00:46:01 Started by upstream project "Trigger" build number 32
00:46:01 originally caused by:
00:46:01 Started by timer
00:46:01 Running as SYSTEM
00:46:01 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:46:01 [OMERO-server] $ /bin/bash -xe /tmp/jenkins6151429242347027439.sh
00:46:01 + source /home/settings.env
00:46:01 ++ OMERO_DB_HOST=pg
00:46:01 ++ OMERO_DB_USER=postgres
00:46:01 ++ OMERO_DB_PASS=
00:46:01 ++ OMERO_ROOT_PASS=omero
00:46:01 ++ OMERO_DATA_DIR=/OMERO
00:46:01 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:46:01 + OMERO_DB_NAME=OMERO-server
00:46:01 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:46:01 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:01 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:01 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:46:01 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:46:01 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:46:01 ++ deactivate nondestructive
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ '[' -n /bin/bash -o -n '' ']'
00:46:01 ++ hash -r
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ unset VIRTUAL_ENV
00:46:01 ++ '[' '!' nondestructive = nondestructive ']'
00:46:01 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:46:01 ++ export VIRTUAL_ENV
00:46:01 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:01 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:01 ++ export PATH
00:46:01 ++ '[' -n '' ']'
00:46:01 ++ '[' -z '' ']'
00:46:01 ++ _OLD_VIRTUAL_PS1=
00:46:01 ++ PS1='(.venv3) '
00:46:01 ++ export PS1
00:46:01 ++ '[' -n /bin/bash -o -n '' ']'
00:46:01 ++ hash -r
00:46:01 + omero admin stop
00:46:17 Server not running
00:46:18 + echo not running
00:46:18 not running
00:46:18 + sleep 5
00:46:23 + deactivate
00:46:23 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:46:23 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:23 + export PATH
00:46:23 + unset _OLD_VIRTUAL_PATH
00:46:23 + '[' -n '' ']'
00:46:23 + '[' -n /bin/bash -o -n '' ']'
00:46:23 + hash -r
00:46:23 + '[' -n '' ']'
00:46:23 + unset VIRTUAL_ENV
00:46:23 + '[' '!' '' = nondestructive ']'
00:46:23 + unset -f deactivate
00:46:23 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:46:23 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:46:28 + '[' false = true ']'
00:46:28 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:46:28 Skipping PURGE_DATA:CleanDbAndRepo
00:46:28 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero-dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero-py-5.19.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero-scripts-5.8.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero-web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
00:46:33 Copied 1 artifact from "OMERO-build" build number 28
00:46:33 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 28
00:46:33 Copied 2 artifacts from "OMERO-build-build" build number 29
00:46:33 [OMERO-server] $ /bin/bash -xe /tmp/jenkins12200603640495901043.sh
00:46:33 + source /home/settings.env
00:46:33 ++ OMERO_DB_HOST=pg
00:46:33 ++ OMERO_DB_USER=postgres
00:46:33 ++ OMERO_DB_PASS=
00:46:33 ++ OMERO_ROOT_PASS=omero
00:46:33 ++ OMERO_DATA_DIR=/OMERO
00:46:33 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:46:33 + OMERO_DB_NAME=OMERO-server
00:46:33 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:46:33 + mkdir -p /home/omero/omero-server-data
00:46:33 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:46:33 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:33 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:46:33 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:46:33 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:46:33 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:46:33 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:46:33 ++ ls OMERO.server-5.6.3-451-daf13c9b0c-ice36.zip
00:46:33 + ZIP=OMERO.server-5.6.3-451-daf13c9b0c-ice36.zip
00:46:33 + '[' '!' -z '' ']'
00:46:33 + DIST=OMERO.server-5.6.3-451-daf13c9b0c-ice36
00:46:33 + unzip OMERO.server-5.6.3-451-daf13c9b0c-ice36.zip
00:46:33 Archive: OMERO.server-5.6.3-451-daf13c9b0c-ice36.zip
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/blitz/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/grid/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/profiles/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/error/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/grid/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/luts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/luts/janelia/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/luts/ncsa_paledit/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/luts/wcif/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/analysis_scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/annotation_scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/export_scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/figure_scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/import_scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/scripts/omero/util_scripts/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/server/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/share/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/share/licenses/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/misc/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__1/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__10/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__11/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__2/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__3/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__4/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__5/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__6/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__7/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__8/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3A__9/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3__4/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3__5/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3__6/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO3__7/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO4.1__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO4.2__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO4.2__0/t/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO4.3__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO4.4__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO4__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.0__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.1__1/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.2__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.3__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4DEV__1/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4DEV__2/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4DEV__3/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/
00:46:33 creating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/var/
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/LICENSE.txt
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/backup.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/blitz/mail-senders.example
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/blitz/mail-server.example
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/build.properties
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/env.bat
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/env.sh
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/hibernate.properties
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/ice.config
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/logback-cli.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/logback-indexing-cli.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/logback-indexing.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/logback.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/mime.types
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/node1.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/node2.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/omero.properties
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/profiles/psql
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/rollover.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/Windows.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/error/maintainance.html
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/grid/README
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/grid/default.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/grid/templates.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/grid/windefault.xml
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/ice.config
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/internal.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/master.cfg
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/templates/robot.template
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/etc/testdropbox.config
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/history.rst
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/OMEZarrReader.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/activation.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/aggdesigner-algorithm.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/aircompressor.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/annotations.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/antlr.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/aopalliance.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/avatica-core.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/avatica-metrics.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/aws-java-sdk-core.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/aws-java-sdk-kms.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/aws-java-sdk-s3.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/base.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-all.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-anim.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-awt-util.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-bridge.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-codec.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-constants.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-css.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-dom.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-ext.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-extension.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-gui-util.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-gvt.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-i18n.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-parser.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-rasterizer-ext.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-rasterizer.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-script.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-slideshow.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-squiggle-ext.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-squiggle.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-svg-dom.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-svgbrowser.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-svggen.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-svgpp.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-svgrasterizer.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-swing.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-transcoder.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-ttf2svg.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-util.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/batik-xml.jar
00:46:33 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/lib/client/btm.jar
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00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/schema.sql
00:46:36 inflating: OMERO.server-5.6.3-451-daf13c9b0c-ice36/sql/psql/OMERO5.4__0/views.sql
00:46:36 + rm -f OMERO.server-5.6.3-451-daf13c9b0c-ice36.zip
00:46:36 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-451-daf13c9b0c-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:46:36 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:46:36 ++ deactivate nondestructive
00:46:36 ++ '[' -n '' ']'
00:46:36 ++ '[' -n '' ']'
00:46:36 ++ '[' -n /bin/bash -o -n '' ']'
00:46:36 ++ hash -r
00:46:36 ++ '[' -n '' ']'
00:46:36 ++ unset VIRTUAL_ENV
00:46:36 ++ '[' '!' nondestructive = nondestructive ']'
00:46:36 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:46:36 ++ export VIRTUAL_ENV
00:46:36 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:36 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:46:36 ++ export PATH
00:46:36 ++ '[' -n '' ']'
00:46:36 ++ '[' -z '' ']'
00:46:36 ++ _OLD_VIRTUAL_PS1=
00:46:36 ++ PS1='(.venv3) '
00:46:36 ++ export PS1
00:46:36 ++ '[' -n /bin/bash -o -n '' ']'
00:46:36 ++ hash -r
00:46:36 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
00:46:36 Collecting zeroc-ice==3.6.5
00:46:37 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
00:46:39 Installing collected packages: zeroc-ice
00:46:40 Successfully installed zeroc-ice-3.6.5
00:46:40 + pip install -U pip future
00:46:40 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:46:41 Collecting pip
00:46:41 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
00:46:41 Collecting future
00:46:41 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:46:41 Installing collected packages: pip, future
00:46:41 Attempting uninstall: pip
00:46:41 Found existing installation: pip 21.2.3
00:46:41 Uninstalling pip-21.2.3:
00:46:41 Successfully uninstalled pip-21.2.3
00:46:44 Successfully installed future-1.0.0 pip-24.0
00:46:44 + pip install markdown
00:46:46 Collecting markdown
00:46:46 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
00:46:46 Collecting importlib-metadata>=4.4 (from markdown)
00:46:46 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
00:46:46 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
00:46:46 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
00:46:46 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
00:46:46 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
00:46:46 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
00:46:46 Installing collected packages: zipp, importlib-metadata, markdown
00:46:46 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
00:46:47 + pip install reportlab
00:46:48 Collecting reportlab
00:46:48 Using cached reportlab-4.1.0-py3-none-any.whl.metadata (1.4 kB)
00:46:48 Collecting pillow>=9.0.0 (from reportlab)
00:46:48 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
00:46:48 Collecting chardet (from reportlab)
00:46:48 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:46:48 Using cached reportlab-4.1.0-py3-none-any.whl (1.9 MB)
00:46:48 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
00:46:49 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:46:49 Installing collected packages: pillow, chardet, reportlab
00:46:51 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.1.0
00:46:51 + pip install omego
00:46:52 Collecting omego
00:46:52 Using cached omego-0.7.0-py3-none-any.whl
00:46:52 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:46:52 Collecting yaclifw>=0.1.1 (from omego)
00:46:52 Using cached yaclifw-0.2.0-py3-none-any.whl
00:46:52 Collecting six (from yaclifw>=0.1.1->omego)
00:46:52 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:46:52 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:46:52 Installing collected packages: six, yaclifw, omego
00:46:52 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:46:53 + pip install tables
00:46:53 Collecting tables
00:46:53 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:46:54 Collecting numpy>=1.19.0 (from tables)
00:46:54 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:46:54 Collecting numexpr>=2.6.2 (from tables)
00:46:54 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
00:46:54 Collecting packaging (from tables)
00:46:54 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
00:46:54 Collecting py-cpuinfo (from tables)
00:46:54 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:46:54 Collecting blosc2>=2.3.0 (from tables)
00:46:54 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:46:54 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:46:54 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:46:55 Collecting msgpack (from blosc2>=2.3.0->tables)
00:46:55 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
00:46:55 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:46:55 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:46:55 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
00:46:55 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:46:55 Using cached packaging-24.0-py3-none-any.whl (53 kB)
00:46:55 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:46:55 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:46:55 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
00:46:55 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:46:59 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
00:47:00 + pip install jinja2
00:47:00 Collecting jinja2
00:47:00 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
00:47:01 Collecting MarkupSafe>=2.0 (from jinja2)
00:47:01 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
00:47:01 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
00:47:01 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
00:47:01 Installing collected packages: MarkupSafe, jinja2
00:47:01 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
00:47:01 + pip install omero-py
00:47:02 Collecting omero-py
00:47:02 Using cached omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
00:47:02 Collecting urllib3<2 (from omero-py)
00:47:02 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
00:47:02 Collecting appdirs (from omero-py)
00:47:02 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:47:02 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:47:02 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
00:47:02 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
00:47:02 Collecting PyYAML (from omero-py)
00:47:02 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:47:02 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:47:02 Collecting requests (from omero-py)
00:47:02 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
00:47:02 Collecting portalocker (from omero-py)
00:47:02 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
00:47:03 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:47:03 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:47:03 Collecting idna<4,>=2.5 (from requests->omero-py)
00:47:03 Using cached idna-3.6-py3-none-any.whl.metadata (9.9 kB)
00:47:03 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:47:03 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
00:47:03 Using cached omero_py-5.19.1-py3-none-any.whl (2.8 MB)
00:47:03 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
00:47:03 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:47:03 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
00:47:03 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
00:47:03 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
00:47:03 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
00:47:03 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:47:03 Using cached idna-3.6-py3-none-any.whl (61 kB)
00:47:03 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
00:47:06 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.6 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
00:47:06 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:47:07 Collecting omero-metadata
00:47:07 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-3a28b1id/omero-metadata_2f751119235549b1a23fd0b62ade28df
00:47:07 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-3a28b1id/omero-metadata_2f751119235549b1a23fd0b62ade28df
00:47:08 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 77ef6a19e1bd54fbff9fab65ead334950f96aa3f
00:47:08 Installing build dependencies: started
00:47:10 Installing build dependencies: finished with status 'done'
00:47:10 Getting requirements to build wheel: started
00:47:11 Getting requirements to build wheel: finished with status 'done'
00:47:11 Installing backend dependencies: started
00:47:12 Installing backend dependencies: finished with status 'done'
00:47:12 Preparing metadata (pyproject.toml): started
00:47:12 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:12 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
00:47:12 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
00:47:12 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
00:47:12 Collecting pandas (from omero-metadata)
00:47:12 Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:47:12 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
00:47:12 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:47:12 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:47:12 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:47:12 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.3.0)
00:47:12 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:47:12 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
00:47:12 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
00:47:12 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:47:12 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:47:12 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:47:12 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:47:12 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
00:47:12 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:47:12 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:47:13 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
00:47:13 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
00:47:13 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.6)
00:47:13 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
00:47:13 Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.0 MB)
00:47:13 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:47:13 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
00:47:13 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:47:13 Building wheels for collected packages: omero-metadata
00:47:13 Building wheel for omero-metadata (pyproject.toml): started
00:47:13 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:47:13 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=0aaa8e33aaa47530ea237a66a666abbbcc1bd1564ad7fc09bb712656f7d8b2f8
00:47:13 Stored in directory: /tmp/pip-ephem-wheel-cache-9cjc8mqw/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:47:13 Successfully built omero-metadata
00:47:13 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:47:19 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.1 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
00:47:19 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:47:20 Collecting omero-cli-render
00:47:20 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-bjyt81eh/omero-cli-render_84254d25c03442999538cf0e1db79cbc
00:47:20 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-bjyt81eh/omero-cli-render_84254d25c03442999538cf0e1db79cbc
00:47:21 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:21 Switched to a new branch 'merge_ci'
00:47:21 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:21 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit e1ab86e8b51980322d9a10629c46f577188924cd
00:47:21 Installing build dependencies: started
00:47:23 Installing build dependencies: finished with status 'done'
00:47:23 Getting requirements to build wheel: started
00:47:24 Getting requirements to build wheel: finished with status 'done'
00:47:24 Installing backend dependencies: started
00:47:25 Installing backend dependencies: finished with status 'done'
00:47:25 Preparing metadata (pyproject.toml): started
00:47:25 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:25 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
00:47:25 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
00:47:25 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
00:47:25 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
00:47:25 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:47:25 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:47:25 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.3.0)
00:47:25 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:47:25 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
00:47:25 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
00:47:25 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
00:47:25 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.6)
00:47:25 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
00:47:25 Building wheels for collected packages: omero-cli-render
00:47:25 Building wheel for omero-cli-render (pyproject.toml): started
00:47:25 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:47:25 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=8ca75f4a8a2b29e02331bd841ffe1f0d260a6576c04e977e9b2bd5fbef1f1ff2
00:47:25 Stored in directory: /tmp/pip-ephem-wheel-cache-bfiygvcr/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:47:25 Successfully built omero-cli-render
00:47:26 Installing collected packages: omero-cli-render
00:47:26 Successfully installed omero-cli-render-0.8.1.dev0
00:47:26 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:47:26 Collecting omero-cli-duplicate
00:47:26 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-z0dsn7wq/omero-cli-duplicate_024f3d3b70b14b25bd6e6cda3f292628
00:47:26 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-z0dsn7wq/omero-cli-duplicate_024f3d3b70b14b25bd6e6cda3f292628
00:47:27 Running command git checkout -b merge_ci --track origin/merge_ci
00:47:28 Switched to a new branch 'merge_ci'
00:47:28 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:47:28 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 2b14d7a3250963c31727c007a8696e969ade134c
00:47:28 Installing build dependencies: started
00:47:30 Installing build dependencies: finished with status 'done'
00:47:30 Getting requirements to build wheel: started
00:47:30 Getting requirements to build wheel: finished with status 'done'
00:47:30 Installing backend dependencies: started
00:47:31 Installing backend dependencies: finished with status 'done'
00:47:31 Preparing metadata (pyproject.toml): started
00:47:31 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:31 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
00:47:31 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
00:47:31 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:47:31 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:47:31 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:47:31 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.3.0)
00:47:31 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
00:47:31 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:47:31 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
00:47:31 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
00:47:31 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
00:47:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.6)
00:47:31 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
00:47:31 Building wheels for collected packages: omero-cli-duplicate
00:47:31 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:47:32 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:47:32 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=4f490d83095efc032880ee9de883e664b072bc4c1cd46500f5bc4056dcb3c92e
00:47:32 Stored in directory: /tmp/pip-ephem-wheel-cache-qllzmd0t/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:47:32 Successfully built omero-cli-duplicate
00:47:32 Installing collected packages: omero-cli-duplicate
00:47:32 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:47:32 + pip install omero-certificates
00:47:33 Collecting omero-certificates
00:47:33 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:47:33 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
00:47:33 Collecting distro==1.8.0 (from omero-certificates)
00:47:33 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:47:33 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
00:47:33 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:47:33 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:47:33 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:47:33 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.3.0)
00:47:33 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
00:47:33 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:47:33 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
00:47:33 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
00:47:33 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
00:47:33 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.6)
00:47:33 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
00:47:33 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:47:33 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:47:33 Installing collected packages: distro, omero-certificates
00:47:33 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:47:33 + for x in *.tar.gz
00:47:33 + pip install -U omero-dropbox-5.6.3.dev0.tar.gz
00:47:34 Processing ./omero-dropbox-5.6.3.dev0.tar.gz
00:47:34 Installing build dependencies: started
00:47:36 Installing build dependencies: finished with status 'done'
00:47:36 Getting requirements to build wheel: started
00:47:36 Getting requirements to build wheel: finished with status 'done'
00:47:36 Installing backend dependencies: started
00:47:37 Installing backend dependencies: finished with status 'done'
00:47:37 Preparing metadata (pyproject.toml): started
00:47:37 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:37 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
00:47:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
00:47:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
00:47:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
00:47:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
00:47:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.3.0)
00:47:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
00:47:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
00:47:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
00:47:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
00:47:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
00:47:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.6)
00:47:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
00:47:37 Building wheels for collected packages: omero-dropbox
00:47:37 Building wheel for omero-dropbox (pyproject.toml): started
00:47:38 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:47:38 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=49ba94ff8cf1d721e0f4ab37a2aa8668badc0b37b0b4d3960858b43c9e9b3b77
00:47:38 Stored in directory: /home/omero/.cache/pip/wheels/a5/63/29/4452e52704e5ad491f397a0013b20ebb9d413ceb110f8101d1
00:47:38 Successfully built omero-dropbox
00:47:38 Installing collected packages: omero-dropbox
00:47:38 Successfully installed omero-dropbox-5.6.3.dev0
00:47:38 + for x in *.tar.gz
00:47:38 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:47:39 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:47:39 Installing build dependencies: started
00:47:41 Installing build dependencies: finished with status 'done'
00:47:41 Getting requirements to build wheel: started
00:47:41 Getting requirements to build wheel: finished with status 'done'
00:47:41 Installing backend dependencies: started
00:47:42 Installing backend dependencies: finished with status 'done'
00:47:42 Preparing metadata (pyproject.toml): started
00:47:42 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:42 Building wheels for collected packages: omero_marshal
00:47:42 Building wheel for omero_marshal (pyproject.toml): started
00:47:43 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:47:43 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=1f61e8f3d6861c75ae0e6e27c6ccc38a71de333eac736e4feb1c1cdd73863c9a
00:47:43 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:47:43 Successfully built omero_marshal
00:47:43 Installing collected packages: omero_marshal
00:47:43 Successfully installed omero_marshal-0.9.1.dev0
00:47:43 + for x in *.tar.gz
00:47:43 + pip install -U omero-py-5.19.2.dev0.tar.gz
00:47:44 Processing ./omero-py-5.19.2.dev0.tar.gz
00:47:44 Installing build dependencies: started
00:47:46 Installing build dependencies: finished with status 'done'
00:47:46 Getting requirements to build wheel: started
00:47:46 Getting requirements to build wheel: finished with status 'done'
00:47:46 Installing backend dependencies: started
00:47:47 Installing backend dependencies: finished with status 'done'
00:47:47 Preparing metadata (pyproject.toml): started
00:47:47 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:47 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
00:47:47 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
00:47:47 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
00:47:47 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
00:47:47 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.3.0)
00:47:48 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
00:47:48 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (3.6.5)
00:47:48 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
00:47:48 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
00:47:48 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.3.2)
00:47:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.6)
00:47:48 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (2024.2.2)
00:47:48 Building wheels for collected packages: omero-py
00:47:48 Building wheel for omero-py (pyproject.toml): started
00:47:49 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:47:49 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2781992 sha256=359e68e28923fba06de8daa52fa2aeb757ad255be128351dfb36ed93b5a1af9d
00:47:49 Stored in directory: /home/omero/.cache/pip/wheels/9c/89/be/2493ce5a19b07550997c567708af9d7056cfee1f4f39ac699d
00:47:49 Successfully built omero-py
00:47:49 Installing collected packages: omero-py
00:47:49 Attempting uninstall: omero-py
00:47:49 Found existing installation: omero-py 5.19.1
00:47:49 Uninstalling omero-py-5.19.1:
00:47:50 Successfully uninstalled omero-py-5.19.1
00:47:52 Successfully installed omero-py-5.19.2.dev0
00:47:52 + for x in *.tar.gz
00:47:52 + pip install -U omero-scripts-5.8.1.dev0.tar.gz
00:47:53 Processing ./omero-scripts-5.8.1.dev0.tar.gz
00:47:53 Installing build dependencies: started
00:47:55 Installing build dependencies: finished with status 'done'
00:47:55 Getting requirements to build wheel: started
00:47:55 Getting requirements to build wheel: finished with status 'done'
00:47:55 Installing backend dependencies: started
00:47:56 Installing backend dependencies: finished with status 'done'
00:47:56 Preparing metadata (pyproject.toml): started
00:47:57 Preparing metadata (pyproject.toml): finished with status 'done'
00:47:57 Building wheels for collected packages: omero-scripts
00:47:57 Building wheel for omero-scripts (pyproject.toml): started
00:47:57 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:47:57 Created wheel for omero-scripts: filename=omero_scripts-5.8.1.dev0-py3-none-any.whl size=116570 sha256=36770242921fb75209d812b6c5ec7b25bc35c4c661ca3baea26c97f75fbd8b9e
00:47:57 Stored in directory: /home/omero/.cache/pip/wheels/ef/a0/80/e3393129cedc64a3ad2b8c2fa437d83a3d318cba65d425f5cf
00:47:57 Successfully built omero-scripts
00:47:57 Installing collected packages: omero-scripts
00:47:58 Successfully installed omero-scripts-5.8.1.dev0
00:47:58 + for x in *.tar.gz
00:47:58 + pip install -U omero-web-5.25.1.dev0.tar.gz
00:47:58 Processing ./omero-web-5.25.1.dev0.tar.gz
00:47:58 Installing build dependencies: started
00:48:01 Installing build dependencies: finished with status 'done'
00:48:01 Getting requirements to build wheel: started
00:48:01 Getting requirements to build wheel: finished with status 'done'
00:48:01 Installing backend dependencies: started
00:48:02 Installing backend dependencies: finished with status 'done'
00:48:02 Preparing metadata (pyproject.toml): started
00:48:02 Preparing metadata (pyproject.toml): finished with status 'done'
00:48:03 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.2.dev0)
00:48:03 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
00:48:03 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:48:03 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
00:48:03 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
00:48:03 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
00:48:03 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:48:03 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
00:48:03 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:48:03 Collecting django-csp (from omero-web==5.25.1.dev0)
00:48:03 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:48:03 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
00:48:03 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
00:48:03 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
00:48:03 Using cached gunicorn-21.2.0-py3-none-any.whl.metadata (4.1 kB)
00:48:03 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
00:48:03 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
00:48:03 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
00:48:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
00:48:03 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
00:48:04 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:48:04 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:48:04 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:48:04 Using cached sqlparse-0.4.4-py3-none-any.whl.metadata (4.0 kB)
00:48:04 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
00:48:04 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
00:48:04 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
00:48:04 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
00:48:04 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
00:48:04 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6.5)
00:48:04 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
00:48:04 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
00:48:04 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
00:48:04 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
00:48:04 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6)
00:48:04 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
00:48:04 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:48:04 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:48:04 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:48:04 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
00:48:04 Using cached gunicorn-21.2.0-py3-none-any.whl (80 kB)
00:48:04 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
00:48:04 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:48:04 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:48:04 Using cached sqlparse-0.4.4-py3-none-any.whl (41 kB)
00:48:04 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
00:48:04 Building wheels for collected packages: omero-web
00:48:04 Building wheel for omero-web (pyproject.toml): started
00:48:06 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:48:06 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2770069 sha256=69e1bcc0b4abf031e5d053279c6f29041f605d10c2a8bc7caf07b706ba875002
00:48:06 Stored in directory: /home/omero/.cache/pip/wheels/c5/4f/aa/011f4ecfdcda915571d213b068a736fbddf1b36b2e590de11a
00:48:06 Successfully built omero-web
00:48:06 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:48:10 Successfully installed Django-4.2.11 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-21.2.0 omero-web-5.25.1.dev0 sqlparse-0.4.4 typing-extensions-4.11.0 whitenoise-6.6.0
00:48:10 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:48:11 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:48:11 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:48:11 --2024-04-10 00:48:11-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:48:11 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.109.133, 185.199.108.133, 185.199.111.133, ...
00:48:11 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.109.133|:443... connected.
00:48:11 HTTP request sent, awaiting response... 200 OK
00:48:11 Length: 94614 (92K) [text/plain]
00:48:11 Saving to: ‘Figure_To_Pdf.py’
00:48:11
00:48:11 0K .......... .......... .......... .......... .......... 54% 3.24M 0s
00:48:11 50K .......... .......... .......... .......... .. 100% 8.51M=0.02s
00:48:11
00:48:11 2024-04-10 00:48:11 (4.53 MB/s) - ‘Figure_To_Pdf.py’ saved [94614/94614]
00:48:11
00:48:11 + chmod 755 Figure_To_Pdf.py
00:48:11 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:48:11 + omero config set omero.db.name OMERO-server
00:48:14 + omero config set omero.db.host pg
00:48:16 + omero config set omero.db.user postgres
00:48:18 + omero config set omero.data.dir /home/omero/omero-server-data
00:48:20 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:48:22 + omero config set omero.db.poolsize 25
00:48:24 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:48:26 + omero config set omero.security.trustStorePassword changeit
00:48:27 + omero config set omero.mail.config true
00:48:29 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:48:32 + omero config set omero.mail.host smtp.dundee.ac.uk
00:48:34 + omero certificates
00:48:36 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:48:36 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:48:36 + '[' false = true ']'
00:48:36 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:48:36 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:48:36 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:48:37 2024-04-10 00:48:37,060 [ omego.db] DEBUG dbcommand => upgrade
00:48:37 2024-04-10 00:48:37,060 [ omego.db] DEBUG dbhost => localhost
00:48:37 2024-04-10 00:48:37,060 [ omego.db] DEBUG dbname => OMERO-server
00:48:37 2024-04-10 00:48:37,060 [ omego.db] DEBUG dbpass => omero
00:48:37 2024-04-10 00:48:37,060 [ omego.db] DEBUG dbuser => omero
00:48:37 2024-04-10 00:48:37,061 [ omego.db] DEBUG rootpass => omero
00:48:37 2024-04-10 00:48:37,061 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:48:37 2024-04-10 00:48:37,061 [omego.extern] INFO Executing : omero version
00:48:38 OMERO.py version:
00:48:38 OMERO.server version:
00:48:38 5.6.3-451-daf13c9b0c-ice36
00:48:38 5.19.2.dev0
00:48:39 2024-04-10 00:48:39,207 [omego.extern] INFO Completed [2.146 s]
00:48:39 2024-04-10 00:48:39,207 [omego.extern] DEBUG Using omero CLI from omero
00:48:39 2024-04-10 00:48:39,207 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:48:39 2024-04-10 00:48:39,207 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:39 2024-04-10 00:48:39,207 [omego.extern] INFO Executing : omero config get --show-password
00:48:41 2024-04-10 00:48:41,018 [omego.extern] INFO Completed [1.810 s]
00:48:41 2024-04-10 00:48:41,018 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:41 2024-04-10 00:48:41,018 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:48:41 2024-04-10 00:48:41,275 [omego.extern] INFO Completed [0.256 s]
00:48:41 2024-04-10 00:48:41,276 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:48:41 2024-04-10 00:48:41,276 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:48:41
00:48:41 2024-04-10 00:48:41,276 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:41 2024-04-10 00:48:41,276 [omego.extern] INFO Executing : omero config get --show-password
00:48:43 2024-04-10 00:48:43,267 [omego.extern] INFO Completed [1.991 s]
00:48:43 2024-04-10 00:48:43,268 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:43 2024-04-10 00:48:43,268 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:48:43 2024-04-10 00:48:43,453 [omego.extern] INFO Completed [0.185 s]
00:48:43 2024-04-10 00:48:43,453 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.11") at port "5432".\n'
00:48:43 2024-04-10 00:48:43,453 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:48:43 2024-04-10 00:48:43,453 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:48:43 2024-04-10 00:48:43,453 [omego.extern] INFO Executing : omero config get --show-password
00:48:45 2024-04-10 00:48:45,547 [omego.extern] INFO Completed [2.093 s]
00:48:45 2024-04-10 00:48:45,547 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:48:45 2024-04-10 00:48:45,548 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:48:46 2024-04-10 00:48:46,213 [omego.extern] INFO Completed [0.665 s]
00:48:46 2024-04-10 00:48:46,213 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:48:46 2024-04-10 00:48:46,213 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:48:46 2024-04-10 00:48:46,216 [ omego.db] INFO Database is already at OMERO5.4__0
00:48:46 + export LANG=en_US.UTF-8
00:48:46 + LANG=en_US.UTF-8
00:48:46 + export LANGUAGE=en_US:en
00:48:46 + LANGUAGE=en_US:en
00:48:46 + export LC_ALL=en_US.UTF-8
00:48:46 + LC_ALL=en_US.UTF-8
00:48:46 + BUILD_ID=DONT_KILL_ME
00:48:46 + omero admin start
00:49:01 WARNING: lock files in /home/omero/omero-server-data
00:49:01 ----------------------------------------
00:49:01 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
00:49:01 ----------------------------------------
00:49:01
00:49:01 You may want to stop all server processes and remove
00:49:01 these files manually. Lock files can remain after an
00:49:01 abrupt server outage and are especially frequent on
00:49:01 remotely mounted filesystems like NFS.
00:49:01
00:49:01 No descriptor given. Using etc/grid/default.xml
00:49:24 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:49:24 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:49:24 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:49:24 Waiting on startup. Use CTRL-C to exit
00:49:25 + omero admin waitup
00:49:27 Waiting on startup. Use CTRL-C to exit
00:49:27 + omero admin diagnostics
00:49:29
00:49:29 ================================================================================
00:49:29 OMERO Diagnostics (admin)
00:49:29 ================================================================================
00:49:29
00:49:29 Commands: java -version 11.0.22 (/usr/bin/java)
00:49:29 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:49:29 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:49:29 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:49:29 Commands: psql --version 16.2 (/usr/bin/psql)
00:49:29 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:49:29
00:49:29 Component: OMERO.py 5.19.2.dev0
00:49:29 Component: OMERO.server 5.6.3-451-daf13c9b0c-ice36
00:49:29
00:49:29 Server: icegridnode running
00:49:30 Server: Blitz-0 active (pid = 2740, enabled)
00:49:30 Server: DropBox active (pid = 2762, enabled)
00:49:30 Server: FileServer active (pid = 2771, enabled)
00:49:30 Server: Indexer-0 active (pid = 2769, enabled)
00:49:30 Server: MonitorServer active (pid = 2776, enabled)
00:49:30 Server: OMERO.Glacier2 active (pid = 2788, enabled)
00:49:30 Server: OMERO.IceStorm active (pid = 2792, enabled)
00:49:30 Server: PixelData-0 active (pid = 2798, enabled)
00:49:30 Server: Processor-0 activating (enabled)
00:49:30 Server: Tables-0 activating (enabled)
00:49:30 Server: TestDropBox inactive (enabled)
00:49:30
00:49:30 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:49:30 Log files: Blitz-0.log 25.3 KB errors=0 warnings=1
00:49:30 Log files: DropBox.log 1.2 KB
00:49:30 Log files: FileServer.log 114 B
00:49:30 Log files: Indexer-0.log 2.6 KB
00:49:30 Log files: MonitorServer.log 1.1 KB
00:49:30 Log files: PixelData-0.log 3.4 KB
00:49:30 Log files: Processor-0.log 592 B
00:49:30 Log files: Tables-0.log 841 B
00:49:30 Log files: TestDropBox.log n/a
00:49:30 Log files: master.err 2.1 KB
00:49:30 Log files: master.out 41.5 KB
00:49:30 Log files: Total size 0.08 MB
00:49:30
00:49:30
00:49:30 Environment:OMERO_HOME=(unset)
00:49:30 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:49:30 Environment:OMERO_NODE=(unset)
00:49:30 Environment:OMERO_MASTER=(unset)
00:49:30 Environment:OMERO_USERDIR=(unset)
00:49:30 Environment:OMERO_TMPDIR=(unset)
00:49:30 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:30 Environment:PYTHONPATH=(unset)
00:49:30 Environment:ICE_HOME=/opt/ice-3.6.5
00:49:30 Environment:LD_LIBRARY_PATH=(unset)
00:49:30 Environment:DYLD_LIBRARY_PATH=(unset)
00:49:30
00:49:30 OMERO SSL port:4064
00:49:30 OMERO TCP port:4063
00:49:30 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:49:30 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:49:30
00:49:30 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:30 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:30 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:30 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:49:30
00:49:30 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 10 April 2024 472fd50c928e387538d9982724aca1629e3b4352
00:49:30 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 10 April 2024 472fd50c928e387538d9982724aca1629e3b4352
00:49:30 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 10 April 2024 472fd50c928e387538d9982724aca1629e3b4352
00:49:30 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.2-SNAPSHOT 10 April 2024 ff53cfbf446e34a40c8734954fcf9fde89787470
00:49:30 Jar: lib/server/ome-common.jar OME Common Java 6.0.22-SNAPSHOT 10 April 2024 ff53cfbf446e34a40c8734954fcf9fde89787470
00:49:30 Jar: lib/server/ome-jai.jar OME JAI 0.1.3-SNAPSHOT 10 April 2024 ff53cfbf446e34a40c8734954fcf9fde89787470
00:49:30 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.3-SNAPSHOT 10 April 2024 ff53cfbf446e34a40c8734954fcf9fde89787470
00:49:30 Jar: lib/server/ome-poi.jar OME POI 5.3.9-SNAPSHOT 10 April 2024 ff53cfbf446e34a40c8734954fcf9fde89787470
00:49:30 Jar: lib/server/ome-xml.jar OME XML library 6.3.5-SNAPSHOT 10 April 2024 ff53cfbf446e34a40c8734954fcf9fde89787470
00:49:30 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
00:49:30 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
00:49:30 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
00:49:30 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
00:49:30 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
00:49:30 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
00:49:30 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
00:49:30 + deactivate
00:49:30 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:49:30 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:49:30 + export PATH
00:49:30 + unset _OLD_VIRTUAL_PATH
00:49:30 + '[' -n '' ']'
00:49:30 + '[' -n /bin/bash -o -n '' ']'
00:49:30 + hash -r
00:49:30 + '[' -n '' ']'
00:49:30 + unset VIRTUAL_ENV
00:49:30 + '[' '!' '' = nondestructive ']'
00:49:30 + unset -f deactivate
00:49:31 Finished: SUCCESS
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