11:36:26 Started by upstream project "Trigger" build number 226
11:36:26 originally caused by:
11:36:26 Started by user devspace
11:36:26 Running as SYSTEM
11:36:27 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
11:36:28 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14177915816406277942.sh
11:36:28 + source /home/settings.env
11:36:28 ++ OMERO_DB_HOST=pg
11:36:28 ++ OMERO_DB_USER=postgres
11:36:28 ++ OMERO_DB_PASS=
11:36:28 ++ OMERO_ROOT_PASS=omero
11:36:28 ++ OMERO_DATA_DIR=/OMERO
11:36:28 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:36:28 + OMERO_DB_NAME=OMERO-server
11:36:28 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:36:28 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:36:28 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:36:28 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:36:28 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
11:36:28 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:36:28 ++ deactivate nondestructive
11:36:28 ++ '[' -n '' ']'
11:36:28 ++ '[' -n '' ']'
11:36:28 ++ '[' -n /bin/bash -o -n '' ']'
11:36:28 ++ hash -r
11:36:28 ++ '[' -n '' ']'
11:36:28 ++ unset VIRTUAL_ENV
11:36:28 ++ '[' '!' nondestructive = nondestructive ']'
11:36:28 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:36:28 ++ export VIRTUAL_ENV
11:36:28 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:36:28 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:36:28 ++ export PATH
11:36:28 ++ '[' -n '' ']'
11:36:28 ++ '[' -z '' ']'
11:36:28 ++ _OLD_VIRTUAL_PS1=
11:36:28 ++ PS1='(.venv3) '
11:36:28 ++ export PS1
11:36:28 ++ '[' -n /bin/bash -o -n '' ']'
11:36:28 ++ hash -r
11:36:28 + omero admin stop
11:36:59 Server not running
11:37:00 + echo not running
11:37:00 not running
11:37:00 + sleep 5
11:37:05 + deactivate
11:37:05 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
11:37:05 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:37:05 + export PATH
11:37:05 + unset _OLD_VIRTUAL_PATH
11:37:05 + '[' -n '' ']'
11:37:05 + '[' -n /bin/bash -o -n '' ']'
11:37:05 + hash -r
11:37:05 + '[' -n '' ']'
11:37:05 + unset VIRTUAL_ENV
11:37:05 + '[' '!' '' = nondestructive ']'
11:37:05 + unset -f deactivate
11:37:05 + rm -rf /home/omero/workspace/OMERO-server/.venv3
11:37:05 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
11:37:11 + '[' false = true ']'
11:37:11 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
11:37:11 Skipping PURGE_DATA:CleanDbAndRepo
11:37:11 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.5-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-5.19.6.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.4.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.27.3.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
11:37:13 Copied 1 artifact from "OMERO-build" build number 188
11:37:14 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 185
11:37:14 Copied 2 artifacts from "OMERO-build-build" build number 193
11:37:14 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14344375987569926660.sh
11:37:14 + source /home/settings.env
11:37:14 ++ OMERO_DB_HOST=pg
11:37:14 ++ OMERO_DB_USER=postgres
11:37:14 ++ OMERO_DB_PASS=
11:37:14 ++ OMERO_ROOT_PASS=omero
11:37:14 ++ OMERO_DATA_DIR=/OMERO
11:37:14 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:37:14 + OMERO_DB_NAME=OMERO-server
11:37:14 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:37:14 + mkdir -p /home/omero/omero-server-data
11:37:14 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:37:14 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:37:14 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:37:14 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
11:37:14 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
11:37:14 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
11:37:14 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
11:37:14 ++ ls OMERO.server-5.6.3-513-4bf99efd43-ice36.zip
11:37:14 + ZIP=OMERO.server-5.6.3-513-4bf99efd43-ice36.zip
11:37:14 + '[' '!' -z '' ']'
11:37:14 + DIST=OMERO.server-5.6.3-513-4bf99efd43-ice36
11:37:14 + unzip OMERO.server-5.6.3-513-4bf99efd43-ice36.zip
11:37:14 Archive: OMERO.server-5.6.3-513-4bf99efd43-ice36.zip
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/blitz/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/grid/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/profiles/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/error/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/grid/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/luts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/luts/janelia/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/luts/ncsa_paledit/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/luts/wcif/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/analysis_scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/annotation_scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/export_scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/figure_scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/import_scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/scripts/omero/util_scripts/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/misc/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__1/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__10/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__11/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__2/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__3/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__4/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__5/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__6/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__7/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__8/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__9/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__4/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__5/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__6/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__7/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.1__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.2__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.2__0/t/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.3__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.4__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.0__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.1__1/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.2__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4DEV__1/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4DEV__2/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4DEV__3/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/
11:37:14 creating: OMERO.server-5.6.3-513-4bf99efd43-ice36/var/
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/LICENSE.txt
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/backup.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/blitz/mail-senders.example
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/blitz/mail-server.example
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/build.properties
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/env.bat
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/env.sh
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/hibernate.properties
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/ice.config
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/logback-cli.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/logback-indexing-cli.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/logback-indexing.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/logback.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/mime.types
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/node1.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/node2.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/omero.properties
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/profiles/psql
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/rollover.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/Windows.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/error/maintainance.html
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/grid/README
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/grid/default.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/grid/templates.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/grid/windefault.xml
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/ice.config
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/internal.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/master.cfg
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/templates/robot.template
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/etc/testdropbox.config
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/history.rst
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/OMEZarrReader.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/activation.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/aggdesigner-algorithm.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/aircompressor.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/annotations.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/antlr.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/aopalliance.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/avatica-core.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/avatica-metrics.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/aws-java-sdk-core.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/aws-java-sdk-kms.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/aws-java-sdk-s3.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/base.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-all.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-anim.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-awt-util.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-bridge.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-codec.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-constants.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-css.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-dom.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-ext.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-extension.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-gui-util.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-gvt.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-i18n.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-parser.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-rasterizer-ext.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-rasterizer.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-script.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-slideshow.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-squiggle-ext.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-squiggle.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-svg-dom.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-svgbrowser.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-svggen.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-svgpp.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-svgrasterizer.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-swing.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-transcoder.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-ttf2svg.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-util.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/batik-xml.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/btm.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/bufr.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/c3p0.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/calcite-core.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/calcite-linq4j.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/cdm-core.jar
11:37:14 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/client/checker-qual.jar
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11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/ome-poi.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/ome-xml.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-blitz.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-common.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-gateway.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-model.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-renderer.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-romio.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/omero-server.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/pdfbox.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/perf4j.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/postgresql.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/protobuf-java.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/quartz.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/re2j.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/reflectasm.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/rhino.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/serializer.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/sketches-core.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/slf4j-api.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/snakeyaml.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/solr-analysis-extras.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/solr-commons-csv.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/solr-core.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/solr-solrj.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/specification.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-aop.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-beans.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-context-support.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-context.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-core.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-expression.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-jdbc.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-jms.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-ldap-core.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-messaging.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-orm.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-security-core.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-security-ldap.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/spring-tx.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/sqlite-jdbc.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/subethasmtp.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/turbojpeg.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/udunits.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xalan.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xercesImpl.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xml-apis-ext.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xml-apis.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xmlgraphics-commons.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xmpcore.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/lib/server/xpp3.jar
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/README
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/agpl.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/antlr.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/apache-v1.1.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/apache-v2.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/asm.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/bouncy_castle_license.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/bsd.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/cddl-v1.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/cpl-v10.html
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/crystalclear.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/django.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/dom4j.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/epl-v1.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/fbsd.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/freemarker.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/gpl-v2.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/gpl.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/gtest.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/iconsweets_license.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/jamon.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/jmock.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/jquery.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/jtidy.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/lgpl-3.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/lgpl-v2.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/lgpl-v2.1.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/lgpl-v3.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/lgpl.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/matplotlib.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/mit.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/mpl-v1_0.htm
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/npl-1_1.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/path.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/pil.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/postgresql.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/psf-v2.0.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/psf-v2.5.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/scons.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/slf4j.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/tablelayout.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/which.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/zlib-libpng.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/share/licenses/zpl-v2.1.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/README.txt
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/misc/Makefile
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/misc/current.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/misc/enums.py
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/psql-header.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/schema.sql
11:37:16 inflating: OMERO.server-5.6.3-513-4bf99efd43-ice36/sql/psql/OMERO5.4__0/views.sql
11:37:16 + rm -f OMERO.server-5.6.3-513-4bf99efd43-ice36.zip
11:37:16 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-513-4bf99efd43-ice36 /home/omero/workspace/OMERO-server/OMERO.server
11:37:16 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:37:16 ++ deactivate nondestructive
11:37:16 ++ '[' -n '' ']'
11:37:16 ++ '[' -n '' ']'
11:37:16 ++ '[' -n /bin/bash -o -n '' ']'
11:37:16 ++ hash -r
11:37:16 ++ '[' -n '' ']'
11:37:16 ++ unset VIRTUAL_ENV
11:37:16 ++ '[' '!' nondestructive = nondestructive ']'
11:37:16 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:37:16 ++ export VIRTUAL_ENV
11:37:16 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:37:16 ++ 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
11:37:16 ++ export PATH
11:37:16 ++ '[' -n '' ']'
11:37:16 ++ '[' -z '' ']'
11:37:16 ++ _OLD_VIRTUAL_PS1=
11:37:16 ++ PS1='(.venv3) '
11:37:16 ++ export PS1
11:37:16 ++ '[' -n /bin/bash -o -n '' ']'
11:37:16 ++ hash -r
11:37:16 + 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
11:37:17 Collecting zeroc-ice==3.6.5
11:37:17 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)
11:37:19 Installing collected packages: zeroc-ice
11:37:19 Successfully installed zeroc-ice-3.6.5
11:37:19 + pip install -U pip future
11:37:20 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
11:37:20 Collecting pip
11:37:20 Using cached pip-24.2-py3-none-any.whl (1.8 MB)
11:37:20 Collecting future
11:37:20 Using cached future-1.0.0-py3-none-any.whl (491 kB)
11:37:20 Installing collected packages: pip, future
11:37:20 Attempting uninstall: pip
11:37:20 Found existing installation: pip 21.2.3
11:37:21 Uninstalling pip-21.2.3:
11:37:21 Successfully uninstalled pip-21.2.3
11:37:22 Successfully installed future-1.0.0 pip-24.2
11:37:22 + pip install markdown
11:37:23 Collecting markdown
11:37:23 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
11:37:23 Collecting importlib-metadata>=4.4 (from markdown)
11:37:23 Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
11:37:23 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
11:37:23 Using cached zipp-3.20.2-py3-none-any.whl.metadata (3.7 kB)
11:37:23 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
11:37:23 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
11:37:23 Using cached zipp-3.20.2-py3-none-any.whl (9.2 kB)
11:37:23 Installing collected packages: zipp, importlib-metadata, markdown
11:37:23 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.20.2
11:37:23 + pip install reportlab
11:37:24 Collecting reportlab
11:37:24 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
11:37:24 Collecting pillow>=9.0.0 (from reportlab)
11:37:24 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
11:37:25 Collecting chardet (from reportlab)
11:37:25 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
11:37:25 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
11:37:25 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
11:37:25 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
11:37:25 Installing collected packages: pillow, chardet, reportlab
11:37:26 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
11:37:26 + pip install omego
11:37:27 Collecting omego
11:37:27 Using cached omego-0.7.0-py3-none-any.whl
11:37:28 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
11:37:28 Collecting yaclifw>=0.1.1 (from omego)
11:37:28 Using cached yaclifw-0.2.0-py3-none-any.whl
11:37:28 Collecting six (from yaclifw>=0.1.1->omego)
11:37:28 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
11:37:28 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
11:37:28 Installing collected packages: six, yaclifw, omego
11:37:28 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
11:37:28 + pip install tables
11:37:29 Collecting tables
11:37:29 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
11:37:29 Collecting numpy>=1.19.0 (from tables)
11:37:29 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
11:37:29 Collecting numexpr>=2.6.2 (from tables)
11:37:29 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
11:37:29 Collecting packaging (from tables)
11:37:29 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
11:37:29 Collecting py-cpuinfo (from tables)
11:37:29 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
11:37:30 Collecting blosc2>=2.3.0 (from tables)
11:37:30 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
11:37:30 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
11:37:30 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
11:37:30 Collecting msgpack (from blosc2>=2.3.0->tables)
11:37:30 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
11:37:30 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
11:37:30 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
11:37:30 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
11:37:30 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
11:37:30 Using cached packaging-24.1-py3-none-any.whl (53 kB)
11:37:31 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
11:37:31 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
11:37:31 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
11:37:31 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
11:37:35 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.1 numpy-2.0.2 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
11:37:35 + pip install jinja2
11:37:35 Collecting jinja2
11:37:35 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
11:37:35 Collecting MarkupSafe>=2.0 (from jinja2)
11:37:35 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
11:37:35 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
11:37:35 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
11:37:36 Installing collected packages: MarkupSafe, jinja2
11:37:36 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
11:37:36 + pip install omero-py
11:37:36 Collecting omero-py
11:37:36 Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
11:37:36 Collecting urllib3<2 (from omero-py)
11:37:36 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
11:37:36 Collecting appdirs (from omero-py)
11:37:36 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
11:37:36 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
11:37:37 Collecting numpy<2 (from omero-py)
11:37:37 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
11:37:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
11:37:37 Collecting PyYAML (from omero-py)
11:37:37 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
11:37:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
11:37:37 Collecting requests (from omero-py)
11:37:37 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
11:37:37 Collecting portalocker (from omero-py)
11:37:37 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
11:37:37 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
11:37:37 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
11:37:37 Collecting idna<4,>=2.5 (from requests->omero-py)
11:37:37 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
11:37:38 Collecting certifi>=2017.4.17 (from requests->omero-py)
11:37:38 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
11:37:38 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB)
11:37:38 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
11:37:38 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
11:37:38 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
11:37:38 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
11:37:38 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
11:37:38 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
11:37:39 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
11:37:39 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
11:37:39 Using cached idna-3.10-py3-none-any.whl (70 kB)
11:37:39 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
11:37:39 Attempting uninstall: numpy
11:37:39 Found existing installation: numpy 2.0.2
11:37:39 Uninstalling numpy-2.0.2:
11:37:39 Successfully uninstalled numpy-2.0.2
11:37:44 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.8.30 charset-normalizer-3.3.2 idna-3.10 numpy-1.26.4 omero-py-5.19.5 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.20
11:37:44 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
11:37:44 Collecting omero-metadata
11:37:44 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-rfm8ejhm/omero-metadata_ae55c1aaa1354e8593a2084aa492bf2a
11:37:45 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-rfm8ejhm/omero-metadata_ae55c1aaa1354e8593a2084aa492bf2a
11:37:47 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit e4da7e1ee7e1257824f3f406947bf78e32dc6ed4
11:37:47 Installing build dependencies: started
11:37:49 Installing build dependencies: finished with status 'done'
11:37:49 Getting requirements to build wheel: started
11:37:49 Getting requirements to build wheel: finished with status 'done'
11:37:49 Preparing metadata (pyproject.toml): started
11:37:50 Preparing metadata (pyproject.toml): finished with status 'done'
11:37:50 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
11:37:50 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
11:37:50 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
11:37:50 Collecting pandas (from omero-metadata)
11:37:50 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
11:37:50 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
11:37:50 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
11:37:50 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
11:37:50 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
11:37:50 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.4.0)
11:37:50 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)
11:37:50 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
11:37:50 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
11:37:50 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
11:37:50 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
11:37:50 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
11:37:50 Collecting pytz>=2020.1 (from pandas->omero-metadata)
11:37:50 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
11:37:50 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
11:37:50 Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB)
11:37:51 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)
11:37:51 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)
11:37:51 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10)
11:37:51 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.8.30)
11:37:51 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
11:37:51 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
11:37:51 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
11:37:51 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB)
11:37:51 Building wheels for collected packages: omero-metadata
11:37:51 Building wheel for omero-metadata (pyproject.toml): started
11:37:51 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
11:37:51 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39187 sha256=dec4c179ae6c3d941161f25be0fa5cd6ce89d93be5425ef546165f65b7f69dd3
11:37:51 Stored in directory: /tmp/pip-ephem-wheel-cache-8g2cigxw/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
11:37:51 Successfully built omero-metadata
11:37:51 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
11:37:57 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2
11:37:57 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
11:37:57 Collecting omero-cli-render
11:37:57 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-oafaufom/omero-cli-render_1dc3356888c64e72ba2bd5c10e6dcb24
11:37:57 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-oafaufom/omero-cli-render_1dc3356888c64e72ba2bd5c10e6dcb24
11:37:58 Running command git checkout -b merge_ci --track origin/merge_ci
11:37:58 Switched to a new branch 'merge_ci'
11:37:58 branch 'merge_ci' set up to track 'origin/merge_ci'.
11:37:58 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 82dd40dd2984766c707128bda1590f5c3095db9c
11:37:58 Installing build dependencies: started
11:38:00 Installing build dependencies: finished with status 'done'
11:38:00 Getting requirements to build wheel: started
11:38:00 Getting requirements to build wheel: finished with status 'done'
11:38:00 Preparing metadata (pyproject.toml): started
11:38:01 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:01 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
11:38:01 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
11:38:01 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
11:38:01 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
11:38:01 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
11:38:01 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
11:38:01 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.4.0)
11:38:01 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)
11:38:01 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
11:38:01 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
11:38:01 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)
11:38:01 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10)
11:38:01 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.8.30)
11:38:01 Building wheels for collected packages: omero-cli-render
11:38:01 Building wheel for omero-cli-render (pyproject.toml): started
11:38:01 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
11:38:01 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18031 sha256=cdba3866a547df21906a146dcb7880ebcd579d6905698ca96b6c0df6f95a0663
11:38:01 Stored in directory: /tmp/pip-ephem-wheel-cache-svdaoukn/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
11:38:01 Successfully built omero-cli-render
11:38:01 Installing collected packages: omero-cli-render
11:38:01 Successfully installed omero-cli-render-0.8.2.dev0
11:38:01 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
11:38:02 Collecting omero-cli-duplicate
11:38:02 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-jr8qufo4/omero-cli-duplicate_de3e3b363a744df882243e44b840a37a
11:38:02 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-jr8qufo4/omero-cli-duplicate_de3e3b363a744df882243e44b840a37a
11:38:02 Running command git checkout -b merge_ci --track origin/merge_ci
11:38:03 Switched to a new branch 'merge_ci'
11:38:03 branch 'merge_ci' set up to track 'origin/merge_ci'.
11:38:03 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 6c26a05ccc1a390e815f9c547202ad8ce4e1fe6c
11:38:03 Installing build dependencies: started
11:38:05 Installing build dependencies: finished with status 'done'
11:38:05 Getting requirements to build wheel: started
11:38:05 Getting requirements to build wheel: finished with status 'done'
11:38:05 Preparing metadata (pyproject.toml): started
11:38:05 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:06 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
11:38:06 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
11:38:06 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
11:38:06 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
11:38:06 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
11:38:06 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.4.0)
11:38:06 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
11:38:06 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)
11:38:06 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
11:38:06 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
11:38:06 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)
11:38:06 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10)
11:38:06 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.8.30)
11:38:06 Building wheels for collected packages: omero-cli-duplicate
11:38:06 Building wheel for omero-cli-duplicate (pyproject.toml): started
11:38:06 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
11:38:06 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=758421dc6b6834e5bd93562d6ae9295e34cd436461341b10c0e32e5424dc01f8
11:38:06 Stored in directory: /tmp/pip-ephem-wheel-cache-sn38mqe4/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
11:38:06 Successfully built omero-cli-duplicate
11:38:06 Installing collected packages: omero-cli-duplicate
11:38:06 Successfully installed omero-cli-duplicate-0.4.1.dev0
11:38:06 + pip install omero-certificates
11:38:07 Collecting omero-certificates
11:38:07 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
11:38:07 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
11:38:07 Collecting distro==1.8.0 (from omero-certificates)
11:38:07 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
11:38:07 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
11:38:07 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
11:38:07 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
11:38:07 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
11:38:07 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.4.0)
11:38:07 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
11:38:07 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)
11:38:07 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
11:38:07 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
11:38:07 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)
11:38:07 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10)
11:38:07 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.8.30)
11:38:07 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
11:38:07 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
11:38:07 Installing collected packages: distro, omero-certificates
11:38:07 Successfully installed distro-1.8.0 omero-certificates-0.3.2
11:38:07 + for x in *.tar.gz
11:38:07 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
11:38:07 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
11:38:07 Installing build dependencies: started
11:38:09 Installing build dependencies: finished with status 'done'
11:38:09 Getting requirements to build wheel: started
11:38:09 Getting requirements to build wheel: finished with status 'done'
11:38:09 Preparing metadata (pyproject.toml): started
11:38:10 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:10 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
11:38:10 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
11:38:10 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
11:38:10 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
11:38:10 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
11:38:10 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.4.0)
11:38:10 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
11:38:10 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)
11:38:10 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
11:38:10 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
11:38:10 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)
11:38:10 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10)
11:38:10 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.8.30)
11:38:10 Building wheels for collected packages: omero-dropbox
11:38:10 Building wheel for omero-dropbox (pyproject.toml): started
11:38:10 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
11:38:10 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49056 sha256=64d56df907a57f36274c56fe22c8c3453293c70dec76cb032abd21e06606cbbd
11:38:10 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
11:38:10 Successfully built omero-dropbox
11:38:10 Installing collected packages: omero-dropbox
11:38:10 Successfully installed omero-dropbox-5.7.1.dev0
11:38:10 + for x in *.tar.gz
11:38:10 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
11:38:11 Processing ./omero_marshal-0.9.1.dev0.tar.gz
11:38:11 Installing build dependencies: started
11:38:13 Installing build dependencies: finished with status 'done'
11:38:13 Getting requirements to build wheel: started
11:38:13 Getting requirements to build wheel: finished with status 'done'
11:38:13 Preparing metadata (pyproject.toml): started
11:38:13 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:13 Building wheels for collected packages: omero_marshal
11:38:13 Building wheel for omero_marshal (pyproject.toml): started
11:38:13 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
11:38:13 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88030 sha256=c6caf840e26b9de0b9bc1c2ce22a71f98fdbc88e2311098e1b1a1aa2e38e2e7b
11:38:13 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
11:38:13 Successfully built omero_marshal
11:38:14 Installing collected packages: omero_marshal
11:38:14 Successfully installed omero_marshal-0.9.1.dev0
11:38:14 + for x in *.tar.gz
11:38:14 + pip install -U omero_py-5.19.6.dev0.tar.gz
11:38:14 Processing ./omero_py-5.19.6.dev0.tar.gz
11:38:15 Installing build dependencies: started
11:38:16 Installing build dependencies: finished with status 'done'
11:38:17 Getting requirements to build wheel: started
11:38:19 Getting requirements to build wheel: finished with status 'done'
11:38:19 Preparing metadata (pyproject.toml): started
11:38:19 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:19 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
11:38:19 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
11:38:19 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
11:38:19 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
11:38:19 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (10.4.0)
11:38:19 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
11:38:19 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.6.5)
11:38:19 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
11:38:19 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.10.1)
11:38:19 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.3.2)
11:38:19 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
11:38:19 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (2024.8.30)
11:38:19 Building wheels for collected packages: omero-py
11:38:19 Building wheel for omero-py (pyproject.toml): started
11:38:20 Building wheel for omero-py (pyproject.toml): finished with status 'done'
11:38:20 Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783191 sha256=38c669e36bb719322248e5ee748e530e2795331cf5499f91920e43098ef2d97a
11:38:20 Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
11:38:20 Successfully built omero-py
11:38:20 Installing collected packages: omero-py
11:38:20 Attempting uninstall: omero-py
11:38:20 Found existing installation: omero-py 5.19.5
11:38:20 Uninstalling omero-py-5.19.5:
11:38:21 Successfully uninstalled omero-py-5.19.5
11:38:23 Successfully installed omero-py-5.19.6.dev0
11:38:23 + for x in *.tar.gz
11:38:23 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
11:38:23 Processing ./omero_scripts-5.8.4.dev0.tar.gz
11:38:23 Installing build dependencies: started
11:38:25 Installing build dependencies: finished with status 'done'
11:38:25 Getting requirements to build wheel: started
11:38:25 Getting requirements to build wheel: finished with status 'done'
11:38:25 Preparing metadata (pyproject.toml): started
11:38:25 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:25 Building wheels for collected packages: omero-scripts
11:38:25 Building wheel for omero-scripts (pyproject.toml): started
11:38:26 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
11:38:26 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116644 sha256=25327592b2bb4057e4998f6ada3820e67385f83ef92484b410f53497144f76b2
11:38:26 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
11:38:26 Successfully built omero-scripts
11:38:26 Installing collected packages: omero-scripts
11:38:26 Successfully installed omero-scripts-5.8.4.dev0
11:38:26 + for x in *.tar.gz
11:38:26 + pip install -U omero_web-5.27.3.dev0.tar.gz
11:38:26 Processing ./omero_web-5.27.3.dev0.tar.gz
11:38:27 Installing build dependencies: started
11:38:29 Installing build dependencies: finished with status 'done'
11:38:29 Getting requirements to build wheel: started
11:38:29 Getting requirements to build wheel: finished with status 'done'
11:38:29 Preparing metadata (pyproject.toml): started
11:38:29 Preparing metadata (pyproject.toml): finished with status 'done'
11:38:29 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (5.19.6.dev0)
11:38:29 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0)
11:38:29 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
11:38:30 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0)
11:38:30 Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB)
11:38:30 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0)
11:38:30 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
11:38:30 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0)
11:38:30 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
11:38:30 Collecting django-csp (from omero-web==5.27.3.dev0)
11:38:30 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
11:38:30 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0)
11:38:30 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
11:38:30 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0)
11:38:30 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
11:38:30 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (0.9.1.dev0)
11:38:30 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (10.4.0)
11:38:30 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2)
11:38:30 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1)
11:38:30 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1)
11:38:30 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
11:38:30 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
11:38:30 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
11:38:30 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
11:38:30 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.26.20)
11:38:30 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.4.4)
11:38:30 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.0.0)
11:38:30 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.26.4)
11:38:30 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (6.0.2)
11:38:30 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==5.27.3.dev0) (3.6.5)
11:38:30 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (2.32.3)
11:38:30 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
11:38:31 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
11:38:31 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.3.2)
11:38:31 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.10)
11:38:31 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (2024.8.30)
11:38:31 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
11:38:31 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
11:38:31 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
11:38:31 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB)
11:38:31 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
11:38:31 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
11:38:31 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
11:38:31 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
11:38:31 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
11:38:31 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
11:38:31 Building wheels for collected packages: omero-web
11:38:31 Building wheel for omero-web (pyproject.toml): started
11:38:32 Building wheel for omero-web (pyproject.toml): finished with status 'done'
11:38:32 Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766671 sha256=358869fa7cc2f059e0488783e47fac80026172ca71eeaf26fd153bbe416c30cf
11:38:32 Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b
11:38:32 Successfully built omero-web
11:38:32 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
11:38:35 Successfully installed Django-4.2.16 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-23.0.0 omero-web-5.27.3.dev0 sqlparse-0.5.1 typing-extensions-4.12.2 whitenoise-6.7.0
11:38:35 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
11:38:37 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
11:38:37 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
11:38:37 --2024-09-26 11:38:37-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
11:38:37 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.109.133, 185.199.108.133, ...
11:38:37 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
11:38:37 HTTP request sent, awaiting response... 200 OK
11:38:37 Length: 98962 (97K) [text/plain]
11:38:37 Saving to: ‘Figure_To_Pdf.py’
11:38:37
11:38:37 0K .......... .......... .......... .......... .......... 51% 3.63M 0s
11:38:37 50K .......... .......... .......... .......... ...... 100% 4.54M=0.02s
11:38:37
11:38:37 2024-09-26 11:38:37 (4.02 MB/s) - ‘Figure_To_Pdf.py’ saved [98962/98962]
11:38:37
11:38:37 + chmod 755 Figure_To_Pdf.py
11:38:37 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
11:38:37 + omero config set omero.db.name OMERO-server
11:38:39 + omero config set omero.db.host pg
11:38:40 + omero config set omero.db.user postgres
11:38:42 + omero config set omero.data.dir /home/omero/omero-server-data
11:38:43 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
11:38:45 + omero config set omero.db.poolsize 25
11:38:47 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
11:38:48 + omero config set omero.security.trustStorePassword changeit
11:38:50 + omero config set omero.mail.config true
11:38:51 + omero config set omero.mail.from qa@openmicroscopy.org.uk
11:38:53 + omero config set omero.mail.host smtp.dundee.ac.uk
11:38:54 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
11:38:56 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
11:38:57 + omero certificates
11:38:59 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
11:38:59 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
11:38:59 + '[' false = true ']'
11:38:59 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
11:38:59 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
11:38:59 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG dbcommand => upgrade
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG dbhost => localhost
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG dbname => OMERO-server
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG dbpass => omero
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG dbuser => omero
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG rootpass => omero
11:38:59 2024-09-26 11:38:59,746 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
11:38:59 2024-09-26 11:38:59,746 [omego.extern] INFO Executing : omero version
11:39:01 OMERO.py version:
11:39:01 OMERO.server version:
11:39:01 5.6.3-513-4bf99efd43-ice36
11:39:01 5.19.6.dev0
11:39:01 2024-09-26 11:39:01,350 [omego.extern] INFO Completed [1.604 s]
11:39:01 2024-09-26 11:39:01,350 [omego.extern] DEBUG Using omero CLI from omero
11:39:01 2024-09-26 11:39:01,350 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
11:39:01 2024-09-26 11:39:01,350 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:39:01 2024-09-26 11:39:01,350 [omego.extern] INFO Executing : omero config get --show-password
11:39:02 2024-09-26 11:39:02,824 [omego.extern] INFO Completed [1.473 s]
11:39:02 2024-09-26 11:39:02,824 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:39:02 2024-09-26 11:39:02,825 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
11:39:03 2024-09-26 11:39:03,144 [omego.extern] INFO Completed [0.319 s]
11:39:03 2024-09-26 11:39:03,144 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
11:39:03 2024-09-26 11:39:03,145 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4
11:39:03
11:39:03 2024-09-26 11:39:03,145 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:39:03 2024-09-26 11:39:03,145 [omego.extern] INFO Executing : omero config get --show-password
11:39:04 2024-09-26 11:39:04,551 [omego.extern] INFO Completed [1.407 s]
11:39:04 2024-09-26 11:39:04,552 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:39:04 2024-09-26 11:39:04,552 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
11:39:04 2024-09-26 11:39:04,938 [omego.extern] INFO Completed [0.386 s]
11:39:04 2024-09-26 11:39:04,938 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.4") at port "5432".\n'
11:39:04 2024-09-26 11:39:04,938 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
11:39:04 2024-09-26 11:39:04,938 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:39:04 2024-09-26 11:39:04,938 [omego.extern] INFO Executing : omero config get --show-password
11:39:06 2024-09-26 11:39:06,418 [omego.extern] INFO Completed [1.480 s]
11:39:06 2024-09-26 11:39:06,418 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:39:06 2024-09-26 11:39:06,419 [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
11:39:06 2024-09-26 11:39:06,893 [omego.extern] INFO Completed [0.474 s]
11:39:06 2024-09-26 11:39:06,893 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
11:39:06 2024-09-26 11:39:06,893 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
11:39:06 2024-09-26 11:39:06,895 [ omego.db] INFO Database is already at OMERO5.4__0
11:39:06 + export LANG=en_US.UTF-8
11:39:06 + LANG=en_US.UTF-8
11:39:06 + export LANGUAGE=en_US:en
11:39:06 + LANGUAGE=en_US:en
11:39:06 + export LC_ALL=en_US.UTF-8
11:39:06 + LC_ALL=en_US.UTF-8
11:39:06 + BUILD_ID=DONT_KILL_ME
11:39:06 + omero admin start
11:39:19 WARNING: lock files in /home/omero/omero-server-data
11:39:19 ----------------------------------------
11:39:19 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
11:39:19 ----------------------------------------
11:39:19
11:39:19 You may want to stop all server processes and remove
11:39:19 these files manually. Lock files can remain after an
11:39:19 abrupt server outage and are especially frequent on
11:39:19 remotely mounted filesystems like NFS.
11:39:19
11:39:19 No descriptor given. Using etc/grid/default.xml
11:39:32 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
11:39:32 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
11:39:32 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
11:39:32 Waiting on startup. Use CTRL-C to exit
11:39:32 + omero admin waitup
11:39:34 Waiting on startup. Use CTRL-C to exit
11:39:34 + omero admin diagnostics
11:39:35
11:39:35 ================================================================================
11:39:35 OMERO Diagnostics (admin)
11:39:35 ================================================================================
11:39:35
11:39:35 Commands: java -version 11.0.24 (/usr/bin/java)
11:39:35 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
11:39:35 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
11:39:35 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
11:39:35 Commands: psql --version 16.4 (/usr/bin/psql)
11:39:35 Commands: openssl version 3.0.71 (/usr/bin/openssl)
11:39:35
11:39:35 Component: OMERO.py 5.19.6.dev0
11:39:35 Component: OMERO.server 5.6.3-513-4bf99efd43-ice36
11:39:35
11:39:35 Server: icegridnode running
11:39:35 Server: Blitz-0 active (pid = 2588, enabled)
11:39:35 Server: Indexer-0 activating (enabled)
11:39:35 Server: OMERO.Glacier2 active (pid = 2615, enabled)
11:39:35 Server: OMERO.IceStorm active (pid = 2639, enabled)
11:39:35 Server: Processor-0 activating (enabled)
11:39:35 Server: Tables-0 activating (enabled)
11:39:35
11:39:35 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
11:39:35 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
11:39:35 Log files: DropBox.log n/a
11:39:35 Log files: FileServer.log n/a
11:39:35 Log files: Indexer-0.log 2.0 KB
11:39:35 Log files: MonitorServer.log n/a
11:39:35 Log files: Processor-0.log 592 B
11:39:35 Log files: Tables-0.log 841 B
11:39:35 Log files: TestDropBox.log n/a
11:39:35 Log files: master.err 180 B
11:39:35 Log files: master.out 30.1 KB
11:39:35 Log files: Total size 0.06 MB
11:39:35
11:39:35
11:39:35 Environment:OMERO_HOME=(unset)
11:39:35 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:39:35 Environment:OMERO_NODE=(unset)
11:39:35 Environment:OMERO_MASTER=(unset)
11:39:35 Environment:OMERO_USERDIR=(unset)
11:39:35 Environment:OMERO_TMPDIR=(unset)
11:39:35 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
11:39:35 Environment:PYTHONPATH=(unset)
11:39:35 Environment:ICE_HOME=/opt/ice-3.6.5
11:39:35 Environment:LD_LIBRARY_PATH=(unset)
11:39:35 Environment:DYLD_LIBRARY_PATH=(unset)
11:39:36
11:39:36 OMERO SSL port:4064
11:39:36 OMERO TCP port:4063
11:39:36 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
11:39:36 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
11:39:36
11:39:36 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:39:36 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:39:36 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:39:36 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:39:36
11:39:36 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 26 September 2024 24016381e979f5e411330995052e5832e262b93e
11:39:36 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 26 September 2024 24016381e979f5e411330995052e5832e262b93e
11:39:36 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 26 September 2024 24016381e979f5e411330995052e5832e262b93e
11:39:36 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 26 September 2024 a726ac272b244edbbc514263f4ca9dde970ac11a
11:39:36 Jar: lib/server/ome-common.jar OME Common Java 6.0.24-SNAPSHOT 26 September 2024 a726ac272b244edbbc514263f4ca9dde970ac11a
11:39:36 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 26 September 2024 a726ac272b244edbbc514263f4ca9dde970ac11a
11:39:36 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 26 September 2024 a726ac272b244edbbc514263f4ca9dde970ac11a
11:39:36 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 26 September 2024 a726ac272b244edbbc514263f4ca9dde970ac11a
11:39:36 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 26 September 2024 a726ac272b244edbbc514263f4ca9dde970ac11a
11:39:36 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT
11:39:36 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT
11:39:36 Jar: lib/server/omero-gateway.jar jar 5.9.4-SNAPSHOT
11:39:36 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT
11:39:36 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT
11:39:36 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT
11:39:36 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT
11:39:36 + deactivate
11:39:36 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
11:39:36 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:39:36 + export PATH
11:39:36 + unset _OLD_VIRTUAL_PATH
11:39:36 + '[' -n '' ']'
11:39:36 + '[' -n /bin/bash -o -n '' ']'
11:39:36 + hash -r
11:39:36 + '[' -n '' ']'
11:39:36 + unset VIRTUAL_ENV
11:39:36 + '[' '!' '' = nondestructive ']'
11:39:36 + unset -f deactivate
11:39:36 Finished: SUCCESS
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