03:17:09 Started by upstream project "Trigger" build number 79
03:17:09 originally caused by:
03:17:09 Started by timer
03:17:09 Running as SYSTEM
03:17:09 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
03:17:09 [OMERO-server] $ /bin/bash -xe /tmp/jenkins9251412613028425869.sh
03:17:09 + source /home/settings.env
03:17:09 ++ OMERO_DB_HOST=pg
03:17:09 ++ OMERO_DB_USER=postgres
03:17:09 ++ OMERO_DB_PASS=
03:17:09 ++ OMERO_ROOT_PASS=omero
03:17:09 ++ OMERO_DATA_DIR=/OMERO
03:17:09 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
03:17:09 + OMERO_DB_NAME=OMERO-server
03:17:09 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
03:17:09 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
03:17:09 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
03:17:09 + OMERO_DATA_DIR=/home/omero/omero-server-data
03:17:09 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
03:17:09 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
03:17:09 ++ deactivate nondestructive
03:17:09 ++ '[' -n '' ']'
03:17:09 ++ '[' -n '' ']'
03:17:09 ++ '[' -n /bin/bash -o -n '' ']'
03:17:09 ++ hash -r
03:17:09 ++ '[' -n '' ']'
03:17:09 ++ unset VIRTUAL_ENV
03:17:09 ++ '[' '!' nondestructive = nondestructive ']'
03:17:09 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
03:17:09 ++ export VIRTUAL_ENV
03:17:09 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
03:17:09 ++ 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
03:17:09 ++ export PATH
03:17:09 ++ '[' -n '' ']'
03:17:09 ++ '[' -z '' ']'
03:17:09 ++ _OLD_VIRTUAL_PS1=
03:17:09 ++ PS1='(.venv3) '
03:17:09 ++ export PS1
03:17:09 ++ '[' -n /bin/bash -o -n '' ']'
03:17:09 ++ hash -r
03:17:09 + omero admin stop
03:17:25 Server not running
03:17:26 + echo not running
03:17:26 not running
03:17:26 + sleep 5
03:17:31 + deactivate
03:17:31 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
03:17:31 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
03:17:31 + export PATH
03:17:31 + unset _OLD_VIRTUAL_PATH
03:17:31 + '[' -n '' ']'
03:17:31 + '[' -n /bin/bash -o -n '' ']'
03:17:31 + hash -r
03:17:31 + '[' -n '' ']'
03:17:31 + unset VIRTUAL_ENV
03:17:31 + '[' '!' '' = nondestructive ']'
03:17:31 + unset -f deactivate
03:17:31 + rm -rf /home/omero/workspace/OMERO-server/.venv3
03:17:32 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
03:17:38 + '[' false = true ']'
03:17:38 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
03:17:38 Skipping PURGE_DATA:CleanDbAndRepo
03:17:38 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.4-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-5.19.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.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
03:17:42 Copied 1 artifact from "OMERO-build" build number 70
03:17:42 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 69
03:17:42 Copied 2 artifacts from "OMERO-build-build" build number 70
03:17:42 [OMERO-server] $ /bin/bash -xe /tmp/jenkins1415868697251727323.sh
03:17:42 + source /home/settings.env
03:17:42 ++ OMERO_DB_HOST=pg
03:17:42 ++ OMERO_DB_USER=postgres
03:17:42 ++ OMERO_DB_PASS=
03:17:42 ++ OMERO_ROOT_PASS=omero
03:17:42 ++ OMERO_DATA_DIR=/OMERO
03:17:42 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
03:17:42 + OMERO_DB_NAME=OMERO-server
03:17:42 + OMERO_DATA_DIR=/home/omero/omero-server-data
03:17:42 + mkdir -p /home/omero/omero-server-data
03:17:42 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
03:17:42 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
03:17:42 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
03:17:42 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
03:17:42 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
03:17:42 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
03:17:42 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
03:17:42 ++ ls OMERO.server-5.6.3-467-6d87d9debb-ice36.zip
03:17:42 + ZIP=OMERO.server-5.6.3-467-6d87d9debb-ice36.zip
03:17:42 + '[' '!' -z '' ']'
03:17:42 + DIST=OMERO.server-5.6.3-467-6d87d9debb-ice36
03:17:42 + unzip OMERO.server-5.6.3-467-6d87d9debb-ice36.zip
03:17:43 Archive: OMERO.server-5.6.3-467-6d87d9debb-ice36.zip
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/blitz/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/grid/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/profiles/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/error/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/grid/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/luts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/luts/janelia/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/luts/ncsa_paledit/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/luts/wcif/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/analysis_scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/annotation_scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/export_scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/figure_scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/import_scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/scripts/omero/util_scripts/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/server/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/share/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/share/licenses/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/misc/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__1/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__10/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__11/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__2/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__3/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__4/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__5/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__6/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__7/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__8/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3A__9/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3__4/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3__5/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3__6/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO3__7/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO4.1__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO4.2__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO4.2__0/t/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO4.3__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO4.4__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO4__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.0__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.1__1/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.2__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.3__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4DEV__1/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4DEV__2/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4DEV__3/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/
03:17:43 creating: OMERO.server-5.6.3-467-6d87d9debb-ice36/var/
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/LICENSE.txt
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/backup.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/blitz/mail-senders.example
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/blitz/mail-server.example
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/build.properties
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/env.bat
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/env.sh
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/hibernate.properties
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/ice.config
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/logback-cli.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/logback-indexing-cli.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/logback-indexing.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/logback.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/mime.types
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/node1.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/node2.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/omero.properties
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/profiles/psql
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/rollover.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/Windows.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/error/maintainance.html
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/grid/README
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/grid/default.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/grid/templates.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/grid/windefault.xml
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/ice.config
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/internal.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/master.cfg
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/templates/robot.template
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/etc/testdropbox.config
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/history.rst
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/OMEZarrReader.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/activation.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/aggdesigner-algorithm.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/aircompressor.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/annotations.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/antlr.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/aopalliance.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/avatica-core.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/avatica-metrics.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/aws-java-sdk-core.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/aws-java-sdk-kms.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/aws-java-sdk-s3.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/base.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-all.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-anim.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-awt-util.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-bridge.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-codec.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-constants.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-css.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-dom.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-ext.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-extension.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-gui-util.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-gvt.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-i18n.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-parser.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-rasterizer-ext.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-rasterizer.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-script.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-slideshow.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-squiggle-ext.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-squiggle.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-svg-dom.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-svgbrowser.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-svggen.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-svgpp.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-svgrasterizer.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-swing.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-transcoder.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-ttf2svg.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-util.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/batik-xml.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/btm.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/bufr.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/byte-buddy-agent.jar
03:17:43 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/lib/client/byte-buddy.jar
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03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/psql-header.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/schema.sql
03:17:46 inflating: OMERO.server-5.6.3-467-6d87d9debb-ice36/sql/psql/OMERO5.4__0/views.sql
03:17:46 + rm -f OMERO.server-5.6.3-467-6d87d9debb-ice36.zip
03:17:46 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-467-6d87d9debb-ice36 /home/omero/workspace/OMERO-server/OMERO.server
03:17:46 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
03:17:46 ++ deactivate nondestructive
03:17:46 ++ '[' -n '' ']'
03:17:46 ++ '[' -n '' ']'
03:17:46 ++ '[' -n /bin/bash -o -n '' ']'
03:17:46 ++ hash -r
03:17:46 ++ '[' -n '' ']'
03:17:46 ++ unset VIRTUAL_ENV
03:17:46 ++ '[' '!' nondestructive = nondestructive ']'
03:17:46 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
03:17:46 ++ export VIRTUAL_ENV
03:17:46 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
03:17:46 ++ 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
03:17:46 ++ export PATH
03:17:46 ++ '[' -n '' ']'
03:17:46 ++ '[' -z '' ']'
03:17:46 ++ _OLD_VIRTUAL_PS1=
03:17:46 ++ PS1='(.venv3) '
03:17:46 ++ export PS1
03:17:46 ++ '[' -n /bin/bash -o -n '' ']'
03:17:46 ++ hash -r
03:17:46 + 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
03:17:46 Collecting zeroc-ice==3.6.5
03:17:47 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)
03:17:49 Installing collected packages: zeroc-ice
03:17:50 Successfully installed zeroc-ice-3.6.5
03:17:50 + pip install -U pip future
03:17:50 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
03:17:51 Collecting pip
03:17:51 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
03:17:51 Collecting future
03:17:51 Using cached future-1.0.0-py3-none-any.whl (491 kB)
03:17:51 Installing collected packages: pip, future
03:17:51 Attempting uninstall: pip
03:17:51 Found existing installation: pip 21.2.3
03:17:51 Uninstalling pip-21.2.3:
03:17:51 Successfully uninstalled pip-21.2.3
03:17:53 Successfully installed future-1.0.0 pip-24.0
03:17:53 + pip install markdown
03:17:54 Collecting markdown
03:17:54 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
03:17:54 Collecting importlib-metadata>=4.4 (from markdown)
03:17:54 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
03:17:54 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
03:17:54 Using cached zipp-3.18.2-py3-none-any.whl.metadata (3.5 kB)
03:17:54 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
03:17:54 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
03:17:54 Using cached zipp-3.18.2-py3-none-any.whl (8.3 kB)
03:17:54 Installing collected packages: zipp, importlib-metadata, markdown
03:17:54 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.2
03:17:55 + pip install reportlab
03:17:55 Collecting reportlab
03:17:55 Using cached reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
03:17:56 Collecting pillow>=9.0.0 (from reportlab)
03:17:56 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
03:17:56 Collecting chardet (from reportlab)
03:17:56 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
03:17:56 Using cached reportlab-4.2.0-py3-none-any.whl (1.9 MB)
03:17:56 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
03:17:56 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
03:17:57 Installing collected packages: pillow, chardet, reportlab
03:17:58 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
03:17:58 + pip install omego
03:17:59 Collecting omego
03:17:59 Using cached omego-0.7.0-py3-none-any.whl
03:17:59 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
03:18:00 Collecting yaclifw>=0.1.1 (from omego)
03:18:00 Using cached yaclifw-0.2.0-py3-none-any.whl
03:18:00 Collecting six (from yaclifw>=0.1.1->omego)
03:18:00 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
03:18:00 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
03:18:00 Installing collected packages: six, yaclifw, omego
03:18:00 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
03:18:00 + pip install tables
03:18:01 Collecting tables
03:18:01 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
03:18:02 Collecting numpy>=1.19.0 (from tables)
03:18:02 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
03:18:02 Collecting numexpr>=2.6.2 (from tables)
03:18:02 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
03:18:02 Collecting packaging (from tables)
03:18:02 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
03:18:02 Collecting py-cpuinfo (from tables)
03:18:02 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
03:18:03 Collecting blosc2>=2.3.0 (from tables)
03:18:03 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
03:18:03 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
03:18:03 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
03:18:03 Collecting msgpack (from blosc2>=2.3.0->tables)
03:18:03 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
03:18:03 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
03:18:03 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
03:18:03 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
03:18:03 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
03:18:03 Using cached packaging-24.0-py3-none-any.whl (53 kB)
03:18:03 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
03:18:03 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
03:18:03 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
03:18:04 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
03:18:08 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
03:18:08 + pip install jinja2
03:18:09 Collecting jinja2
03:18:09 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
03:18:09 Collecting MarkupSafe>=2.0 (from jinja2)
03:18:09 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
03:18:09 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
03:18:09 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
03:18:09 Installing collected packages: MarkupSafe, jinja2
03:18:09 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
03:18:09 + pip install omero-py
03:18:10 Collecting omero-py
03:18:10 Using cached omero_py-5.19.2-py3-none-any.whl.metadata (6.6 kB)
03:18:10 Collecting urllib3<2 (from omero-py)
03:18:10 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
03:18:10 Collecting appdirs (from omero-py)
03:18:10 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
03:18:10 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
03:18:10 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
03:18:10 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
03:18:10 Collecting PyYAML (from omero-py)
03:18:10 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
03:18:10 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
03:18:10 Collecting requests (from omero-py)
03:18:10 Downloading requests-2.32.2-py3-none-any.whl.metadata (4.6 kB)
03:18:11 Collecting portalocker (from omero-py)
03:18:11 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
03:18:11 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
03:18:11 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
03:18:11 Collecting idna<4,>=2.5 (from requests->omero-py)
03:18:11 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
03:18:11 Collecting certifi>=2017.4.17 (from requests->omero-py)
03:18:11 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
03:18:11 Using cached omero_py-5.19.2-py3-none-any.whl (2.8 MB)
03:18:11 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
03:18:11 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
03:18:11 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
03:18:11 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
03:18:11 Downloading requests-2.32.2-py3-none-any.whl (63 kB)
03:18:11 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 63.9/63.9 kB 2.4 MB/s eta 0:00:00
03:18:11 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
03:18:11 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
03:18:11 Using cached idna-3.7-py3-none-any.whl (66 kB)
03:18:12 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
03:18:16 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.2 portalocker-2.8.2 requests-2.32.2 urllib3-1.26.18
03:18:16 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
03:18:16 Collecting omero-metadata
03:18:16 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-1ibyzbti/omero-metadata_1c92b821b0bb4f8992c988c4b60f8874
03:18:16 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-1ibyzbti/omero-metadata_1c92b821b0bb4f8992c988c4b60f8874
03:18:18 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit be90e2365b5fcc5f308a589c340fca7473958e9e
03:18:18 Installing build dependencies: started
03:18:20 Installing build dependencies: finished with status 'done'
03:18:20 Getting requirements to build wheel: started
03:18:21 Getting requirements to build wheel: finished with status 'done'
03:18:21 Installing backend dependencies: started
03:18:22 Installing backend dependencies: finished with status 'done'
03:18:22 Preparing metadata (pyproject.toml): started
03:18:22 Preparing metadata (pyproject.toml): finished with status 'done'
03:18:22 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.2)
03:18:22 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
03:18:22 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
03:18:22 Collecting pandas (from omero-metadata)
03:18:22 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
03:18:22 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
03:18:22 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
03:18:22 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
03:18:22 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
03:18:22 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)
03:18:22 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)
03:18:22 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.2)
03:18:22 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
03:18:22 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
03:18:22 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
03:18:22 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
03:18:23 Collecting pytz>=2020.1 (from pandas->omero-metadata)
03:18:23 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
03:18:23 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
03:18:23 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
03:18:23 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)
03:18:23 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)
03:18:23 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
03:18:23 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)
03:18:23 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
03:18:23 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
03:18:23 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
03:18:23 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
03:18:23 Building wheels for collected packages: omero-metadata
03:18:23 Building wheel for omero-metadata (pyproject.toml): started
03:18:23 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
03:18:23 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=1bf55ecf2d8127f1f17c3f1f9fce3773d4c874b5f086dc4b117affbdd3bdb54f
03:18:23 Stored in directory: /tmp/pip-ephem-wheel-cache-omtf6k92/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
03:18:23 Successfully built omero-metadata
03:18:24 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
03:18:29 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
03:18:29 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
03:18:30 Collecting omero-cli-render
03:18:30 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-hpqhjrl6/omero-cli-render_b4c9f7bd7b79430589ae497bd5ad7938
03:18:30 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-hpqhjrl6/omero-cli-render_b4c9f7bd7b79430589ae497bd5ad7938
03:18:31 Running command git checkout -b merge_ci --track origin/merge_ci
03:18:31 Switched to a new branch 'merge_ci'
03:18:31 branch 'merge_ci' set up to track 'origin/merge_ci'.
03:18:31 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit c85647d2e939a7a250145d0d2a020bcb92bdd40f
03:18:31 Installing build dependencies: started
03:18:33 Installing build dependencies: finished with status 'done'
03:18:33 Getting requirements to build wheel: started
03:18:33 Getting requirements to build wheel: finished with status 'done'
03:18:33 Installing backend dependencies: started
03:18:34 Installing backend dependencies: finished with status 'done'
03:18:34 Preparing metadata (pyproject.toml): started
03:18:35 Preparing metadata (pyproject.toml): finished with status 'done'
03:18:35 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
03:18:35 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.2)
03:18:35 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
03:18:35 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
03:18:35 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
03:18:35 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
03:18:35 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)
03:18:35 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)
03:18:35 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.2)
03:18:35 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
03:18:35 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)
03:18:35 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
03:18:35 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)
03:18:35 Building wheels for collected packages: omero-cli-render
03:18:35 Building wheel for omero-cli-render (pyproject.toml): started
03:18:35 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
03:18:35 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=a57f61f73322396df745cdb2936136425da0db359b70c02f7ef07629df131695
03:18:35 Stored in directory: /tmp/pip-ephem-wheel-cache-_rzqrm4n/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
03:18:35 Successfully built omero-cli-render
03:18:35 Installing collected packages: omero-cli-render
03:18:35 Successfully installed omero-cli-render-0.8.1.dev0
03:18:35 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
03:18:36 Collecting omero-cli-duplicate
03:18:36 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-glpogto0/omero-cli-duplicate_4a32bdc879944b94bbfa0c809fd3d174
03:18:36 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-glpogto0/omero-cli-duplicate_4a32bdc879944b94bbfa0c809fd3d174
03:18:37 Running command git checkout -b merge_ci --track origin/merge_ci
03:18:37 Switched to a new branch 'merge_ci'
03:18:37 branch 'merge_ci' set up to track 'origin/merge_ci'.
03:18:37 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 17baa0fa701bef6330440b4fdf3625f1a176aff5
03:18:37 Installing build dependencies: started
03:18:40 Installing build dependencies: finished with status 'done'
03:18:40 Getting requirements to build wheel: started
03:18:40 Getting requirements to build wheel: finished with status 'done'
03:18:40 Installing backend dependencies: started
03:18:41 Installing backend dependencies: finished with status 'done'
03:18:41 Preparing metadata (pyproject.toml): started
03:18:41 Preparing metadata (pyproject.toml): finished with status 'done'
03:18:41 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.2)
03:18:41 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
03:18:41 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
03:18:41 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
03:18:41 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
03:18:41 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)
03:18:41 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
03:18:41 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)
03:18:41 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.2)
03:18:41 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
03:18:41 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)
03:18:41 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
03:18:41 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)
03:18:41 Building wheels for collected packages: omero-cli-duplicate
03:18:41 Building wheel for omero-cli-duplicate (pyproject.toml): started
03:18:42 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
03:18:42 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=46c8e9aa710f4ae4190cc72eb137baf0482a6c3947e49cfbfbdde903fd4bddd5
03:18:42 Stored in directory: /tmp/pip-ephem-wheel-cache-hrvqvvoo/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
03:18:42 Successfully built omero-cli-duplicate
03:18:42 Installing collected packages: omero-cli-duplicate
03:18:42 Successfully installed omero-cli-duplicate-0.4.1.dev0
03:18:42 + pip install omero-certificates
03:18:43 Collecting omero-certificates
03:18:43 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
03:18:43 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.2)
03:18:43 Collecting distro==1.8.0 (from omero-certificates)
03:18:43 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
03:18:43 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
03:18:43 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
03:18:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
03:18:43 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
03:18:43 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)
03:18:43 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
03:18:43 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)
03:18:43 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.2)
03:18:43 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
03:18:43 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)
03:18:43 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
03:18:43 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)
03:18:43 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
03:18:43 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
03:18:44 Installing collected packages: distro, omero-certificates
03:18:44 Successfully installed distro-1.8.0 omero-certificates-0.3.2
03:18:44 + for x in *.tar.gz
03:18:44 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
03:18:45 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
03:18:45 Installing build dependencies: started
03:18:48 Installing build dependencies: finished with status 'done'
03:18:48 Getting requirements to build wheel: started
03:18:48 Getting requirements to build wheel: finished with status 'done'
03:18:48 Installing backend dependencies: started
03:18:49 Installing backend dependencies: finished with status 'done'
03:18:49 Preparing metadata (pyproject.toml): started
03:18:49 Preparing metadata (pyproject.toml): finished with status 'done'
03:18:49 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.2)
03:18:49 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.18)
03:18:49 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
03:18:49 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
03:18:49 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
03:18:49 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.3.0)
03:18:49 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.1)
03:18:49 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5)
03:18:49 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.2)
03:18:49 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.8.2)
03:18:49 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.3.2)
03:18:49 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.7)
03:18:49 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.2.2)
03:18:49 Building wheels for collected packages: omero-dropbox
03:18:49 Building wheel for omero-dropbox (pyproject.toml): started
03:18:50 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
03:18:50 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49057 sha256=71917fe1d6af70d653d8b23b49a7641d09f678d5350b28a450d22b2ef01de961
03:18:50 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
03:18:50 Successfully built omero-dropbox
03:18:50 Installing collected packages: omero-dropbox
03:18:50 Successfully installed omero-dropbox-5.7.1.dev0
03:18:50 + for x in *.tar.gz
03:18:50 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
03:18:51 Processing ./omero_marshal-0.9.1.dev0.tar.gz
03:18:51 Installing build dependencies: started
03:18:54 Installing build dependencies: finished with status 'done'
03:18:54 Getting requirements to build wheel: started
03:18:54 Getting requirements to build wheel: finished with status 'done'
03:18:54 Installing backend dependencies: started
03:18:55 Installing backend dependencies: finished with status 'done'
03:18:55 Preparing metadata (pyproject.toml): started
03:18:56 Preparing metadata (pyproject.toml): finished with status 'done'
03:18:56 Building wheels for collected packages: omero_marshal
03:18:56 Building wheel for omero_marshal (pyproject.toml): started
03:18:56 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
03:18:56 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=58fcd8b9268602e52ea926c8a11fbf52133226b31a0066707b59b3a6baf89800
03:18:56 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
03:18:56 Successfully built omero_marshal
03:18:57 Installing collected packages: omero_marshal
03:18:57 Successfully installed omero_marshal-0.9.1.dev0
03:18:57 + for x in *.tar.gz
03:18:57 + pip install -U omero_py-5.19.3.dev0.tar.gz
03:18:57 Processing ./omero_py-5.19.3.dev0.tar.gz
03:18:58 Installing build dependencies: started
03:19:00 Installing build dependencies: finished with status 'done'
03:19:00 Getting requirements to build wheel: started
03:19:01 Getting requirements to build wheel: finished with status 'done'
03:19:01 Installing backend dependencies: started
03:19:02 Installing backend dependencies: finished with status 'done'
03:19:02 Preparing metadata (pyproject.toml): started
03:19:02 Preparing metadata (pyproject.toml): finished with status 'done'
03:19:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.18)
03:19:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.4.4)
03:19:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.0.0)
03:19:03 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.4)
03:19:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (10.3.0)
03:19:03 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (6.0.1)
03:19:03 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (3.6.5)
03:19:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.32.2)
03:19:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.8.2)
03:19:03 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.3.2)
03:19:03 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.7)
03:19:03 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (2024.2.2)
03:19:03 Building wheels for collected packages: omero-py
03:19:03 Building wheel for omero-py (pyproject.toml): started
03:19:04 Building wheel for omero-py (pyproject.toml): finished with status 'done'
03:19:04 Created wheel for omero-py: filename=omero_py-5.19.3.dev0-py3-none-any.whl size=2782819 sha256=9ff0cb5d71fd45a76ba30ffc27b063180fb96253fe137c8646d5e8aa207c80a9
03:19:04 Stored in directory: /home/omero/.cache/pip/wheels/da/30/d3/f2a83bdd6a0fbad84aa00dad9eb9431eedebb0e1310be5dd41
03:19:04 Successfully built omero-py
03:19:05 Installing collected packages: omero-py
03:19:05 Attempting uninstall: omero-py
03:19:05 Found existing installation: omero-py 5.19.2
03:19:05 Uninstalling omero-py-5.19.2:
03:19:05 Successfully uninstalled omero-py-5.19.2
03:19:08 Successfully installed omero-py-5.19.3.dev0
03:19:08 + for x in *.tar.gz
03:19:08 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
03:19:09 Processing ./omero_scripts-5.8.3.dev0.tar.gz
03:19:09 Installing build dependencies: started
03:19:12 Installing build dependencies: finished with status 'done'
03:19:12 Getting requirements to build wheel: started
03:19:12 Getting requirements to build wheel: finished with status 'done'
03:19:12 Installing backend dependencies: started
03:19:13 Installing backend dependencies: finished with status 'done'
03:19:13 Preparing metadata (pyproject.toml): started
03:19:13 Preparing metadata (pyproject.toml): finished with status 'done'
03:19:13 Building wheels for collected packages: omero-scripts
03:19:13 Building wheel for omero-scripts (pyproject.toml): started
03:19:14 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
03:19:14 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=054138367a7c634a02fa7b1d1e81470542a7c549f20c27767a78e820065c1d57
03:19:14 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
03:19:14 Successfully built omero-scripts
03:19:14 Installing collected packages: omero-scripts
03:19:14 Successfully installed omero-scripts-5.8.3.dev0
03:19:14 + for x in *.tar.gz
03:19:14 + pip install -U omero_web-5.26.1.dev0.tar.gz
03:19:15 Processing ./omero_web-5.26.1.dev0.tar.gz
03:19:15 Installing build dependencies: started
03:19:17 Installing build dependencies: finished with status 'done'
03:19:17 Getting requirements to build wheel: started
03:19:18 Getting requirements to build wheel: finished with status 'done'
03:19:18 Installing backend dependencies: started
03:19:19 Installing backend dependencies: finished with status 'done'
03:19:19 Preparing metadata (pyproject.toml): started
03:19:20 Preparing metadata (pyproject.toml): finished with status 'done'
03:19:20 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (5.19.3.dev0)
03:19:20 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.26.1.dev0)
03:19:20 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
03:19:20 Collecting Django<4.3,>=4.2.3 (from omero-web==5.26.1.dev0)
03:19:20 Using cached Django-4.2.13-py3-none-any.whl.metadata (4.1 kB)
03:19:21 Collecting django-pipeline==2.1.0 (from omero-web==5.26.1.dev0)
03:19:21 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
03:19:21 Collecting django-cors-headers==3.7.0 (from omero-web==5.26.1.dev0)
03:19:21 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
03:19:21 Collecting django-csp (from omero-web==5.26.1.dev0)
03:19:21 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
03:19:21 Collecting whitenoise>=5.3.0 (from omero-web==5.26.1.dev0)
03:19:21 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
03:19:21 Collecting gunicorn>=19.3 (from omero-web==5.26.1.dev0)
03:19:21 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
03:19:21 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (0.9.1.dev0)
03:19:21 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (10.3.0)
03:19:21 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2024.1)
03:19:21 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2.8.2)
03:19:21 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (24.0)
03:19:21 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
03:19:21 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
03:19:21 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
03:19:21 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
03:19:21 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.18)
03:19:21 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.4.4)
03:19:21 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.0.0)
03:19:21 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.4)
03:19:21 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (6.0.1)
03:19:21 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==5.26.1.dev0) (3.6.5)
03:19:21 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (2.32.2)
03:19:22 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.26.1.dev0)
03:19:22 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
03:19:22 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.3.2)
03:19:22 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (3.7)
03:19:22 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (2024.2.2)
03:19:22 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
03:19:22 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
03:19:22 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
03:19:22 Using cached Django-4.2.13-py3-none-any.whl (8.0 MB)
03:19:22 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
03:19:22 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
03:19:22 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
03:19:22 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
03:19:22 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
03:19:22 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
03:19:22 Building wheels for collected packages: omero-web
03:19:22 Building wheel for omero-web (pyproject.toml): started
03:19:25 Building wheel for omero-web (pyproject.toml): finished with status 'done'
03:19:25 Created wheel for omero-web: filename=omero_web-5.26.1.dev0-py3-none-any.whl size=2763002 sha256=262af3bc928c9c724b0b4f6d3826376ae5b9f48c9af35914262bfd1447a5921c
03:19:25 Stored in directory: /home/omero/.cache/pip/wheels/39/0a/67/1d8a66c1c2b5dc08464077685312666fac69440af8767d0453
03:19:25 Successfully built omero-web
03:19:25 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
03:19:30 Successfully installed Django-4.2.13 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-22.0.0 omero-web-5.26.1.dev0 sqlparse-0.5.0 typing-extensions-4.11.0 whitenoise-6.6.0
03:19:30 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
03:19:31 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
03:19:31 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
03:19:31 --2024-05-22 03:19:31-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
03:19:31 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.110.133, ...
03:19:31 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
03:19:31 HTTP request sent, awaiting response... 200 OK
03:19:31 Length: 95703 (93K) [text/plain]
03:19:31 Saving to: ‘Figure_To_Pdf.py’
03:19:31
03:19:31 0K .......... .......... .......... .......... .......... 53% 2.75M 0s
03:19:31 50K .......... .......... .......... .......... ... 100% 5.74M=0.03s
03:19:31
03:19:31 2024-05-22 03:19:31 (3.63 MB/s) - ‘Figure_To_Pdf.py’ saved [95703/95703]
03:19:31
03:19:31 + chmod 755 Figure_To_Pdf.py
03:19:31 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
03:19:31 + omero config set omero.db.name OMERO-server
03:19:34 + omero config set omero.db.host pg
03:19:36 + omero config set omero.db.user postgres
03:19:39 + omero config set omero.data.dir /home/omero/omero-server-data
03:19:41 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
03:19:43 + omero config set omero.db.poolsize 25
03:19:46 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
03:19:49 + omero config set omero.security.trustStorePassword changeit
03:19:51 + omero config set omero.mail.config true
03:19:54 + omero config set omero.mail.from qa@openmicroscopy.org.uk
03:19:56 + omero config set omero.mail.host smtp.dundee.ac.uk
03:19:59 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
03:20:02 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
03:20:04 + omero certificates
03:20:06 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
03:20:06 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
03:20:07 + '[' false = true ']'
03:20:07 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
03:20:07 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
03:20:07 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG dbcommand => upgrade
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG dbhost => localhost
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG dbname => OMERO-server
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG dbpass => omero
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG dbuser => omero
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG rootpass => omero
03:20:07 2024-05-22 03:20:07,253 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
03:20:07 2024-05-22 03:20:07,253 [omego.extern] INFO Executing : omero version
03:20:09 OMERO.py version:
03:20:09 OMERO.server version:
03:20:09 5.6.3-467-6d87d9debb-ice36
03:20:09 5.19.3.dev0
03:20:09 2024-05-22 03:20:09,615 [omego.extern] INFO Completed [2.362 s]
03:20:09 2024-05-22 03:20:09,616 [omego.extern] DEBUG Using omero CLI from omero
03:20:09 2024-05-22 03:20:09,616 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
03:20:09 2024-05-22 03:20:09,616 [omego.extern] INFO Running [current environment]: omero config get --show-password
03:20:09 2024-05-22 03:20:09,616 [omego.extern] INFO Executing : omero config get --show-password
03:20:11 2024-05-22 03:20:11,990 [omego.extern] INFO Completed [2.373 s]
03:20:11 2024-05-22 03:20:11,990 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
03:20:11 2024-05-22 03:20:11,991 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
03:20:12 2024-05-22 03:20:12,217 [omego.extern] INFO Completed [0.226 s]
03:20:12 2024-05-22 03:20:12,217 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
03:20:12 2024-05-22 03:20:12,218 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
03:20:12
03:20:12 2024-05-22 03:20:12,218 [omego.extern] INFO Running [current environment]: omero config get --show-password
03:20:12 2024-05-22 03:20:12,218 [omego.extern] INFO Executing : omero config get --show-password
03:20:14 2024-05-22 03:20:14,655 [omego.extern] INFO Completed [2.437 s]
03:20:14 2024-05-22 03:20:14,656 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
03:20:14 2024-05-22 03:20:14,656 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
03:20:14 2024-05-22 03:20:14,820 [omego.extern] INFO Completed [0.164 s]
03:20:14 2024-05-22 03:20:14,820 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.5") at port "5432".\n'
03:20:14 2024-05-22 03:20:14,821 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
03:20:14 2024-05-22 03:20:14,821 [omego.extern] INFO Running [current environment]: omero config get --show-password
03:20:14 2024-05-22 03:20:14,821 [omego.extern] INFO Executing : omero config get --show-password
03:20:17 2024-05-22 03:20:17,190 [omego.extern] INFO Completed [2.369 s]
03:20:17 2024-05-22 03:20:17,190 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
03:20:17 2024-05-22 03:20:17,191 [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
03:20:17 2024-05-22 03:20:17,658 [omego.extern] INFO Completed [0.467 s]
03:20:17 2024-05-22 03:20:17,659 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
03:20:17 2024-05-22 03:20:17,659 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
03:20:17 2024-05-22 03:20:17,662 [ omego.db] INFO Database is already at OMERO5.4__0
03:20:17 + export LANG=en_US.UTF-8
03:20:17 + LANG=en_US.UTF-8
03:20:17 + export LANGUAGE=en_US:en
03:20:17 + LANGUAGE=en_US:en
03:20:17 + export LC_ALL=en_US.UTF-8
03:20:17 + LC_ALL=en_US.UTF-8
03:20:17 + BUILD_ID=DONT_KILL_ME
03:20:17 + omero admin start
03:20:33 No descriptor given. Using etc/grid/default.xml
03:20:57 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
03:20:57 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
03:20:57 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
03:20:57 Waiting on startup. Use CTRL-C to exit
03:20:57 + omero admin waitup
03:21:00 Waiting on startup. Use CTRL-C to exit
03:21:01 + omero admin diagnostics
03:21:03
03:21:03 ================================================================================
03:21:03 OMERO Diagnostics (admin)
03:21:03 ================================================================================
03:21:03
03:21:03 Commands: java -version 17.0.11 (/usr/bin/java)
03:21:03 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
03:21:03 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
03:21:03 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
03:21:03 Commands: psql --version 16.2 (/usr/bin/psql)
03:21:03 Commands: openssl version 3.0.71 (/usr/bin/openssl)
03:21:03
03:21:03 Component: OMERO.py 5.19.3.dev0
03:21:03 Component: OMERO.server 5.6.3-467-6d87d9debb-ice36
03:21:03
03:21:03 Server: icegridnode running
03:21:03 Server: Blitz-0 active (pid = 3003, enabled)
03:21:03 Server: Indexer-0 active (pid = 3028, enabled)
03:21:03 Server: OMERO.Glacier2 active (pid = 3032, enabled)
03:21:03 Server: OMERO.IceStorm active (pid = 3052, enabled)
03:21:03 Server: Processor-0 activating (enabled)
03:21:03 Server: Tables-0 activating (enabled)
03:21:03
03:21:03 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
03:21:03 Log files: Blitz-0.log 22.2 KB errors=0 warnings=1
03:21:03 Log files: DropBox.log n/a
03:21:03 Log files: FileServer.log n/a
03:21:03 Log files: Indexer-0.log 2.6 KB
03:21:03 Log files: MonitorServer.log n/a
03:21:03 Log files: Processor-0.log 592 B
03:21:03 Log files: Tables-0.log 841 B
03:21:03 Log files: TestDropBox.log n/a
03:21:03 Log files: master.err empty
03:21:03 Log files: master.out 30.1 KB
03:21:03 Log files: Total size 0.06 MB
03:21:03
03:21:03
03:21:03 Environment:OMERO_HOME=(unset)
03:21:03 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
03:21:03 Environment:OMERO_NODE=(unset)
03:21:03 Environment:OMERO_MASTER=(unset)
03:21:03 Environment:OMERO_USERDIR=(unset)
03:21:03 Environment:OMERO_TMPDIR=(unset)
03:21:03 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
03:21:03 Environment:PYTHONPATH=(unset)
03:21:03 Environment:ICE_HOME=/opt/ice-3.6.5
03:21:03 Environment:LD_LIBRARY_PATH=(unset)
03:21:03 Environment:DYLD_LIBRARY_PATH=(unset)
03:21:03
03:21:03 OMERO SSL port:4064
03:21:03 OMERO TCP port:4063
03:21:03 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
03:21:03 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
03:21:03
03:21:03 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
03:21:03 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
03:21:03 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
03:21:03 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
03:21:03
03:21:03 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 22 May 2024 3889b30096149fd7600f8174e43dc2d4044fefe3
03:21:03 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 22 May 2024 3889b30096149fd7600f8174e43dc2d4044fefe3
03:21:03 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 22 May 2024 3889b30096149fd7600f8174e43dc2d4044fefe3
03:21:03 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 22 May 2024 cbbc435c38d162cca5a1116a1ffd789df67ce61b
03:21:03 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 22 May 2024 cbbc435c38d162cca5a1116a1ffd789df67ce61b
03:21:03 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 22 May 2024 cbbc435c38d162cca5a1116a1ffd789df67ce61b
03:21:03 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 22 May 2024 cbbc435c38d162cca5a1116a1ffd789df67ce61b
03:21:03 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 22 May 2024 cbbc435c38d162cca5a1116a1ffd789df67ce61b
03:21:03 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 22 May 2024 cbbc435c38d162cca5a1116a1ffd789df67ce61b
03:21:03 Jar: lib/server/omero-blitz.jar jar 5.7.4-SNAPSHOT
03:21:03 Jar: lib/server/omero-common.jar jar 5.6.7-SNAPSHOT
03:21:03 Jar: lib/server/omero-gateway.jar jar 5.9.2-SNAPSHOT
03:21:03 Jar: lib/server/omero-model.jar jar 5.6.15-SNAPSHOT
03:21:03 Jar: lib/server/omero-renderer.jar jar 5.5.17-SNAPSHOT
03:21:03 Jar: lib/server/omero-romio.jar jar 5.7.7-SNAPSHOT
03:21:03 Jar: lib/server/omero-server.jar jar 5.6.12-SNAPSHOT
03:21:04 + deactivate
03:21:04 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
03:21:04 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
03:21:04 + export PATH
03:21:04 + unset _OLD_VIRTUAL_PATH
03:21:04 + '[' -n '' ']'
03:21:04 + '[' -n /bin/bash -o -n '' ']'
03:21:04 + hash -r
03:21:04 + '[' -n '' ']'
03:21:04 + unset VIRTUAL_ENV
03:21:04 + '[' '!' '' = nondestructive ']'
03:21:04 + unset -f deactivate
03:21:04 Finished: SUCCESS
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