11:34:02 Started by upstream project "Trigger" build number 39
11:34:02 originally caused by:
11:34:02 Started by user devspace
11:34:02 Running as SYSTEM
11:34:02 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
11:34:02 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14346325287351457989.sh
11:34:02 + source /home/settings.env
11:34:02 ++ OMERO_DB_HOST=pg
11:34:02 ++ OMERO_DB_USER=postgres
11:34:02 ++ OMERO_DB_PASS=
11:34:02 ++ OMERO_ROOT_PASS=omero
11:34:02 ++ OMERO_DATA_DIR=/OMERO
11:34:02 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:34:02 + OMERO_DB_NAME=OMERO-server
11:34:02 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:34:02 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:34:02 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:34:02 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:34:02 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
11:34:02 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:34:02 ++ deactivate nondestructive
11:34:02 ++ '[' -n '' ']'
11:34:02 ++ '[' -n '' ']'
11:34:02 ++ '[' -n /bin/bash -o -n '' ']'
11:34:02 ++ hash -r
11:34:02 ++ '[' -n '' ']'
11:34:02 ++ unset VIRTUAL_ENV
11:34:02 ++ '[' '!' nondestructive = nondestructive ']'
11:34:02 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:34:02 ++ export VIRTUAL_ENV
11:34:02 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:34:02 ++ 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
11:34:02 ++ export PATH
11:34:02 ++ '[' -n '' ']'
11:34:02 ++ '[' -z '' ']'
11:34:02 ++ _OLD_VIRTUAL_PS1=
11:34:02 ++ PS1='(.venv3) '
11:34:02 ++ export PS1
11:34:02 ++ '[' -n /bin/bash -o -n '' ']'
11:34:02 ++ hash -r
11:34:02 + omero admin stop
11:34:15 Server not running
11:34:16 + echo not running
11:34:16 not running
11:34:16 + sleep 5
11:34:21 + deactivate
11:34:21 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
11:34:21 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:34:21 + export PATH
11:34:21 + unset _OLD_VIRTUAL_PATH
11:34:21 + '[' -n '' ']'
11:34:21 + '[' -n /bin/bash -o -n '' ']'
11:34:21 + hash -r
11:34:21 + '[' -n '' ']'
11:34:21 + unset VIRTUAL_ENV
11:34:21 + '[' '!' '' = nondestructive ']'
11:34:21 + unset -f deactivate
11:34:21 + rm -rf /home/omero/workspace/OMERO-server/.venv3
11:34:25 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
11:34:29 + '[' false = true ']'
11:34:29 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
11:34:29 Skipping PURGE_DATA:CleanDbAndRepo
11:34:29 + 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
11:34:33 Copied 1 artifact from "OMERO-build" build number 34
11:34:33 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 34
11:34:34 Copied 2 artifacts from "OMERO-build-build" build number 35
11:34:34 [OMERO-server] $ /bin/bash -xe /tmp/jenkins3905106393545789402.sh
11:34:34 + source /home/settings.env
11:34:34 ++ OMERO_DB_HOST=pg
11:34:34 ++ OMERO_DB_USER=postgres
11:34:34 ++ OMERO_DB_PASS=
11:34:34 ++ OMERO_ROOT_PASS=omero
11:34:34 ++ OMERO_DATA_DIR=/OMERO
11:34:34 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:34:34 + OMERO_DB_NAME=OMERO-server
11:34:34 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:34:34 + mkdir -p /home/omero/omero-server-data
11:34:34 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:34:34 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:34:34 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:34:34 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
11:34:34 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
11:34:34 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
11:34:34 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
11:34:34 ++ ls OMERO.server-5.6.3-453-c81c2b8a77-ice36.zip
11:34:34 + ZIP=OMERO.server-5.6.3-453-c81c2b8a77-ice36.zip
11:34:34 + '[' '!' -z '' ']'
11:34:34 + DIST=OMERO.server-5.6.3-453-c81c2b8a77-ice36
11:34:34 + unzip OMERO.server-5.6.3-453-c81c2b8a77-ice36.zip
11:34:34 Archive: OMERO.server-5.6.3-453-c81c2b8a77-ice36.zip
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/blitz/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/grid/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/profiles/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/error/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/grid/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/luts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/luts/janelia/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/luts/ncsa_paledit/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/luts/wcif/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/analysis_scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/annotation_scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/export_scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/figure_scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/import_scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/scripts/omero/util_scripts/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/server/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/share/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/share/licenses/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/misc/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__1/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__10/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__11/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__2/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__3/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__4/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__5/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__6/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__7/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__8/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3A__9/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3__4/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3__5/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3__6/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO3__7/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO4.1__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO4.2__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO4.2__0/t/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO4.3__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO4.4__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO4__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.0__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.1__1/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.2__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.3__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4DEV__1/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4DEV__2/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4DEV__3/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/
11:34:34 creating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/var/
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/LICENSE.txt
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/backup.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/blitz/mail-senders.example
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/blitz/mail-server.example
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/build.properties
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/env.bat
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/env.sh
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/hibernate.properties
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/ice.config
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/logback-cli.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/logback-indexing-cli.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/logback-indexing.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/logback.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/mime.types
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/node1.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/node2.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/omero.properties
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/profiles/psql
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/rollover.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/Windows.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/error/maintainance.html
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/grid/README
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/grid/default.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/grid/templates.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/grid/windefault.xml
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/ice.config
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/internal.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/master.cfg
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/templates/robot.template
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/etc/testdropbox.config
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/history.rst
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/OMEZarrReader.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/activation.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/aggdesigner-algorithm.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/aircompressor.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/annotations.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/antlr.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/aopalliance.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/avatica-core.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/avatica-metrics.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/aws-java-sdk-core.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/aws-java-sdk-kms.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/aws-java-sdk-s3.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/base.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-all.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-anim.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-awt-util.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-bridge.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-codec.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-constants.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-css.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-dom.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-ext.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-extension.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-gui-util.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-gvt.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-i18n.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-parser.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-rasterizer-ext.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-rasterizer.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-script.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-slideshow.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-squiggle-ext.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-squiggle.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-svg-dom.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-svgbrowser.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-svggen.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-svgpp.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-svgrasterizer.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-swing.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-transcoder.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-ttf2svg.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-util.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/batik-xml.jar
11:34:34 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/lib/client/btm.jar
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11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/psql-header.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/schema.sql
11:34:36 inflating: OMERO.server-5.6.3-453-c81c2b8a77-ice36/sql/psql/OMERO5.4__0/views.sql
11:34:36 + rm -f OMERO.server-5.6.3-453-c81c2b8a77-ice36.zip
11:34:36 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-453-c81c2b8a77-ice36 /home/omero/workspace/OMERO-server/OMERO.server
11:34:36 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:34:36 ++ deactivate nondestructive
11:34:36 ++ '[' -n '' ']'
11:34:36 ++ '[' -n '' ']'
11:34:36 ++ '[' -n /bin/bash -o -n '' ']'
11:34:36 ++ hash -r
11:34:36 ++ '[' -n '' ']'
11:34:36 ++ unset VIRTUAL_ENV
11:34:36 ++ '[' '!' nondestructive = nondestructive ']'
11:34:36 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:34:36 ++ export VIRTUAL_ENV
11:34:36 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:34:36 ++ 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
11:34:36 ++ export PATH
11:34:36 ++ '[' -n '' ']'
11:34:36 ++ '[' -z '' ']'
11:34:36 ++ _OLD_VIRTUAL_PS1=
11:34:36 ++ PS1='(.venv3) '
11:34:36 ++ export PS1
11:34:36 ++ '[' -n /bin/bash -o -n '' ']'
11:34:36 ++ hash -r
11:34:36 + 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
11:34:37 Collecting zeroc-ice==3.6.5
11:34:38 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)
11:34:41 Installing collected packages: zeroc-ice
11:34:42 Successfully installed zeroc-ice-3.6.5
11:34:42 + pip install -U pip future
11:34:42 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
11:34:43 Collecting pip
11:34:43 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
11:34:43 Collecting future
11:34:43 Using cached future-1.0.0-py3-none-any.whl (491 kB)
11:34:43 Installing collected packages: pip, future
11:34:43 Attempting uninstall: pip
11:34:43 Found existing installation: pip 21.2.3
11:34:43 Uninstalling pip-21.2.3:
11:34:43 Successfully uninstalled pip-21.2.3
11:34:45 Successfully installed future-1.0.0 pip-24.0
11:34:45 + pip install markdown
11:34:46 Collecting markdown
11:34:46 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
11:34:46 Collecting importlib-metadata>=4.4 (from markdown)
11:34:46 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
11:34:46 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
11:34:46 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
11:34:46 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
11:34:47 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
11:34:47 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
11:34:47 Installing collected packages: zipp, importlib-metadata, markdown
11:34:47 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
11:34:47 + pip install reportlab
11:34:48 Collecting reportlab
11:34:48 Using cached reportlab-4.1.0-py3-none-any.whl.metadata (1.4 kB)
11:34:48 Collecting pillow>=9.0.0 (from reportlab)
11:34:48 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
11:34:48 Collecting chardet (from reportlab)
11:34:48 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
11:34:48 Using cached reportlab-4.1.0-py3-none-any.whl (1.9 MB)
11:34:48 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
11:34:49 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
11:34:49 Installing collected packages: pillow, chardet, reportlab
11:34:50 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.1.0
11:34:50 + pip install omego
11:34:51 Collecting omego
11:34:51 Using cached omego-0.7.0-py3-none-any.whl
11:34:51 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
11:34:51 Collecting yaclifw>=0.1.1 (from omego)
11:34:51 Using cached yaclifw-0.2.0-py3-none-any.whl
11:34:51 Collecting six (from yaclifw>=0.1.1->omego)
11:34:51 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
11:34:51 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
11:34:52 Installing collected packages: six, yaclifw, omego
11:34:52 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
11:34:52 + pip install tables
11:34:52 Collecting tables
11:34:52 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
11:34:53 Collecting numpy>=1.19.0 (from tables)
11:34:53 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
11:34:53 Collecting numexpr>=2.6.2 (from tables)
11:34:53 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
11:34:53 Collecting packaging (from tables)
11:34:53 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
11:34:53 Collecting py-cpuinfo (from tables)
11:34:53 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
11:34:53 Collecting blosc2>=2.3.0 (from tables)
11:34:53 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
11:34:53 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
11:34:53 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
11:34:53 Collecting msgpack (from blosc2>=2.3.0->tables)
11:34:53 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
11:34:53 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
11:34:53 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
11:34:53 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
11:34:53 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
11:34:53 Using cached packaging-24.0-py3-none-any.whl (53 kB)
11:34:53 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
11:34:53 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
11:34:53 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
11:34:54 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
11:34:58 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
11:34:59 + pip install jinja2
11:34:59 Collecting jinja2
11:34:59 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
11:34:59 Collecting MarkupSafe>=2.0 (from jinja2)
11:34:59 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
11:34:59 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
11:34:59 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
11:35:00 Installing collected packages: MarkupSafe, jinja2
11:35:00 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
11:35:00 + pip install omero-py
11:35:00 Collecting omero-py
11:35:00 Using cached omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
11:35:00 Collecting urllib3<2 (from omero-py)
11:35:00 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
11:35:01 Collecting appdirs (from omero-py)
11:35:01 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
11:35:01 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
11:35:01 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
11:35:01 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
11:35:01 Collecting PyYAML (from omero-py)
11:35:01 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
11:35:01 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
11:35:01 Collecting requests (from omero-py)
11:35:01 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
11:35:01 Collecting portalocker (from omero-py)
11:35:01 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
11:35:01 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
11:35:01 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
11:35:01 Collecting idna<4,>=2.5 (from requests->omero-py)
11:35:01 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
11:35:01 Collecting certifi>=2017.4.17 (from requests->omero-py)
11:35:01 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
11:35:01 Using cached omero_py-5.19.1-py3-none-any.whl (2.8 MB)
11:35:01 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
11:35:01 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
11:35:01 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
11:35:02 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
11:35:02 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
11:35:02 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
11:35:02 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
11:35:02 Using cached idna-3.7-py3-none-any.whl (66 kB)
11:35:02 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
11:35:06 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
11:35:06 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
11:35:06 Collecting omero-metadata
11:35:06 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-e4oq198w/omero-metadata_f18a1db0976d496984566833d4db99a9
11:35:06 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-e4oq198w/omero-metadata_f18a1db0976d496984566833d4db99a9
11:35:08 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit f6d360221c456f124ef679ab3c3d93ec46836675
11:35:08 Installing build dependencies: started
11:35:09 Installing build dependencies: finished with status 'done'
11:35:09 Getting requirements to build wheel: started
11:35:10 Getting requirements to build wheel: finished with status 'done'
11:35:10 Installing backend dependencies: started
11:35:11 Installing backend dependencies: finished with status 'done'
11:35:11 Preparing metadata (pyproject.toml): started
11:35:11 Preparing metadata (pyproject.toml): finished with status 'done'
11:35:11 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
11:35:11 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
11:35:11 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
11:35:11 Collecting pandas (from omero-metadata)
11:35:11 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
11:35:11 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
11:35:11 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
11:35:11 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
11:35:11 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
11:35:11 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)
11:35:11 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)
11:35:11 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
11:35:11 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
11:35:11 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
11:35:12 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
11:35:12 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
11:35:12 Collecting pytz>=2020.1 (from pandas->omero-metadata)
11:35:12 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
11:35:12 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
11:35:12 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
11:35:12 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)
11:35:12 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)
11:35:12 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)
11:35:12 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)
11:35:12 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
11:35:12 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
11:35:12 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
11:35:12 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
11:35:12 Building wheels for collected packages: omero-metadata
11:35:12 Building wheel for omero-metadata (pyproject.toml): started
11:35:13 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
11:35:13 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=9626572b4c3b2df4890c9f678362509a000cc623cf7072ab0b83e33b8069fb13
11:35:13 Stored in directory: /tmp/pip-ephem-wheel-cache-9janthg6/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
11:35:13 Successfully built omero-metadata
11:35:13 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
11:35:21 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
11:35:21 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
11:35:21 Collecting omero-cli-render
11:35:21 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-vyvjuxk_/omero-cli-render_aeca1486033e4b7e83100d68f8d76217
11:35:21 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-vyvjuxk_/omero-cli-render_aeca1486033e4b7e83100d68f8d76217
11:35:22 Running command git checkout -b merge_ci --track origin/merge_ci
11:35:23 Switched to a new branch 'merge_ci'
11:35:23 branch 'merge_ci' set up to track 'origin/merge_ci'.
11:35:23 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 0de0f3c1f5e36be4c7138d8b9bb99b05eeadc2e6
11:35:23 Installing build dependencies: started
11:35:25 Installing build dependencies: finished with status 'done'
11:35:25 Getting requirements to build wheel: started
11:35:25 Getting requirements to build wheel: finished with status 'done'
11:35:25 Installing backend dependencies: started
11:35:27 Installing backend dependencies: finished with status 'done'
11:35:27 Preparing metadata (pyproject.toml): started
11:35:27 Preparing metadata (pyproject.toml): finished with status 'done'
11:35:27 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
11:35:27 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
11:35:27 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
11:35:27 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
11:35:27 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
11:35:27 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
11:35:27 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)
11:35:27 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)
11:35:27 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
11:35:27 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
11:35:27 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)
11:35:27 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)
11:35:27 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)
11:35:27 Building wheels for collected packages: omero-cli-render
11:35:27 Building wheel for omero-cli-render (pyproject.toml): started
11:35:27 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
11:35:27 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=247a74623a8ee5de01fc6c266b45bf708a8512bb3abf72292c2c491c6005d32f
11:35:27 Stored in directory: /tmp/pip-ephem-wheel-cache-e0mdqmji/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
11:35:27 Successfully built omero-cli-render
11:35:28 Installing collected packages: omero-cli-render
11:35:28 Successfully installed omero-cli-render-0.8.1.dev0
11:35:28 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
11:35:28 Collecting omero-cli-duplicate
11:35:28 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-z474zy82/omero-cli-duplicate_624b0600ac3c4628beef2994ca288a91
11:35:28 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-z474zy82/omero-cli-duplicate_624b0600ac3c4628beef2994ca288a91
11:35:29 Running command git checkout -b merge_ci --track origin/merge_ci
11:35:30 Switched to a new branch 'merge_ci'
11:35:30 branch 'merge_ci' set up to track 'origin/merge_ci'.
11:35:30 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit b80871d60a4d25e3a92f938d940dac0bbe4cfabf
11:35:30 Installing build dependencies: started
11:35:32 Installing build dependencies: finished with status 'done'
11:35:32 Getting requirements to build wheel: started
11:35:32 Getting requirements to build wheel: finished with status 'done'
11:35:32 Installing backend dependencies: started
11:35:34 Installing backend dependencies: finished with status 'done'
11:35:34 Preparing metadata (pyproject.toml): started
11:35:34 Preparing metadata (pyproject.toml): finished with status 'done'
11:35:34 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
11:35:34 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
11:35:34 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
11:35:34 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
11:35:34 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
11:35:34 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)
11:35:34 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
11:35:34 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)
11:35:34 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
11:35:34 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
11:35:34 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)
11:35:34 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)
11:35:34 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)
11:35:34 Building wheels for collected packages: omero-cli-duplicate
11:35:34 Building wheel for omero-cli-duplicate (pyproject.toml): started
11:35:35 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
11:35:35 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=e6481a6d664b05a5681ee1196f7039ccfc436caafd7e8d4da78f2a1621123df2
11:35:35 Stored in directory: /tmp/pip-ephem-wheel-cache-0yzxrmpw/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
11:35:35 Successfully built omero-cli-duplicate
11:35:35 Installing collected packages: omero-cli-duplicate
11:35:35 Successfully installed omero-cli-duplicate-0.4.1.dev0
11:35:35 + pip install omero-certificates
11:35:36 Collecting omero-certificates
11:35:36 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
11:35:36 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
11:35:36 Collecting distro==1.8.0 (from omero-certificates)
11:35:36 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
11:35:36 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
11:35:36 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
11:35:36 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
11:35:36 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
11:35:36 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)
11:35:36 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
11:35:36 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)
11:35:36 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
11:35:36 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
11:35:36 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)
11:35:36 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)
11:35:36 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)
11:35:36 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
11:35:36 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
11:35:36 Installing collected packages: distro, omero-certificates
11:35:36 Successfully installed distro-1.8.0 omero-certificates-0.3.2
11:35:36 + for x in *.tar.gz
11:35:36 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
11:35:37 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
11:35:37 Installing build dependencies: started
11:35:39 Installing build dependencies: finished with status 'done'
11:35:39 Getting requirements to build wheel: started
11:35:39 Getting requirements to build wheel: finished with status 'done'
11:35:39 Installing backend dependencies: started
11:35:41 Installing backend dependencies: finished with status 'done'
11:35:41 Preparing metadata (pyproject.toml): started
11:35:41 Preparing metadata (pyproject.toml): finished with status 'done'
11:35:41 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
11:35:41 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
11:35:41 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
11:35:41 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
11:35:41 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
11:35:41 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)
11:35:42 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
11:35:42 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)
11:35:42 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
11:35:42 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
11:35:42 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)
11:35:42 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.7)
11:35:42 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)
11:35:42 Building wheels for collected packages: omero-dropbox
11:35:42 Building wheel for omero-dropbox (pyproject.toml): started
11:35:42 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
11:35:42 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=56ca5d50c32a380a1ee0fc4d00bcc107f33ddb9f887c7f910b1070c6d677899a
11:35:42 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
11:35:42 Successfully built omero-dropbox
11:35:42 Installing collected packages: omero-dropbox
11:35:42 Successfully installed omero-dropbox-5.6.3.dev0
11:35:43 + for x in *.tar.gz
11:35:43 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
11:35:43 Processing ./omero_marshal-0.9.1.dev0.tar.gz
11:35:44 Installing build dependencies: started
11:35:46 Installing build dependencies: finished with status 'done'
11:35:46 Getting requirements to build wheel: started
11:35:46 Getting requirements to build wheel: finished with status 'done'
11:35:46 Installing backend dependencies: started
11:35:48 Installing backend dependencies: finished with status 'done'
11:35:48 Preparing metadata (pyproject.toml): started
11:35:48 Preparing metadata (pyproject.toml): finished with status 'done'
11:35:48 Building wheels for collected packages: omero_marshal
11:35:48 Building wheel for omero_marshal (pyproject.toml): started
11:35:49 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
11:35:49 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=5654758dca9cfc96aa0fdb09b050d477c4c4402fc79f45ce6246db4742c73af3
11:35:49 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
11:35:49 Successfully built omero_marshal
11:35:49 Installing collected packages: omero_marshal
11:35:49 Successfully installed omero_marshal-0.9.1.dev0
11:35:50 + for x in *.tar.gz
11:35:50 + pip install -U omero_py-5.19.2.dev0.tar.gz
11:35:50 Processing ./omero_py-5.19.2.dev0.tar.gz
11:35:51 Installing build dependencies: started
11:35:53 Installing build dependencies: finished with status 'done'
11:35:53 Getting requirements to build wheel: started
11:35:54 Getting requirements to build wheel: finished with status 'done'
11:35:54 Installing backend dependencies: started
11:35:55 Installing backend dependencies: finished with status 'done'
11:35:55 Preparing metadata (pyproject.toml): started
11:35:55 Preparing metadata (pyproject.toml): finished with status 'done'
11:35:55 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
11:35:55 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
11:35:55 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
11:35:55 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
11:35:55 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.3.0)
11:35:55 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
11:35:55 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)
11:35:55 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
11:35:55 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
11:35:55 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)
11:35:55 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.7)
11:35:55 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)
11:35:55 Building wheels for collected packages: omero-py
11:35:55 Building wheel for omero-py (pyproject.toml): started
11:35:57 Building wheel for omero-py (pyproject.toml): finished with status 'done'
11:35:57 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2782056 sha256=38784b71f03a541520b06817a0778b6fa93be9b2474bca91895103d3316a27aa
11:35:57 Stored in directory: /home/omero/.cache/pip/wheels/ea/20/e5/a97f3d9612c4992136d63e55f22641013e62a9095142003978
11:35:57 Successfully built omero-py
11:35:57 Installing collected packages: omero-py
11:35:57 Attempting uninstall: omero-py
11:35:57 Found existing installation: omero-py 5.19.1
11:35:57 Uninstalling omero-py-5.19.1:
11:35:58 Successfully uninstalled omero-py-5.19.1
11:36:01 Successfully installed omero-py-5.19.2.dev0
11:36:01 + for x in *.tar.gz
11:36:01 + pip install -U omero_scripts-5.8.1.dev0.tar.gz
11:36:02 Processing ./omero_scripts-5.8.1.dev0.tar.gz
11:36:02 Installing build dependencies: started
11:36:05 Installing build dependencies: finished with status 'done'
11:36:05 Getting requirements to build wheel: started
11:36:05 Getting requirements to build wheel: finished with status 'done'
11:36:05 Installing backend dependencies: started
11:36:06 Installing backend dependencies: finished with status 'done'
11:36:06 Preparing metadata (pyproject.toml): started
11:36:06 Preparing metadata (pyproject.toml): finished with status 'done'
11:36:06 Building wheels for collected packages: omero-scripts
11:36:06 Building wheel for omero-scripts (pyproject.toml): started
11:36:07 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
11:36:07 Created wheel for omero-scripts: filename=omero_scripts-5.8.1.dev0-py3-none-any.whl size=116570 sha256=ae8b89e8474a5bdbb55c601dacc2a204f48d247cde432bfc03d6b2ed65f8ae6b
11:36:07 Stored in directory: /home/omero/.cache/pip/wheels/a8/91/14/9f09f5cd22683712c3152aca8a47db0c74bc66dbf3240b737a
11:36:07 Successfully built omero-scripts
11:36:07 Installing collected packages: omero-scripts
11:36:07 Successfully installed omero-scripts-5.8.1.dev0
11:36:07 + for x in *.tar.gz
11:36:07 + pip install -U omero_web-5.25.1.dev0.tar.gz
11:36:08 Processing ./omero_web-5.25.1.dev0.tar.gz
11:36:08 Installing build dependencies: started
11:36:11 Installing build dependencies: finished with status 'done'
11:36:11 Getting requirements to build wheel: started
11:36:11 Getting requirements to build wheel: finished with status 'done'
11:36:11 Installing backend dependencies: started
11:36:12 Installing backend dependencies: finished with status 'done'
11:36:12 Preparing metadata (pyproject.toml): started
11:36:13 Preparing metadata (pyproject.toml): finished with status 'done'
11:36:13 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)
11:36:13 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
11:36:13 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
11:36:13 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
11:36:13 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
11:36:13 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
11:36:13 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
11:36:13 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
11:36:13 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
11:36:14 Collecting django-csp (from omero-web==5.25.1.dev0)
11:36:14 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
11:36:14 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
11:36:14 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
11:36:14 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
11:36:14 Using cached gunicorn-21.2.0-py3-none-any.whl.metadata (4.1 kB)
11:36:14 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)
11:36:14 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
11:36:14 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
11:36:14 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
11:36:14 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
11:36:14 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
11:36:14 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
11:36:14 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
11:36:14 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
11:36:14 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)
11:36:14 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)
11:36:14 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)
11:36:14 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)
11:36:14 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)
11:36:14 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)
11:36:14 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)
11:36:14 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
11:36:14 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
11:36:14 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)
11:36:14 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) (3.7)
11:36:14 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)
11:36:14 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
11:36:14 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
11:36:14 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
11:36:14 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
11:36:14 Using cached gunicorn-21.2.0-py3-none-any.whl (80 kB)
11:36:14 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
11:36:14 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
11:36:14 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
11:36:15 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
11:36:15 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
11:36:15 Building wheels for collected packages: omero-web
11:36:15 Building wheel for omero-web (pyproject.toml): started
11:36:16 Building wheel for omero-web (pyproject.toml): finished with status 'done'
11:36:16 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2772197 sha256=4c03e79e75ae58535509475ddfb649798a03c87cc1b333d20ee7d1280552165f
11:36:16 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
11:36:16 Successfully built omero-web
11:36:17 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
11:36:21 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-0.5.0 typing-extensions-4.11.0 whitenoise-6.6.0
11:36:21 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
11:36:21 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
11:36:21 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
11:36:21 --2024-04-15 11:36:21-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
11:36:22 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.109.133, 185.199.108.133, ...
11:36:22 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
11:36:22 HTTP request sent, awaiting response... 200 OK
11:36:22 Length: 94614 (92K) [text/plain]
11:36:22 Saving to: ‘Figure_To_Pdf.py’
11:36:22
11:36:22 0K .......... .......... .......... .......... .......... 54% 2.11M 0s
11:36:22 50K .......... .......... .......... .......... .. 100% 6.21M=0.03s
11:36:22
11:36:22 2024-04-15 11:36:22 (3.02 MB/s) - ‘Figure_To_Pdf.py’ saved [94614/94614]
11:36:22
11:36:22 + chmod 755 Figure_To_Pdf.py
11:36:22 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
11:36:22 + omero config set omero.db.name OMERO-server
11:36:25 + omero config set omero.db.host pg
11:36:27 + omero config set omero.db.user postgres
11:36:30 + omero config set omero.data.dir /home/omero/omero-server-data
11:36:31 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
11:36:33 + omero config set omero.db.poolsize 25
11:36:35 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
11:36:37 + omero config set omero.security.trustStorePassword changeit
11:36:39 + omero config set omero.mail.config true
11:36:40 + omero config set omero.mail.from qa@openmicroscopy.org.uk
11:36:42 + omero config set omero.mail.host smtp.dundee.ac.uk
11:36:44 + omero certificates
11:36:45 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
11:36:45 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
11:36:45 + '[' false = true ']'
11:36:45 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
11:36:45 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
11:36:45 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG dbcommand => upgrade
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG dbhost => localhost
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG dbname => OMERO-server
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG dbpass => omero
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG dbuser => omero
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG rootpass => omero
11:36:46 2024-04-15 11:36:46,044 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
11:36:46 2024-04-15 11:36:46,044 [omego.extern] INFO Executing : omero version
11:36:47 OMERO.py version:
11:36:47 OMERO.server version:
11:36:47 5.6.3-453-c81c2b8a77-ice36
11:36:47 5.19.2.dev0
11:36:47 2024-04-15 11:36:47,958 [omego.extern] INFO Completed [1.914 s]
11:36:47 2024-04-15 11:36:47,959 [omego.extern] DEBUG Using omero CLI from omero
11:36:47 2024-04-15 11:36:47,959 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
11:36:47 2024-04-15 11:36:47,959 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:36:47 2024-04-15 11:36:47,959 [omego.extern] INFO Executing : omero config get --show-password
11:36:49 2024-04-15 11:36:49,823 [omego.extern] INFO Completed [1.864 s]
11:36:49 2024-04-15 11:36:49,823 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:36:49 2024-04-15 11:36:49,823 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
11:36:50 2024-04-15 11:36:50,207 [omego.extern] INFO Completed [0.384 s]
11:36:50 2024-04-15 11:36:50,208 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
11:36:50 2024-04-15 11:36:50,208 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
11:36:50
11:36:50 2024-04-15 11:36:50,208 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:36:50 2024-04-15 11:36:50,208 [omego.extern] INFO Executing : omero config get --show-password
11:36:51 2024-04-15 11:36:51,795 [omego.extern] INFO Completed [1.587 s]
11:36:51 2024-04-15 11:36:51,796 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:36:51 2024-04-15 11:36:51,796 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
11:36:52 2024-04-15 11:36:52,003 [omego.extern] INFO Completed [0.207 s]
11:36:52 2024-04-15 11:36:52,003 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.9") at port "5432".\n'
11:36:52 2024-04-15 11:36:52,003 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
11:36:52 2024-04-15 11:36:52,003 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:36:52 2024-04-15 11:36:52,003 [omego.extern] INFO Executing : omero config get --show-password
11:36:53 2024-04-15 11:36:53,778 [omego.extern] INFO Completed [1.775 s]
11:36:53 2024-04-15 11:36:53,779 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:36:53 2024-04-15 11:36:53,779 [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
11:36:54 2024-04-15 11:36:54,543 [omego.extern] INFO Completed [0.764 s]
11:36:54 2024-04-15 11:36:54,543 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
11:36:54 2024-04-15 11:36:54,543 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
11:36:54 2024-04-15 11:36:54,545 [ omego.db] INFO Database is already at OMERO5.4__0
11:36:54 + export LANG=en_US.UTF-8
11:36:54 + LANG=en_US.UTF-8
11:36:54 + export LANGUAGE=en_US:en
11:36:54 + LANGUAGE=en_US:en
11:36:54 + export LC_ALL=en_US.UTF-8
11:36:54 + LC_ALL=en_US.UTF-8
11:36:54 + BUILD_ID=DONT_KILL_ME
11:36:54 + omero admin start
11:37:16 WARNING: lock files in /home/omero/omero-server-data
11:37:16 ----------------------------------------
11:37:16 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
11:37:16 ----------------------------------------
11:37:16
11:37:16 You may want to stop all server processes and remove
11:37:16 these files manually. Lock files can remain after an
11:37:16 abrupt server outage and are especially frequent on
11:37:16 remotely mounted filesystems like NFS.
11:37:16
11:37:16 No descriptor given. Using etc/grid/default.xml
11:37:44 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
11:37:44 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
11:37:44 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
11:37:44 Waiting on startup. Use CTRL-C to exit
11:37:44 + omero admin waitup
11:37:46 Waiting on startup. Use CTRL-C to exit
11:37:47 + omero admin diagnostics
11:37:49
11:37:49 ================================================================================
11:37:49 OMERO Diagnostics (admin)
11:37:49 ================================================================================
11:37:49
11:37:49 Commands: java -version 11.0.22 (/usr/bin/java)
11:37:49 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
11:37:49 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
11:37:49 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
11:37:49 Commands: psql --version 16.2 (/usr/bin/psql)
11:37:49 Commands: openssl version 3.0.71 (/usr/bin/openssl)
11:37:49
11:37:49 Component: OMERO.py 5.19.2.dev0
11:37:49 Component: OMERO.server 5.6.3-453-c81c2b8a77-ice36
11:37:49
11:37:49 Server: icegridnode running
11:37:49 Server: Blitz-0 active (pid = 2337, enabled)
11:37:49 Server: DropBox active (pid = 2358, enabled)
11:37:49 Server: FileServer active (pid = 2367, enabled)
11:37:49 Server: Indexer-0 active (pid = 2368, enabled)
11:37:49 Server: MonitorServer active (pid = 2370, enabled)
11:37:49 Server: OMERO.Glacier2 active (pid = 2386, enabled)
11:37:49 Server: OMERO.IceStorm active (pid = 2391, enabled)
11:37:49 Server: PixelData-0 active (pid = 2407, enabled)
11:37:49 Server: Processor-0 activating (enabled)
11:37:49 Server: Tables-0 activating (enabled)
11:37:49 Server: TestDropBox inactive (enabled)
11:37:49
11:37:49 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
11:37:49 Log files: Blitz-0.log 25.3 KB errors=0 warnings=1
11:37:49 Log files: DropBox.log 1.2 KB
11:37:49 Log files: FileServer.log 114 B
11:37:49 Log files: Indexer-0.log 2.6 KB
11:37:49 Log files: MonitorServer.log 1.1 KB
11:37:49 Log files: PixelData-0.log 3.4 KB
11:37:49 Log files: Processor-0.log 592 B
11:37:49 Log files: Tables-0.log 841 B
11:37:49 Log files: TestDropBox.log n/a
11:37:49 Log files: master.err 2.1 KB
11:37:49 Log files: master.out 41.5 KB
11:37:49 Log files: Total size 0.08 MB
11:37:49
11:37:49
11:37:49 Environment:OMERO_HOME=(unset)
11:37:49 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:37:49 Environment:OMERO_NODE=(unset)
11:37:49 Environment:OMERO_MASTER=(unset)
11:37:49 Environment:OMERO_USERDIR=(unset)
11:37:49 Environment:OMERO_TMPDIR=(unset)
11:37:49 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
11:37:49 Environment:PYTHONPATH=(unset)
11:37:49 Environment:ICE_HOME=/opt/ice-3.6.5
11:37:49 Environment:LD_LIBRARY_PATH=(unset)
11:37:49 Environment:DYLD_LIBRARY_PATH=(unset)
11:37:49
11:37:49 OMERO SSL port:4064
11:37:49 OMERO TCP port:4063
11:37:49 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
11:37:49 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
11:37:49
11:37:49 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:37:49 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:37:49 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:37:49 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:37:49
11:37:49 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 15 April 2024 fffff70178f8ff7fe1fc4784fe53bf10a95966b4
11:37:49 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 15 April 2024 fffff70178f8ff7fe1fc4784fe53bf10a95966b4
11:37:49 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 15 April 2024 fffff70178f8ff7fe1fc4784fe53bf10a95966b4
11:37:49 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.2-SNAPSHOT 15 April 2024 e13c7b6c752bd794fbc9ea4c70ef00c723271e47
11:37:49 Jar: lib/server/ome-common.jar OME Common Java 6.0.22-SNAPSHOT 15 April 2024 e13c7b6c752bd794fbc9ea4c70ef00c723271e47
11:37:49 Jar: lib/server/ome-jai.jar OME JAI 0.1.3-SNAPSHOT 15 April 2024 e13c7b6c752bd794fbc9ea4c70ef00c723271e47
11:37:49 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.3-SNAPSHOT 15 April 2024 e13c7b6c752bd794fbc9ea4c70ef00c723271e47
11:37:49 Jar: lib/server/ome-poi.jar OME POI 5.3.9-SNAPSHOT 15 April 2024 e13c7b6c752bd794fbc9ea4c70ef00c723271e47
11:37:49 Jar: lib/server/ome-xml.jar OME XML library 6.3.5-SNAPSHOT 15 April 2024 e13c7b6c752bd794fbc9ea4c70ef00c723271e47
11:37:49 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
11:37:49 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
11:37:49 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
11:37:49 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
11:37:49 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
11:37:49 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
11:37:49 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
11:37:50 + deactivate
11:37:50 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
11:37:50 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:37:50 + export PATH
11:37:50 + unset _OLD_VIRTUAL_PATH
11:37:50 + '[' -n '' ']'
11:37:50 + '[' -n /bin/bash -o -n '' ']'
11:37:50 + hash -r
11:37:50 + '[' -n '' ']'
11:37:50 + unset VIRTUAL_ENV
11:37:50 + '[' '!' '' = nondestructive ']'
11:37:50 + unset -f deactivate
11:37:50 Finished: SUCCESS
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