14:09:14 Building wheels for collected packages: omero-scripts
14:09:14 Building wheel for omero-scripts (pyproject.toml): started
14:09:14 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
14:09:14 Created wheel for omero-scripts: filename=omero_scripts-5.10.1.dev0-py3-none-any.whl size=136999 sha256=cd46269d37a056d0dcb6be1a7622d0c65bb4d6dfabb6de6d7b89b1e1c299e392
14:09:14 Stored in directory: /home/omero/.cache/pip/wheels/42/27/9e/76575465f2b255db596bcfcfc1a50c113f5603b7dc93ec491e
14:09:14 Successfully built omero-scripts
14:09:15 Installing collected packages: omero-scripts
14:09:15 Successfully installed omero-scripts-5.10.1.dev0
14:09:16 + for x in *.tar.gz
14:09:16 + pip install -U omero_web-5.32.1.dev0.tar.gz
14:09:16 Processing ./omero_web-5.32.1.dev0.tar.gz
14:09:17 Installing build dependencies: started
14:09:18 Installing build dependencies: finished with status 'done'
14:09:18 Getting requirements to build wheel: started
14:09:18 Getting requirements to build wheel: finished with status 'done'
14:09:18 Preparing metadata (pyproject.toml): started
14:09:18 Preparing metadata (pyproject.toml): finished with status 'done'
14:09:18 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (5.22.2.dev0)
14:09:19 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.32.1.dev0)
14:09:19 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl.metadata (27 kB)
14:09:19 Collecting Django<5.3,>=5.2.9 (from omero-web==5.32.1.dev0)
14:09:19 Downloading django-5.2.16-py3-none-any.whl.metadata (4.1 kB)
14:09:19 Collecting django-pipeline>=4.1.0 (from omero-web==5.32.1.dev0)
14:09:19 Using cached django_pipeline-4.1.0-py3-none-any.whl.metadata (5.9 kB)
14:09:19 Collecting django-cors-headers==3.7.0 (from omero-web==5.32.1.dev0)
14:09:19 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
14:09:19 Collecting whitenoise>=5.3.0 (from omero-web==5.32.1.dev0)
14:09:19 Using cached whitenoise-6.12.0-py3-none-any.whl.metadata (3.7 kB)
14:09:19 Collecting gunicorn>=19.3 (from omero-web==5.32.1.dev0)
14:09:19 Using cached gunicorn-26.0.0-py3-none-any.whl.metadata (5.4 kB)
14:09:19 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (0.9.2.dev0)
14:09:19 Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (12.3.0)
14:09:19 Collecting pytz (from omero-web==5.32.1.dev0)
14:09:19 Using cached pytz-2026.2-py2.py3-none-any.whl.metadata (22 kB)
14:09:19 Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (3.2.0)
14:09:19 Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.32.1.dev0) (26.2)
14:09:19 Collecting importlib-resources (from omero-web==5.32.1.dev0)
14:09:19 Using cached importlib_resources-7.1.0-py3-none-any.whl.metadata (4.0 kB)
14:09:19 Collecting asgiref>=3.8.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
14:09:19 Using cached asgiref-3.11.1-py3-none-any.whl.metadata (9.3 kB)
14:09:19 Collecting sqlparse>=0.3.1 (from Django<5.3,>=5.2.9->omero-web==5.32.1.dev0)
14:09:19 Using cached sqlparse-0.5.5-py3-none-any.whl.metadata (4.7 kB)
14:09:19 Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0) (65.5.1)
14:09:19 Collecting wheel (from django-pipeline>=4.1.0->omero-web==5.32.1.dev0)
14:09:19 Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
14:09:19 Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (1.4.4)
14:09:19 Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (1.0.0)
14:09:19 Requirement already satisfied: numpy<3,>=2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.4.6)
14:09:19 Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (6.0.3)
14:09:19 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==5.32.1.dev0) (3.6.5)
14:09:19 Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.34.2)
14:09:19 Requirement already satisfied: charset_normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (3.4.7)
14:09:19 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (3.18)
14:09:19 Requirement already satisfied: urllib3<3,>=1.26 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (2.7.0)
14:09:19 Requirement already satisfied: certifi>=2023.5.7 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.32.1.dev0) (2026.6.17)
14:09:19 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
14:09:19 Downloading django-5.2.16-py3-none-any.whl (8.3 MB)
14:09:20 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 8.3/8.3 MB 17.9 MB/s 0:00:00
14:09:20 Using cached asgiref-3.11.1-py3-none-any.whl (24 kB)
14:09:20 Using cached concurrent_log_handler-0.9.29-py3-none-any.whl (32 kB)
14:09:20 Using cached django_pipeline-4.1.0-py3-none-any.whl (75 kB)
14:09:20 Using cached gunicorn-26.0.0-py3-none-any.whl (212 kB)
14:09:20 Using cached sqlparse-0.5.5-py3-none-any.whl (46 kB)
14:09:20 Using cached whitenoise-6.12.0-py3-none-any.whl (20 kB)
14:09:20 Using cached importlib_resources-7.1.0-py3-none-any.whl (37 kB)
14:09:20 Using cached pytz-2026.2-py2.py3-none-any.whl (510 kB)
14:09:20 Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
14:09:20 Building wheels for collected packages: omero-web
14:09:20 Building wheel for omero-web (pyproject.toml): started
14:09:21 Building wheel for omero-web (pyproject.toml): finished with status 'done'
14:09:21 Created wheel for omero-web: filename=omero_web-5.32.1.dev0-py3-none-any.whl size=2820645 sha256=b694b8b78684682865f71ba734411c9b6367e9866a87a13c33779300fd71da5b
14:09:21 Stored in directory: /home/omero/.cache/pip/wheels/e6/f6/6f/ec36dda9edad720aabd7330edafa8a6a62d6ebfa4c7467248f
14:09:21 Successfully built omero-web
14:09:21 Installing collected packages: pytz, whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-cors-headers, omero-web
14:10:28
14:10:28 Successfully installed Django-5.2.16 asgiref-3.11.1 concurrent-log-handler-0.9.29 django-cors-headers-3.7.0 django-pipeline-4.1.0 gunicorn-26.0.0 importlib-resources-7.1.0 omero-web-5.32.1.dev0 pytz-2026.2 sqlparse-0.5.5 wheel-0.47.0 whitenoise-6.12.0
14:10:29 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:10:29 --2026-07-07 14:10:29-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
14:10:29 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.109.133, 185.199.111.133, ...
14:10:29 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
14:10:29 HTTP request sent, awaiting response... 200 OK
14:10:29 Length: 139337 (136K) [text/plain]
14:10:29 Saving to: ‘Figure_To_Pdf.py’
14:10:29
14:10:29 0K .......... .......... .......... .......... .......... 36% 4.44M 0s
14:10:29 50K .......... .......... .......... .......... .......... 73% 9.76M 0s
14:10:29 100K .......... .......... .......... ...... 100% 6.95M=0.02s
14:10:29
14:10:29 2026-07-07 14:10:29 (6.31 MB/s) - ‘Figure_To_Pdf.py’ saved [139337/139337]
14:10:29
14:10:29 + chmod 755 Figure_To_Pdf.py
14:10:29 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
14:10:29 + omero config set omero.db.name OMERO-server
14:10:36 + omero config set omero.db.host pg
14:10:41 + omero config set omero.db.user postgres
14:10:46 + omero config set omero.data.dir /home/omero/omero-server-data
14:10:52 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
14:10:57 + omero config set omero.db.poolsize 25
14:11:02 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
14:11:07 + omero config set omero.security.trustStorePassword changeit
14:11:12 + omero config set omero.mail.config true
14:11:17 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
14:11:22 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
14:11:27 + omero certificates
14:11:32 OpenSSL 3.5.5 27 Jan 2026 (Library: OpenSSL 3.5.5 27 Jan 2026)
14:11:32 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
14:11:32 + '[' false = true ']'
14:11:32 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
14:11:32 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
14:11:32 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG dbcommand => upgrade
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG dbhost => localhost
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG dbname => OMERO-server
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG dbpass => omero
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG dbuser => omero
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG rootpass => omero
14:11:32 2026-07-07 14:11:32,630 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
14:11:32 2026-07-07 14:11:32,631 [omego.extern] INFO Executing : omero version
14:11:37 OMERO.py version:
14:11:37 OMERO.server version:
14:11:37 5.6.3-614-b7d1771417-ice36-b2
14:11:37 5.22.2.dev0
14:11:37 2026-07-07 14:11:37,774 [omego.extern] INFO Completed [5.143 s]
14:11:37 2026-07-07 14:11:37,775 [omego.extern] DEBUG Using omero CLI from omero
14:11:37 2026-07-07 14:11:37,775 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
14:11:37 2026-07-07 14:11:37,775 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:11:37 2026-07-07 14:11:37,775 [omego.extern] INFO Executing : omero config get --show-password
14:11:42 2026-07-07 14:11:42,812 [omego.extern] INFO Completed [5.037 s]
14:11:42 2026-07-07 14:11:42,812 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:11:42 2026-07-07 14:11:42,813 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
14:11:42 2026-07-07 14:11:42,819 [omego.extern] INFO Completed [0.006 s]
14:11:42 2026-07-07 14:11:42,819 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.14\n'
14:11:42 2026-07-07 14:11:42,819 [ omego.db] INFO psql version: psql (PostgreSQL) 16.14
14:11:42
14:11:42 2026-07-07 14:11:42,819 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:11:42 2026-07-07 14:11:42,819 [omego.extern] INFO Executing : omero config get --show-password
14:11:47 2026-07-07 14:11:47,915 [omego.extern] INFO Completed [5.096 s]
14:11:47 2026-07-07 14:11:47,915 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:11:47 2026-07-07 14:11:47,915 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
14:11:47 2026-07-07 14:11:47,931 [omego.extern] INFO Completed [0.016 s]
14:11:47 2026-07-07 14:11:47,932 [ 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'
14:11:47 2026-07-07 14:11:47,932 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
14:11:47 2026-07-07 14:11:47,932 [omego.extern] INFO Running [current environment]: omero config get --show-password
14:11:47 2026-07-07 14:11:47,932 [omego.extern] INFO Executing : omero config get --show-password
14:11:53 2026-07-07 14:11:53,013 [omego.extern] INFO Completed [5.082 s]
14:11:53 2026-07-07 14:11:53,013 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
14:11:53 2026-07-07 14:11:53,013 [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
14:11:53 2026-07-07 14:11:53,035 [omego.extern] INFO Completed [0.021 s]
14:11:53 2026-07-07 14:11:53,035 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
14:11:53 2026-07-07 14:11:53,035 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
14:11:53 2026-07-07 14:11:53,100 [ omego.db] INFO Database is already at OMERO5.4__0
14:11:53 + export LANG=en_US.UTF-8
14:11:53 + LANG=en_US.UTF-8
14:11:53 + export LANGUAGE=en_US:en
14:11:53 + LANGUAGE=en_US:en
14:11:53 + export LC_ALL=en_US.UTF-8
14:11:53 + LC_ALL=en_US.UTF-8
14:11:53 + BUILD_ID=DONT_KILL_ME
14:11:53 + omero admin start
14:12:06 No descriptor given. Using etc/grid/default.xml
14:12:14 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
14:12:14 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
14:12:14 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
14:12:14 Waiting on startup. Use CTRL-C to exit
14:12:14 ...........Build was aborted
14:14:01 Aborted by devspace
14:14:01 Finished: ABORTED
