Started by upstream project "Trigger" build number 496 originally caused by: Started by timer Running as SYSTEM Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server [OMERO-server] $ /bin/bash -xe /tmp/jenkins1377724762401317579.sh + source /home/settings.env ++ OMERO_DB_HOST=pg ++ OMERO_DB_USER=postgres ++ OMERO_DB_PASS= ++ OMERO_ROOT_PASS=omero ++ OMERO_DATA_DIR=/OMERO ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR + OMERO_DB_NAME=OMERO-server + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + OMERO_DATA_DIR=/home/omero/omero-server-data + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']' + source /home/omero/workspace/OMERO-server/.venv3/bin/activate ++ deactivate nondestructive ++ '[' -n '' ']' ++ '[' -n '' ']' ++ hash -r ++ '[' -n '' ']' ++ unset VIRTUAL_ENV ++ unset VIRTUAL_ENV_PROMPT ++ '[' '!' nondestructive = nondestructive ']' ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 ++ export VIRTUAL_ENV ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ++ 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 ++ export PATH ++ '[' -n '' ']' ++ '[' -z '' ']' ++ _OLD_VIRTUAL_PS1= ++ PS1='(.venv3) ' ++ export PS1 ++ VIRTUAL_ENV_PROMPT='(.venv3) ' ++ export VIRTUAL_ENV_PROMPT ++ hash -r + omero admin stop Server not running + echo not running not running + sleep 5 + deactivate + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin + export PATH + unset _OLD_VIRTUAL_PATH + '[' -n '' ']' + hash -r + '[' -n '' ']' + unset VIRTUAL_ENV + unset VIRTUAL_ENV_PROMPT + '[' '!' '' = nondestructive ']' + unset -f deactivate + rm -rf /home/omero/workspace/OMERO-server/.venv3 + python3.11 -m venv /home/omero/workspace/OMERO-server/.venv3 + '[' false = true ']' + echo 'Skipping PURGE_DATA:CleanDbAndRepo' Skipping PURGE_DATA:CleanDbAndRepo + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.8.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.20.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.29.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties Copied 1 artifact from "OMERO-build" build number 427 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 419 Copied 2 artifacts from "OMERO-build-build" build number 446 [OMERO-server] $ /bin/bash -xe /tmp/jenkins17472771143426957651.sh + source /home/settings.env ++ OMERO_DB_HOST=pg ++ OMERO_DB_USER=postgres ++ OMERO_DB_PASS= ++ OMERO_ROOT_PASS=omero ++ OMERO_DATA_DIR=/OMERO ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR + OMERO_DB_NAME=OMERO-server + OMERO_DATA_DIR=/home/omero/omero-server-data + mkdir -p /home/omero/omero-server-data + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties ++ ls OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427.zip + ZIP=OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427.zip + '[' '!' -z '' ']' + DIST=OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427 + unzip OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427.zip Archive: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427.zip creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/blitz/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/grid/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/profiles/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/error/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/grid/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/luts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/luts/janelia/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/luts/matplotlib/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/luts/ncsa_paledit/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/luts/seaborn/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/luts/wcif/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/analysis_scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/annotation_scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/export_scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/figure_scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/import_scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/scripts/omero/util_scripts/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/server/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/share/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/share/licenses/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/misc/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__1/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__10/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__11/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__2/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__3/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__4/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__5/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__6/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__7/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__8/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3A__9/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3__4/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3__5/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3__6/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO3__7/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO4.1__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO4.2__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO4.2__0/t/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO4.3__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO4.4__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO4__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.0__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.1__1/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.2__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.3__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4DEV__1/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4DEV__2/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4DEV__3/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/ creating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/var/ inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/LICENSE.txt inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/backup.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/blitz/mail-senders.example inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/blitz/mail-server.example inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/build.properties inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/env.bat inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/env.sh inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/hibernate.properties inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/ice.config inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/logback-cli.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/logback-indexing-cli.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/logback-indexing.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/logback.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/mime.types inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/node1.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/node2.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/omero.properties inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/profiles/psql inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/rollover.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/Windows.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/error/maintainance.html inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/grid/README inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/grid/default.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/grid/templates.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/grid/windefault.xml inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/ice.config inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/internal.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/master.cfg inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/templates/robot.template inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/etc/testdropbox.config inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/history.rst inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/OMEZarrReader.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/accessors-smart.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/activation.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/aggdesigner-algorithm.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/aircompressor.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/antlr.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/aopalliance.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/apiguardian-api.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/asm.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/avatica-core.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/avatica-metrics.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/aws-java-sdk-core.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/aws-java-sdk-kms.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/aws-java-sdk-s3.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/base.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-anim.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-awt-util.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-bridge.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-codec.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-constants.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-css.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-dom.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-ext.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-gvt.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-i18n.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-parser.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-script.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-shared-resources.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-svg-dom.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-svggen.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-transcoder.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-util.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/batik-xml.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/btm.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/calcite-core.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/calcite-linq4j.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/cdm-core.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/checker-qual.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/commons-beanutils.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/commons-codec.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/commons-collections.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/commons-collections4.jar inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/lib/client/commons-compiler.jar inflating: 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inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/psql-footer.sql inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/psql-header.sql inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/schema.sql inflating: OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427/sql/psql/OMERO5.4__0/views.sql + rm -f OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427.zip + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-552-5b2f02bbd9-ice36-b427 /home/omero/workspace/OMERO-server/OMERO.server + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server/ https://artifacts.glencoesoftware.com:443/artifactory/omero-plus/com/glencoesoftware/omero/omero-zarr-pixel-buffer/0.4.1/omero-zarr-pixel-buffer-0.4.1.jar --2025-05-28 01:02:08-- https://artifacts.glencoesoftware.com/artifactory/omero-plus/com/glencoesoftware/omero/omero-zarr-pixel-buffer/0.4.1/omero-zarr-pixel-buffer-0.4.1.jar Resolving artifacts.glencoesoftware.com (artifacts.glencoesoftware.com)... 67.205.169.144, 2604:a880:400:d0::19b7:6001 Connecting to artifacts.glencoesoftware.com (artifacts.glencoesoftware.com)|67.205.169.144|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 26159 (26K) [application/java-archive] Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/omero-zarr-pixel-buffer-0.4.1.jar’ 0K .......... .......... ..... 100% 220M=0s 2025-05-28 01:02:09 (220 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/omero-zarr-pixel-buffer-0.4.1.jar’ saved [26159/26159] + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar --2025-05-28 01:02:09-- https://repo1.maven.org/maven2/com/github/ben-manes/caffeine/caffeine/3.1.8/caffeine-3.1.8.jar Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 889211 (868K) [application/java-archive] Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’ 0K .......... .......... .......... .......... .......... 5% 4.13M 0s 50K .......... .......... .......... .......... .......... 11% 9.52M 0s 100K .......... .......... .......... .......... .......... 17% 8.34M 0s 150K .......... .......... .......... .......... .......... 23% 13.8M 0s 200K .......... .......... .......... .......... .......... 28% 47.2M 0s 250K .......... .......... .......... .......... .......... 34% 8.95M 0s 300K .......... .......... .......... .......... .......... 40% 20.4M 0s 350K .......... .......... .......... .......... .......... 46% 36.8M 0s 400K .......... .......... .......... .......... .......... 51% 110M 0s 450K .......... .......... .......... .......... .......... 57% 8.18M 0s 500K .......... .......... .......... .......... .......... 63% 46.6M 0s 550K .......... .......... .......... .......... .......... 69% 20.0M 0s 600K .......... .......... .......... .......... .......... 74% 161M 0s 650K .......... .......... .......... .......... .......... 80% 52.8M 0s 700K .......... .......... .......... .......... .......... 86% 7.86M 0s 750K .......... .......... .......... .......... .......... 92% 76.3M 0s 800K .......... .......... .......... .......... .......... 97% 15.4M 0s 850K .......... ........ 100% 178M=0.06s 2025-05-28 01:02:09 (14.7 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/caffeine-3.1.8.jar’ saved [889211/889211] + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar --2025-05-28 01:02:09-- https://repo1.maven.org/maven2/dev/zarr/jzarr/0.4.2/jzarr-0.4.2.jar Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 73309 (72K) [application/java-archive] Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’ 0K .......... .......... .......... .......... .......... 69% 4.08M 0s 50K .......... .......... . 100% 9.34M=0.01s 2025-05-28 01:02:09 (4.91 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/jzarr-0.4.2.jar’ saved [73309/73309] + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar --2025-05-28 01:02:09-- https://repo1.maven.org/maven2/org/lasersonlab/s3fs/2.2.3/s3fs-2.2.3.jar Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 63303 (62K) [application/java-archive] Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’ 0K .......... .......... .......... .......... .......... 80% 4.14M 0s 50K .......... . 100% 11.2M=0.01s 2025-05-28 01:02:09 (4.71 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/s3fs-2.2.3.jar’ saved [63303/63303] + wget --no-hsts -P /home/omero/workspace/OMERO-server/OMERO.server/lib/server https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar --2025-05-28 01:02:09-- https://repo1.maven.org/maven2/com/amazonaws/aws-java-sdk-s3/1.12.659/aws-java-sdk-s3-1.12.659.jar Resolving repo1.maven.org (repo1.maven.org)... 146.75.72.209, 2a04:4e42:82::209 Connecting to repo1.maven.org (repo1.maven.org)|146.75.72.209|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 1271272 (1.2M) [application/java-archive] Saving to: ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’ 0K .......... .......... .......... .......... .......... 4% 4.15M 0s 50K .......... .......... .......... .......... .......... 8% 9.14M 0s 100K .......... .......... .......... .......... .......... 12% 8.01M 0s 150K .......... .......... .......... .......... .......... 16% 25.3M 0s 200K .......... .......... .......... .......... .......... 20% 7.75M 0s 250K .......... .......... .......... .......... .......... 24% 31.6M 0s 300K .......... .......... .......... .......... .......... 28% 70.2M 0s 350K .......... .......... .......... .......... .......... 32% 31.4M 0s 400K .......... .......... .......... .......... .......... 36% 27.1M 0s 450K .......... .......... .......... .......... .......... 40% 8.87M 0s 500K .......... .......... .......... .......... .......... 44% 33.1M 0s 550K .......... .......... .......... .......... .......... 48% 31.1M 0s 600K .......... .......... .......... .......... .......... 52% 138M 0s 650K .......... .......... .......... .......... .......... 56% 28.9M 0s 700K .......... .......... .......... .......... .......... 60% 8.38M 0s 750K .......... .......... .......... .......... .......... 64% 39.7M 0s 800K .......... .......... .......... .......... .......... 68% 28.6M 0s 850K .......... .......... .......... .......... .......... 72% 141M 0s 900K .......... .......... .......... .......... .......... 76% 28.2M 0s 950K .......... .......... .......... .......... .......... 80% 8.79M 0s 1000K .......... .......... .......... .......... .......... 84% 38.1M 0s 1050K .......... .......... .......... .......... .......... 88% 157M 0s 1100K .......... .......... .......... .......... .......... 92% 31.0M 0s 1150K .......... .......... .......... .......... .......... 96% 32.3M 0s 1200K .......... .......... .......... .......... . 100% 9.77M=0.07s 2025-05-28 01:02:10 (16.6 MB/s) - ‘/home/omero/workspace/OMERO-server/OMERO.server/lib/server/aws-java-sdk-s3-1.12.659.jar’ saved [1271272/1271272] + source /home/omero/workspace/OMERO-server/.venv3/bin/activate ++ deactivate nondestructive ++ '[' -n '' ']' ++ '[' -n '' ']' ++ hash -r ++ '[' -n '' ']' ++ unset VIRTUAL_ENV ++ unset VIRTUAL_ENV_PROMPT ++ '[' '!' nondestructive = nondestructive ']' ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 ++ export VIRTUAL_ENV ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ++ 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 ++ export PATH ++ '[' -n '' ']' ++ '[' -z '' ']' ++ _OLD_VIRTUAL_PS1= ++ PS1='(.venv3) ' ++ export PS1 ++ VIRTUAL_ENV_PROMPT='(.venv3) ' ++ export VIRTUAL_ENV_PROMPT ++ hash -r + pip install -U pip Requirement already satisfied: pip in ./.venv3/lib64/python3.11/site-packages (22.3.1) Collecting pip Using cached pip-25.1.1-py3-none-any.whl (1.8 MB) Installing collected packages: pip Attempting uninstall: pip Found existing installation: pip 22.3.1 Uninstalling pip-22.3.1: Successfully uninstalled pip-22.3.1 Successfully installed pip-25.1.1 WARNING: There was an error checking the latest version of pip. + 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 Collecting zeroc-ice==3.6.5 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) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.3/37.3 MB 23.6 MB/s eta 0:00:00 Installing collected packages: zeroc-ice Successfully installed zeroc-ice-3.6.5 + pip install markdown Collecting markdown Using cached markdown-3.8-py3-none-any.whl.metadata (5.1 kB) Using cached markdown-3.8-py3-none-any.whl (106 kB) Installing collected packages: markdown Successfully installed markdown-3.8 + pip install reportlab Collecting reportlab Using cached reportlab-4.4.1-py3-none-any.whl.metadata (1.8 kB) Collecting pillow>=9.0.0 (from reportlab) Using cached pillow-11.2.1-cp311-cp311-manylinux_2_28_x86_64.whl.metadata (8.9 kB) Collecting chardet (from reportlab) Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB) Using cached reportlab-4.4.1-py3-none-any.whl (2.0 MB) Using cached pillow-11.2.1-cp311-cp311-manylinux_2_28_x86_64.whl (4.6 MB) Using cached chardet-5.2.0-py3-none-any.whl (199 kB) Installing collected packages: pillow, chardet, reportlab Successfully installed chardet-5.2.0 pillow-11.2.1 reportlab-4.4.1 + pip install omego Collecting omego Using cached omego-0.7.0-py3-none-any.whl Collecting future (from omego) Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB) Collecting yaclifw>=0.1.1 (from omego) Using cached yaclifw-0.2.0-py3-none-any.whl Collecting six (from yaclifw>=0.1.1->omego) Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB) Using cached future-1.0.0-py3-none-any.whl (491 kB) Using cached six-1.17.0-py2.py3-none-any.whl (11 kB) Installing collected packages: six, future, yaclifw, omego Successfully installed future-1.0.0 omego-0.7.0 six-1.17.0 yaclifw-0.2.0 + pip install tables Collecting tables Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.0 kB) Collecting numpy>=1.20.0 (from tables) Using cached numpy-2.2.6-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB) Collecting numexpr>=2.6.2 (from tables) Using cached numexpr-2.10.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (8.1 kB) Collecting packaging (from tables) Using cached packaging-25.0-py3-none-any.whl.metadata (3.3 kB) Collecting py-cpuinfo (from tables) Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes) Collecting blosc2>=2.3.0 (from tables) Using cached blosc2-3.3.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.9 kB) Collecting typing-extensions>=4.4.0 (from tables) Using cached typing_extensions-4.13.2-py3-none-any.whl.metadata (3.0 kB) Collecting ndindex (from blosc2>=2.3.0->tables) Using cached ndindex-1.10.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.6 kB) Collecting msgpack (from blosc2>=2.3.0->tables) Using cached msgpack-1.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB) Collecting platformdirs (from blosc2>=2.3.0->tables) Using cached platformdirs-4.3.8-py3-none-any.whl.metadata (12 kB) Collecting requests (from blosc2>=2.3.0->tables) Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB) Collecting charset-normalizer<4,>=2 (from requests->blosc2>=2.3.0->tables) Using cached charset_normalizer-3.4.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (35 kB) Collecting idna<4,>=2.5 (from requests->blosc2>=2.3.0->tables) Using cached idna-3.10-py3-none-any.whl.metadata (10 kB) Collecting urllib3<3,>=1.21.1 (from requests->blosc2>=2.3.0->tables) Using cached urllib3-2.4.0-py3-none-any.whl.metadata (6.5 kB) Collecting certifi>=2017.4.17 (from requests->blosc2>=2.3.0->tables) Using cached certifi-2025.4.26-py3-none-any.whl.metadata (2.5 kB) Using cached tables-3.10.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB) Using cached blosc2-3.3.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB) Using cached numexpr-2.10.2-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (398 kB) Using cached numpy-2.2.6-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.8 MB) Using cached typing_extensions-4.13.2-py3-none-any.whl (45 kB) Using cached msgpack-1.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (403 kB) Using cached ndindex-1.10.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (528 kB) Using cached packaging-25.0-py3-none-any.whl (66 kB) Using cached platformdirs-4.3.8-py3-none-any.whl (18 kB) Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB) Using cached requests-2.32.3-py3-none-any.whl (64 kB) Using cached charset_normalizer-3.4.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (147 kB) Using cached idna-3.10-py3-none-any.whl (70 kB) Using cached urllib3-2.4.0-py3-none-any.whl (128 kB) Using cached certifi-2025.4.26-py3-none-any.whl (159 kB) Installing collected packages: py-cpuinfo, urllib3, typing-extensions, platformdirs, packaging, numpy, ndindex, msgpack, idna, charset-normalizer, certifi, requests, numexpr, blosc2, tables Successfully installed blosc2-3.3.4 certifi-2025.4.26 charset-normalizer-3.4.2 idna-3.10 msgpack-1.1.0 ndindex-1.10.0 numexpr-2.10.2 numpy-2.2.6 packaging-25.0 platformdirs-4.3.8 py-cpuinfo-9.0.0 requests-2.32.3 tables-3.10.2 typing-extensions-4.13.2 urllib3-2.4.0 + pip install jinja2 Collecting jinja2 Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB) Collecting MarkupSafe>=2.0 (from jinja2) Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB) Using cached jinja2-3.1.6-py3-none-any.whl (134 kB) Using cached MarkupSafe-3.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (23 kB) Installing collected packages: MarkupSafe, jinja2 Successfully installed MarkupSafe-3.0.2 jinja2-3.1.6 + pip install omero-py Collecting omero-py Using cached omero_py-5.20.0-py3-none-any.whl.metadata (6.5 kB) Collecting urllib3<2 (from omero-py) Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB) Collecting appdirs (from omero-py) Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (11.2.1) Collecting PyYAML (from omero-py) Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py) (2.32.3) Collecting portalocker (from omero-py) Using cached portalocker-3.1.1-py3-none-any.whl.metadata (8.6 kB) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py) (2025.4.26) Using cached omero_py-5.20.0-py3-none-any.whl (2.8 MB) Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB) Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB) Using cached portalocker-3.1.1-py3-none-any.whl (19 kB) Using cached PyYAML-6.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (762 kB) Installing collected packages: appdirs, urllib3, PyYAML, portalocker, omero-py Attempting uninstall: urllib3 Found existing installation: urllib3 2.4.0 Uninstalling urllib3-2.4.0: Successfully uninstalled urllib3-2.4.0 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 omero-py-5.20.0 portalocker-3.1.1 urllib3-1.26.20 + pip install git+https://github.com/dominikl/omero-cli-zarr.git@extinfo#egg=omero-cli-zarr Collecting omero-cli-zarr Cloning https://github.com/dominikl/omero-cli-zarr.git (to revision extinfo) to /tmp/pip-install-c7bsk70a/omero-cli-zarr_58c7404848a94482a6bad2cc38cbb3c2 Running command git clone --filter=blob:none --quiet https://github.com/dominikl/omero-cli-zarr.git /tmp/pip-install-c7bsk70a/omero-cli-zarr_58c7404848a94482a6bad2cc38cbb3c2 Running command git checkout -b extinfo --track origin/extinfo Switched to a new branch 'extinfo' branch 'extinfo' set up to track 'origin/extinfo'. Resolved https://github.com/dominikl/omero-cli-zarr.git to commit 59cc4a191547284fab4f6e16d1f228c10b661821 Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-zarr) (5.20.0) Collecting ome-zarr>=0.5.0 (from omero-cli-zarr) Using cached ome_zarr-0.11.1-py3-none-any.whl.metadata (2.9 kB) Requirement already satisfied: numpy in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.5.0->omero-cli-zarr) (2.2.6) Collecting dask (from ome-zarr>=0.5.0->omero-cli-zarr) Using cached dask-2025.5.1-py3-none-any.whl.metadata (3.8 kB) Collecting zarr<3,>=2.8.1 (from ome-zarr>=0.5.0->omero-cli-zarr) Using cached zarr-2.18.7-py3-none-any.whl.metadata (5.8 kB) Collecting fsspec!=2021.07.0,!=2023.9.0,>=0.8 (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached fsspec-2025.5.1-py3-none-any.whl.metadata (11 kB) Collecting aiohttp<4 (from ome-zarr>=0.5.0->omero-cli-zarr) Using cached aiohttp-3.12.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.6 kB) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from ome-zarr>=0.5.0->omero-cli-zarr) (2.32.3) Collecting scikit-image (from ome-zarr>=0.5.0->omero-cli-zarr) Using cached scikit_image-0.25.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (14 kB) Collecting toolz (from ome-zarr>=0.5.0->omero-cli-zarr) Using cached toolz-1.0.0-py3-none-any.whl.metadata (5.1 kB) Collecting aiohappyeyeballs>=2.5.0 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl.metadata (5.9 kB) Collecting aiosignal>=1.1.2 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached aiosignal-1.3.2-py2.py3-none-any.whl.metadata (3.8 kB) Collecting attrs>=17.3.0 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached attrs-25.3.0-py3-none-any.whl.metadata (10 kB) Collecting frozenlist>=1.1.1 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached frozenlist-1.6.0-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (16 kB) Collecting multidict<7.0,>=4.5 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached multidict-6.4.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (5.3 kB) Collecting propcache>=0.2.0 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached propcache-0.3.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (10 kB) Collecting yarl<2.0,>=1.17.0 (from aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) Using cached yarl-1.20.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (72 kB) Requirement already satisfied: idna>=2.0 in ./.venv3/lib64/python3.11/site-packages (from yarl<2.0,>=1.17.0->aiohttp<4->ome-zarr>=0.5.0->omero-cli-zarr) (3.10) Collecting asciitree (from zarr<3,>=2.8.1->ome-zarr>=0.5.0->omero-cli-zarr) Using cached asciitree-0.3.3-py3-none-any.whl Collecting fasteners (from zarr<3,>=2.8.1->ome-zarr>=0.5.0->omero-cli-zarr) Using cached fasteners-0.19-py3-none-any.whl.metadata (4.9 kB) Collecting numcodecs!=0.14.0,!=0.14.1,<0.16,>=0.10.0 (from zarr<3,>=2.8.1->ome-zarr>=0.5.0->omero-cli-zarr) Using cached numcodecs-0.15.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.9 kB) Collecting deprecated (from numcodecs!=0.14.0,!=0.14.1,<0.16,>=0.10.0->zarr<3,>=2.8.1->ome-zarr>=0.5.0->omero-cli-zarr) Using cached Deprecated-1.2.18-py2.py3-none-any.whl.metadata (5.7 kB) Collecting s3fs (from fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached s3fs-2025.5.1-py3-none-any.whl.metadata (1.9 kB) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (1.0.0) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (11.2.1) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (6.0.2) 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) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-zarr) (3.1.1) Collecting click>=8.1 (from dask->ome-zarr>=0.5.0->omero-cli-zarr) Using cached click-8.2.1-py3-none-any.whl.metadata (2.5 kB) Collecting cloudpickle>=3.0.0 (from dask->ome-zarr>=0.5.0->omero-cli-zarr) Using cached cloudpickle-3.1.1-py3-none-any.whl.metadata (7.1 kB) Requirement already satisfied: packaging>=20.0 in ./.venv3/lib64/python3.11/site-packages (from dask->ome-zarr>=0.5.0->omero-cli-zarr) (25.0) Collecting partd>=1.4.0 (from dask->ome-zarr>=0.5.0->omero-cli-zarr) Using cached partd-1.4.2-py3-none-any.whl.metadata (4.6 kB) Collecting importlib_metadata>=4.13.0 (from dask->ome-zarr>=0.5.0->omero-cli-zarr) Using cached importlib_metadata-8.7.0-py3-none-any.whl.metadata (4.8 kB) Collecting zipp>=3.20 (from importlib_metadata>=4.13.0->dask->ome-zarr>=0.5.0->omero-cli-zarr) Using cached zipp-3.22.0-py3-none-any.whl.metadata (3.6 kB) Collecting locket (from partd>=1.4.0->dask->ome-zarr>=0.5.0->omero-cli-zarr) Using cached locket-1.0.0-py2.py3-none-any.whl.metadata (2.8 kB) Collecting wrapt<2,>=1.10 (from deprecated->numcodecs!=0.14.0,!=0.14.1,<0.16,>=0.10.0->zarr<3,>=2.8.1->ome-zarr>=0.5.0->omero-cli-zarr) Using cached wrapt-1.17.2-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.4 kB) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.5.0->omero-cli-zarr) (3.4.2) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->ome-zarr>=0.5.0->omero-cli-zarr) (2025.4.26) Collecting aiobotocore<3.0.0,>=2.5.4 (from s3fs->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached aiobotocore-2.22.0-py3-none-any.whl.metadata (24 kB) Collecting aioitertools<1.0.0,>=0.5.1 (from aiobotocore<3.0.0,>=2.5.4->s3fs->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached aioitertools-0.12.0-py3-none-any.whl.metadata (3.8 kB) Collecting botocore<1.37.4,>=1.37.2 (from aiobotocore<3.0.0,>=2.5.4->s3fs->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached botocore-1.37.3-py3-none-any.whl.metadata (5.7 kB) Collecting python-dateutil<3.0.0,>=2.1 (from aiobotocore<3.0.0,>=2.5.4->s3fs->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB) Collecting jmespath<2.0.0,>=0.7.1 (from aiobotocore<3.0.0,>=2.5.4->s3fs->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) Using cached jmespath-1.0.1-py3-none-any.whl.metadata (7.6 kB) Requirement already satisfied: six>=1.5 in ./.venv3/lib64/python3.11/site-packages (from python-dateutil<3.0.0,>=2.1->aiobotocore<3.0.0,>=2.5.4->s3fs->fsspec[s3]!=2021.07.0,!=2023.9.0,>=0.8->ome-zarr>=0.5.0->omero-cli-zarr) (1.17.0) Collecting scipy>=1.11.4 (from scikit-image->ome-zarr>=0.5.0->omero-cli-zarr) Using cached scipy-1.15.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB) Collecting networkx>=3.0 (from scikit-image->ome-zarr>=0.5.0->omero-cli-zarr) Using cached networkx-3.4.2-py3-none-any.whl.metadata (6.3 kB) Collecting imageio!=2.35.0,>=2.33 (from scikit-image->ome-zarr>=0.5.0->omero-cli-zarr) Using cached imageio-2.37.0-py3-none-any.whl.metadata (5.2 kB) Collecting tifffile>=2022.8.12 (from scikit-image->ome-zarr>=0.5.0->omero-cli-zarr) Using cached tifffile-2025.5.26-py3-none-any.whl.metadata (32 kB) Collecting lazy-loader>=0.4 (from scikit-image->ome-zarr>=0.5.0->omero-cli-zarr) Using cached lazy_loader-0.4-py3-none-any.whl.metadata (7.6 kB) Using cached ome_zarr-0.11.1-py3-none-any.whl (40 kB) Using cached aiohttp-3.12.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (1.7 MB) Using cached multidict-6.4.4-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (223 kB) Using cached yarl-1.20.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (358 kB) Using cached zarr-2.18.7-py3-none-any.whl (211 kB) Using cached numcodecs-0.15.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (8.9 MB) Using cached aiohappyeyeballs-2.6.1-py3-none-any.whl (15 kB) Using cached aiosignal-1.3.2-py2.py3-none-any.whl (7.6 kB) Using cached attrs-25.3.0-py3-none-any.whl (63 kB) Using cached frozenlist-1.6.0-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (313 kB) Using cached fsspec-2025.5.1-py3-none-any.whl (199 kB) Using cached propcache-0.3.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (232 kB) Using cached dask-2025.5.1-py3-none-any.whl (1.5 MB) Using cached click-8.2.1-py3-none-any.whl (102 kB) Using cached cloudpickle-3.1.1-py3-none-any.whl (20 kB) Using cached importlib_metadata-8.7.0-py3-none-any.whl (27 kB) Using cached partd-1.4.2-py3-none-any.whl (18 kB) Using cached toolz-1.0.0-py3-none-any.whl (56 kB) Using cached zipp-3.22.0-py3-none-any.whl (9.8 kB) Using cached Deprecated-1.2.18-py2.py3-none-any.whl (10.0 kB) Using cached wrapt-1.17.2-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (83 kB) Using cached fasteners-0.19-py3-none-any.whl (18 kB) Using cached locket-1.0.0-py2.py3-none-any.whl (4.4 kB) Using cached s3fs-2025.5.1-py3-none-any.whl (30 kB) Using cached aiobotocore-2.22.0-py3-none-any.whl (78 kB) Using cached aioitertools-0.12.0-py3-none-any.whl (24 kB) Using cached botocore-1.37.3-py3-none-any.whl (13.3 MB) Using cached jmespath-1.0.1-py3-none-any.whl (20 kB) Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB) Using cached scikit_image-0.25.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (14.8 MB) Using cached imageio-2.37.0-py3-none-any.whl (315 kB) Using cached lazy_loader-0.4-py3-none-any.whl (12 kB) Using cached networkx-3.4.2-py3-none-any.whl (1.7 MB) Using cached scipy-1.15.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (37.7 MB) Using cached tifffile-2025.5.26-py3-none-any.whl (230 kB) Building wheels for collected packages: omero-cli-zarr Building wheel for omero-cli-zarr (pyproject.toml): started Building wheel for omero-cli-zarr (pyproject.toml): finished with status 'done' Created wheel for omero-cli-zarr: filename=omero_cli_zarr-0.0.2.dev451+g59cc4a1-py3-none-any.whl size=30997 sha256=fb41d38c0dd9e3cf467119ca211710306328f99fc1062765c81f1a05e13b597e Stored in directory: /tmp/pip-ephem-wheel-cache-rj8odnmg/wheels/dd/b9/0c/0415f7fe907b9498563db54fc83efe934b62c0a5e710ef7b23 Successfully built omero-cli-zarr Installing collected packages: asciitree, zipp, wrapt, toolz, tifffile, scipy, python-dateutil, propcache, networkx, multidict, locket, lazy-loader, jmespath, imageio, fsspec, frozenlist, fasteners, cloudpickle, click, attrs, aioitertools, aiohappyeyeballs, yarl, scikit-image, partd, importlib_metadata, deprecated, botocore, aiosignal, numcodecs, dask, aiohttp, zarr, aiobotocore, s3fs, ome-zarr, omero-cli-zarr Successfully installed aiobotocore-2.22.0 aiohappyeyeballs-2.6.1 aiohttp-3.12.2 aioitertools-0.12.0 aiosignal-1.3.2 asciitree-0.3.3 attrs-25.3.0 botocore-1.37.3 click-8.2.1 cloudpickle-3.1.1 dask-2025.5.1 deprecated-1.2.18 fasteners-0.19 frozenlist-1.6.0 fsspec-2025.5.1 imageio-2.37.0 importlib_metadata-8.7.0 jmespath-1.0.1 lazy-loader-0.4 locket-1.0.0 multidict-6.4.4 networkx-3.4.2 numcodecs-0.15.1 ome-zarr-0.11.1 omero-cli-zarr-0.0.2.dev451+g59cc4a1 partd-1.4.2 propcache-0.3.1 python-dateutil-2.9.0.post0 s3fs-2025.5.1 scikit-image-0.25.2 scipy-1.15.3 tifffile-2025.5.26 toolz-1.0.0 wrapt-1.17.2 yarl-1.20.0 zarr-2.18.7 zipp-3.22.0 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata Collecting omero-metadata Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-qao4xoi4/omero-metadata_12bec55ae7014d998486b257f790806e Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-qao4xoi4/omero-metadata_12bec55ae7014d998486b257f790806e Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 00288899039f6a04336664a71099406f61f709a1 Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (5.20.0) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (6.0.2) Requirement already satisfied: jinja2 in ./.venv3/lib64/python3.11/site-packages (from omero-metadata) (3.1.6) Collecting pandas (from omero-metadata) Using cached pandas-2.2.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (11.2.1) 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) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-metadata) (3.1.1) Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib64/python3.11/site-packages (from jinja2->omero-metadata) (3.0.2) Requirement already satisfied: python-dateutil>=2.8.2 in ./.venv3/lib64/python3.11/site-packages (from pandas->omero-metadata) (2.9.0.post0) Collecting pytz>=2020.1 (from pandas->omero-metadata) Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB) Collecting tzdata>=2022.7 (from pandas->omero-metadata) Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB) 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) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2025.4.26) Using cached pandas-2.2.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB) Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB) Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB) Building wheels for collected packages: omero-metadata Building wheel for omero-metadata (pyproject.toml): started Building wheel for omero-metadata (pyproject.toml): finished with status 'done' Created wheel for omero-metadata: filename=omero_metadata-0.13.1.dev0-py3-none-any.whl size=39282 sha256=b2415bf10b864f76696ae7f33e5967adfda85dd27864b41e17e1885d94562e39 Stored in directory: /tmp/pip-ephem-wheel-cache-goynybbf/wheels/6b/49/26/d56ff0fc3b918823c05ff86cc0686c3a577289ddc39151269b Successfully built omero-metadata Installing collected packages: pytz, tzdata, pandas, omero-metadata Successfully installed omero-metadata-0.13.1.dev0 pandas-2.2.3 pytz-2025.2 tzdata-2025.2 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render Collecting omero-cli-render Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-usanci_9/omero-cli-render_c4bbf665fdb948be8ec36b24b81faa69 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-usanci_9/omero-cli-render_c4bbf665fdb948be8ec36b24b81faa69 Running command git checkout -b merge_ci --track origin/merge_ci Switched to a new branch 'merge_ci' branch 'merge_ci' set up to track 'origin/merge_ci'. Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 5c42c769b63ae167434d15b5f3fb931df9effef7 Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (6.0.2) Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-render) (5.20.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.2.1) 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) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.1.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2025.4.26) Building wheels for collected packages: omero-cli-render Building wheel for omero-cli-render (pyproject.toml): started Building wheel for omero-cli-render (pyproject.toml): finished with status 'done' Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=19694 sha256=8c4ff124ee44d4925cd0946a195d4e839ee3c582880846f8872b037b38a3a12e Stored in directory: /tmp/pip-ephem-wheel-cache-vsr8gtzd/wheels/cc/67/86/ff54ee10a8ea8ae7a21cceb878741010ef1de4a7d93df129ee Successfully built omero-cli-render Installing collected packages: omero-cli-render Successfully installed omero-cli-render-0.8.2.dev0 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate Collecting omero-cli-duplicate Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-8_7nxxyp/omero-cli-duplicate_7bc0a219511a41089a4cdb4a6631a6c3 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-8_7nxxyp/omero-cli-duplicate_7bc0a219511a41089a4cdb4a6631a6c3 Running command git checkout -b merge_ci --track origin/merge_ci Switched to a new branch 'merge_ci' branch 'merge_ci' set up to track 'origin/merge_ci'. Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit e81c77f36190717e66940d95678827cb5e1802a8 Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib64/python3.11/site-packages (from omero-cli-duplicate) (5.20.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.2.1) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2) 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) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.1.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2025.4.26) Building wheels for collected packages: omero-cli-duplicate Building wheel for omero-cli-duplicate (pyproject.toml): started Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done' Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11541 sha256=be57284b5233b9a459c400835df59358573be08aa8e1170587ace4f0c32d9ac3 Stored in directory: /tmp/pip-ephem-wheel-cache-2f17ywx_/wheels/28/e4/77/20667ec1be487a1994d60f59ce11eeba2ac0c8c34aea209b46 Successfully built omero-cli-duplicate Installing collected packages: omero-cli-duplicate Successfully installed omero-cli-duplicate-0.4.1.dev0 + pip install omero-certificates Collecting omero-certificates Using cached omero_certificates-0.4.0-py3-none-any.whl.metadata (3.3 kB) Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib64/python3.11/site-packages (from omero-certificates) (5.20.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (11.2.1) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2) 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) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.6.0->omero-certificates) (3.1.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2025.4.26) Using cached omero_certificates-0.4.0-py3-none-any.whl (11 kB) Installing collected packages: omero-certificates Successfully installed omero-certificates-0.4.0 + for x in *.tar.gz + pip install -U omero_dropbox-5.7.1.dev0.tar.gz Processing ./omero_dropbox-5.7.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py in ./.venv3/lib64/python3.11/site-packages (from omero-dropbox==5.7.1.dev0) (5.20.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.2.1) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2) 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) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.1.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2025.4.26) Building wheels for collected packages: omero-dropbox Building wheel for omero-dropbox (pyproject.toml): started Building wheel for omero-dropbox (pyproject.toml): finished with status 'done' Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49138 sha256=f6ff6dd4bbc0e35cf04f97cf839b2187bc7edad1555dc91b88ca102583b722e5 Stored in directory: /home/omero/.cache/pip/wheels/97/54/5f/8dccf5c24b891c9bef25978dac72ee622eda35946855e06c92 Successfully built omero-dropbox Installing collected packages: omero-dropbox Successfully installed omero-dropbox-5.7.1.dev0 + for x in *.tar.gz + pip install -U omero_marshal-0.9.1.dev0.tar.gz Processing ./omero_marshal-0.9.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: omero_marshal Building wheel for omero_marshal (pyproject.toml): started Building wheel for omero_marshal (pyproject.toml): finished with status 'done' Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88126 sha256=9e6dc5705c1abf34d226afbcbb98e1eac565c6b2867cb8a6b5c076dafb7bf650 Stored in directory: /home/omero/.cache/pip/wheels/c6/fe/20/4909beb8cad01183b3ea19e12252f8ddec6c22448a9830df18 Successfully built omero_marshal Installing collected packages: omero_marshal Successfully installed omero_marshal-0.9.1.dev0 + for x in *.tar.gz + pip install -U omero_py-5.20.1.dev0.tar.gz Processing ./omero_py-5.20.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (2.2.6) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (11.2.1) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (6.0.2) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-py==5.20.1.dev0) (3.1.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py==5.20.1.dev0) (2025.4.26) Building wheels for collected packages: omero-py Building wheel for omero-py (pyproject.toml): started Building wheel for omero-py (pyproject.toml): finished with status 'done' Created wheel for omero-py: filename=omero_py-5.20.1.dev0-py3-none-any.whl size=2783385 sha256=2200564358112de50be70d8d10c5e83e43c5a262e56e0087e5ce6c59d4e47fca Stored in directory: /home/omero/.cache/pip/wheels/32/f0/8b/0c9b8cf4f8a22d20fdbdb6d870eee959c7bb16ef86f85fd19c Successfully built omero-py Installing collected packages: omero-py Attempting uninstall: omero-py Found existing installation: omero-py 5.20.0 Uninstalling omero-py-5.20.0: Successfully uninstalled omero-py-5.20.0 Successfully installed omero-py-5.20.1.dev0 + for x in *.tar.gz + pip install -U omero_scripts-5.9.1.dev0.tar.gz Processing ./omero_scripts-5.9.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: omero-scripts Building wheel for omero-scripts (pyproject.toml): started Building wheel for omero-scripts (pyproject.toml): finished with status 'done' Created wheel for omero-scripts: filename=omero_scripts-5.9.1.dev0-py3-none-any.whl size=136848 sha256=7b7bbd323af19948b0dd4e1b31740156eaf48b764121fda93636d98fee96b914 Stored in directory: /home/omero/.cache/pip/wheels/5d/64/64/66c19773daf66dee2b16f9ebd49fde08680f277d4fff67beed Successfully built omero-scripts Installing collected packages: omero-scripts Successfully installed omero-scripts-5.9.1.dev0 + for x in *.tar.gz + pip install -U omero_web-5.29.1.dev0.tar.gz Processing ./omero_web-5.29.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (5.20.1.dev0) Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.29.1.dev0) Using cached concurrent_log_handler-0.9.26-py3-none-any.whl.metadata (19 kB) Collecting Django<4.3,>=4.2.3 (from omero-web==5.29.1.dev0) Using cached django-4.2.21-py3-none-any.whl.metadata (4.2 kB) Collecting django-pipeline (from omero-web==5.29.1.dev0) Using cached django_pipeline-4.0.0-py3-none-any.whl.metadata (5.8 kB) Collecting django-cors-headers==3.7.0 (from omero-web==5.29.1.dev0) Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB) Collecting django-csp (from omero-web==5.29.1.dev0) Using cached django_csp-4.0-py3-none-any.whl.metadata (3.6 kB) Collecting whitenoise>=5.3.0 (from omero-web==5.29.1.dev0) Using cached whitenoise-6.9.0-py3-none-any.whl.metadata (3.6 kB) Collecting gunicorn>=19.3 (from omero-web==5.29.1.dev0) Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB) Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (0.9.1.dev0) Requirement already satisfied: Pillow in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (11.2.1) Requirement already satisfied: pytz in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (2025.2) Requirement already satisfied: portalocker in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (3.1.1) Requirement already satisfied: packaging in ./.venv3/lib64/python3.11/site-packages (from omero-web==5.29.1.dev0) (25.0) Collecting importlib-resources (from omero-web==5.29.1.dev0) Using cached importlib_resources-6.5.2-py3-none-any.whl.metadata (3.9 kB) Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0) Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB) Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.29.1.dev0) Using cached sqlparse-0.5.3-py3-none-any.whl.metadata (3.9 kB) Requirement already satisfied: urllib3<2 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.26.20) Requirement already satisfied: appdirs in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (1.0.0) Requirement already satisfied: numpy<3 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.2.6) Requirement already satisfied: PyYAML in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (6.0.2) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib64/python3.11/site-packages (from omero-py>=5.19.0->omero-web==5.29.1.dev0) (2.32.3) Requirement already satisfied: setuptools in ./.venv3/lib64/python3.11/site-packages (from django-pipeline->omero-web==5.29.1.dev0) (65.5.1) Collecting wheel (from django-pipeline->omero-web==5.29.1.dev0) Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.4.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (3.10) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib64/python3.11/site-packages (from requests->omero-py>=5.19.0->omero-web==5.29.1.dev0) (2025.4.26) Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB) Using cached django-4.2.21-py3-none-any.whl (8.0 MB) Using cached asgiref-3.8.1-py3-none-any.whl (23 kB) Using cached concurrent_log_handler-0.9.26-py3-none-any.whl (28 kB) Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB) Using cached sqlparse-0.5.3-py3-none-any.whl (44 kB) Using cached whitenoise-6.9.0-py3-none-any.whl (20 kB) Using cached django_csp-4.0-py3-none-any.whl (25 kB) Using cached django_pipeline-4.0.0-py3-none-any.whl (75 kB) Using cached importlib_resources-6.5.2-py3-none-any.whl (37 kB) Using cached wheel-0.45.1-py3-none-any.whl (72 kB) Building wheels for collected packages: omero-web Building wheel for omero-web (pyproject.toml): started Building wheel for omero-web (pyproject.toml): finished with status 'done' Created wheel for omero-web: filename=omero_web-5.29.1.dev0-py3-none-any.whl size=2817989 sha256=4b0f5b699af621b395aee8e2167e39407b1e6f711e2a155c740701986da11794 Stored in directory: /home/omero/.cache/pip/wheels/b6/72/73/a29488e9ae7a2242fcfdc532a2c6f9884a34cc378eb261962a Successfully built omero-web Installing collected packages: whitenoise, wheel, sqlparse, importlib-resources, gunicorn, concurrent-log-handler, asgiref, django-pipeline, Django, django-csp, django-cors-headers, omero-web Successfully installed Django-4.2.21 asgiref-3.8.1 concurrent-log-handler-0.9.26 django-cors-headers-3.7.0 django-csp-4.0 django-pipeline-4.0.0 gunicorn-23.0.0 importlib-resources-6.5.2 omero-web-5.29.1.dev0 sqlparse-0.5.3 wheel-0.45.1 whitenoise-6.9.0 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py Will not apply HSTS. The HSTS database must be a regular and non-world-writable file. ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled. --2025-05-28 01:03:45-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.110.133, 185.199.111.133, ... Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 122144 (119K) [text/plain] Saving to: ‘Figure_To_Pdf.py’ 0K .......... .......... .......... .......... .......... 41% 3.93M 0s 50K .......... .......... .......... .......... .......... 83% 5.90M 0s 100K .......... ......... 100% 42.1M=0.02s 2025-05-28 01:03:45 (5.51 MB/s) - ‘Figure_To_Pdf.py’ saved [122144/122144] + chmod 755 Figure_To_Pdf.py + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts + omero config set omero.db.name OMERO-server + omero config set omero.db.host pg + omero config set omero.db.user postgres + omero config set omero.data.dir /home/omero/omero-server-data + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time% + omero config set omero.db.poolsize 25 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts + omero config set omero.security.trustStorePassword changeit + omero config set omero.mail.config true + omero config set omero.mail.from qa@openmicroscopy.org.uk + omero config set omero.mail.host smtp.dundee.ac.uk + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED' + omero certificates OpenSSL 3.2.2 4 Jun 2024 (Library: OpenSSL 3.2.2 4 Jun 2024) certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12 + '[' false = true ']' + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade' Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server 2025-05-28 01:04:08,498 [ omego.db] DEBUG dbcommand => upgrade 2025-05-28 01:04:08,498 [ omego.db] DEBUG dbhost => localhost 2025-05-28 01:04:08,498 [ omego.db] DEBUG dbname => OMERO-server 2025-05-28 01:04:08,498 [ omego.db] DEBUG dbpass => omero 2025-05-28 01:04:08,498 [ omego.db] DEBUG dbuser => omero 2025-05-28 01:04:08,498 [ omego.db] DEBUG rootpass => omero 2025-05-28 01:04:08,498 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server 2025-05-28 01:04:08,498 [omego.extern] INFO Executing : omero version OMERO.py version: OMERO.server version: 5.6.3-552-5b2f02bbd9-ice36-b427 5.20.1.dev0 2025-05-28 01:04:10,195 [omego.extern] INFO Completed [1.697 s] 2025-05-28 01:04:10,195 [omego.extern] DEBUG Using omero CLI from omero 2025-05-28 01:04:10,195 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ... 2025-05-28 01:04:10,195 [omego.extern] INFO Running [current environment]: omero config get --show-password 2025-05-28 01:04:10,195 [omego.extern] INFO Executing : omero config get --show-password 2025-05-28 01:04:11,799 [omego.extern] INFO Completed [1.604 s] 2025-05-28 01:04:11,800 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2025-05-28 01:04:11,800 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version 2025-05-28 01:04:12,098 [omego.extern] INFO Completed [0.298 s] 2025-05-28 01:04:12,098 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.8\n' 2025-05-28 01:04:12,098 [ omego.db] INFO psql version: psql (PostgreSQL) 16.8 2025-05-28 01:04:12,098 [omego.extern] INFO Running [current environment]: omero config get --show-password 2025-05-28 01:04:12,098 [omego.extern] INFO Executing : omero config get --show-password 2025-05-28 01:04:13,708 [omego.extern] INFO Completed [1.610 s] 2025-05-28 01:04:13,708 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2025-05-28 01:04:13,708 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo 2025-05-28 01:04:14,164 [omego.extern] INFO Completed [0.456 s] 2025-05-28 01:04:14,164 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.8") at port "5432".\n' 2025-05-28 01:04:14,164 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 2025-05-28 01:04:14,164 [omego.extern] INFO Running [current environment]: omero config get --show-password 2025-05-28 01:04:14,164 [omego.extern] INFO Executing : omero config get --show-password 2025-05-28 01:04:15,767 [omego.extern] INFO Completed [1.603 s] 2025-05-28 01:04:15,767 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2025-05-28 01:04:15,767 [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 2025-05-28 01:04:16,230 [omego.extern] INFO Completed [0.463 s] 2025-05-28 01:04:16,230 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n' 2025-05-28 01:04:16,231 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0') 2025-05-28 01:04:16,233 [ omego.db] INFO Database is already at OMERO5.4__0 + export LANG=en_US.UTF-8 + LANG=en_US.UTF-8 + export LANGUAGE=en_US:en + LANGUAGE=en_US:en + export LC_ALL=en_US.UTF-8 + LC_ALL=en_US.UTF-8 + BUILD_ID=DONT_KILL_ME + omero admin start No descriptor given. Using etc/grid/default.xml Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry Waiting on startup. Use CTRL-C to exit + omero admin waitup Waiting on startup. Use CTRL-C to exit + omero admin diagnostics ================================================================================ OMERO Diagnostics (admin) ================================================================================ Commands: java -version 11.0.25 (/usr/bin/java) Commands: python -V 3.11.9 (/home/omero/workspace/OMERO-server/.venv3/bin/python) Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode) Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin) Commands: psql --version 16.8 (/usr/bin/psql) Commands: openssl version 3.2.24 (/usr/bin/openssl) Component: OMERO.py 5.20.1.dev0 Component: OMERO.server 5.6.3-552-5b2f02bbd9-ice36-b427 Server: icegridnode running Server: Blitz-0 active (pid = 3529, enabled) Server: Indexer-0 active (pid = 3552, enabled) Server: OMERO.Glacier2 active (pid = 3556, enabled) Server: OMERO.IceStorm active (pid = 3577, enabled) Server: Processor-0 activating (enabled) Server: Tables-0 activating (enabled) Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists Log files: Blitz-0.log 23.7 KB errors=0 warnings=1 Log files: DropBox.log n/a Log files: FileServer.log n/a Log files: Indexer-0.log 2.6 KB Log files: MonitorServer.log n/a Log files: Processor-0.log 592 B Log files: Tables-0.log 841 B Log files: TestDropBox.log n/a Log files: master.err empty Log files: master.out 30.5 KB Log files: Total size 0.06 MB Environment:OMERO_HOME=(unset) Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server Environment:OMERO_NODE=(unset) Environment:OMERO_MASTER=(unset) Environment:OMERO_USERDIR=(unset) Environment:OMERO_TMPDIR=(unset) 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 Environment:PYTHONPATH=(unset) Environment:ICE_HOME=/opt/ice-3.6.5 Environment:LD_LIBRARY_PATH=(unset) Environment:DYLD_LIBRARY_PATH=(unset) OMERO SSL port:4064 OMERO TCP port:4063 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0) JVM settings: Blitz-${index} -Xmx7200m JVM settings: Indexer-${index} -Xmx4800m JVM settings: PixelData-${index} -Xmx7200m JVM settings: Repository-${index} -Xmx4800m Jar: lib/server/formats-api.jar Bio-Formats API 8.2.0-SNAPSHOT 28 May 2025 dba86b6aa7acbf0f7443f70c738b4ad261b83456 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.2.0-SNAPSHOT 28 May 2025 dba86b6aa7acbf0f7443f70c738b4ad261b83456 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.2.0-SNAPSHOT 28 May 2025 dba86b6aa7acbf0f7443f70c738b4ad261b83456 Jar: lib/server/ome-codecs.jar OME Codecs 1.1.1-SNAPSHOT 28 May 2025 7018b114fc27d4552f1c91b381d508313e6aeb6f Jar: lib/server/ome-common.jar OME Common Java 6.0.26-SNAPSHOT 28 May 2025 7018b114fc27d4552f1c91b381d508313e6aeb6f Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 28 May 2025 7018b114fc27d4552f1c91b381d508313e6aeb6f Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 28 May 2025 7018b114fc27d4552f1c91b381d508313e6aeb6f Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 28 May 2025 7018b114fc27d4552f1c91b381d508313e6aeb6f Jar: lib/server/ome-xml.jar OME XML library 6.5.0-SNAPSHOT 28 May 2025 7018b114fc27d4552f1c91b381d508313e6aeb6f Jar: lib/server/omero-blitz.jar jar 5.8.3-SNAPSHOT Jar: lib/server/omero-common.jar jar 5.7.3-SNAPSHOT Jar: lib/server/omero-gateway.jar jar 5.10.3-SNAPSHOT Jar: lib/server/omero-model.jar jar 5.7.3-SNAPSHOT Jar: lib/server/omero-renderer.jar jar 5.6.3-SNAPSHOT Jar: lib/server/omero-romio.jar jar 5.8.3-SNAPSHOT Jar: lib/server/omero-server.jar jar 5.7.3-SNAPSHOT Jar: lib/server/omero-zarr-pixel-buffer-0.4.1.jar OMERO Zarr Pixel Buffer 0.4.1 7c2d45bab0b51137dada7abda144282d6dcc76e1 + deactivate + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin + export PATH + unset _OLD_VIRTUAL_PATH + '[' -n '' ']' + hash -r + '[' -n '' ']' + unset VIRTUAL_ENV + unset VIRTUAL_ENV_PROMPT + '[' '!' '' = nondestructive ']' + unset -f deactivate Finished: SUCCESS