00:50:13 Started by upstream project "Trigger" build number 213
00:50:13 originally caused by:
00:50:13 Started by timer
00:50:13 Running as SYSTEM
00:50:13 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
00:50:13 [OMERO-server] $ /bin/bash -xe /tmp/jenkins13168591834617395230.sh
00:50:13 + source /home/settings.env
00:50:13 ++ OMERO_DB_HOST=pg
00:50:13 ++ OMERO_DB_USER=postgres
00:50:13 ++ OMERO_DB_PASS=
00:50:13 ++ OMERO_ROOT_PASS=omero
00:50:13 ++ OMERO_DATA_DIR=/OMERO
00:50:13 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:50:13 + OMERO_DB_NAME=OMERO-server
00:50:13 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:50:13 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:50:13 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:50:13 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:50:13 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
00:50:13 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:50:13 ++ deactivate nondestructive
00:50:13 ++ '[' -n '' ']'
00:50:13 ++ '[' -n '' ']'
00:50:13 ++ '[' -n /bin/bash -o -n '' ']'
00:50:13 ++ hash -r
00:50:13 ++ '[' -n '' ']'
00:50:13 ++ unset VIRTUAL_ENV
00:50:13 ++ '[' '!' nondestructive = nondestructive ']'
00:50:13 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:50:13 ++ export VIRTUAL_ENV
00:50:13 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:50:13 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:50:13 ++ export PATH
00:50:13 ++ '[' -n '' ']'
00:50:13 ++ '[' -z '' ']'
00:50:13 ++ _OLD_VIRTUAL_PS1=
00:50:13 ++ PS1='(.venv3) '
00:50:13 ++ export PS1
00:50:13 ++ '[' -n /bin/bash -o -n '' ']'
00:50:13 ++ hash -r
00:50:13 + omero admin stop
00:50:31 Waiting on shutdown. Use CTRL-C to exit
00:50:31 .+ sleep 5
00:50:47 + deactivate
00:50:47 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:50:47 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:50:47 + export PATH
00:50:47 + unset _OLD_VIRTUAL_PATH
00:50:47 + '[' -n '' ']'
00:50:47 + '[' -n /bin/bash -o -n '' ']'
00:50:47 + hash -r
00:50:47 + '[' -n '' ']'
00:50:47 + unset VIRTUAL_ENV
00:50:47 + '[' '!' '' = nondestructive ']'
00:50:47 + unset -f deactivate
00:50:47 + rm -rf /home/omero/workspace/OMERO-server/.venv3
00:50:48 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
00:50:53 + '[' false = true ']'
00:50:53 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
00:50:53 Skipping PURGE_DATA:CleanDbAndRepo
00:50:53 + 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-5.19.5.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
00:50:56 Copied 1 artifact from "OMERO-build" build number 178
00:50:56 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 176
00:50:56 Copied 2 artifacts from "OMERO-build-build" build number 184
00:50:56 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7645751300576045489.sh
00:50:56 + source /home/settings.env
00:50:56 ++ OMERO_DB_HOST=pg
00:50:56 ++ OMERO_DB_USER=postgres
00:50:56 ++ OMERO_DB_PASS=
00:50:56 ++ OMERO_ROOT_PASS=omero
00:50:56 ++ OMERO_DATA_DIR=/OMERO
00:50:56 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
00:50:56 + OMERO_DB_NAME=OMERO-server
00:50:56 + OMERO_DATA_DIR=/home/omero/omero-server-data
00:50:56 + mkdir -p /home/omero/omero-server-data
00:50:56 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
00:50:56 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:50:56 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:50:56 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:50:56 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
00:50:56 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:50:56 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
00:50:56 ++ ls OMERO.server-5.6.3-505-24424b73de-ice36.zip
00:50:56 + ZIP=OMERO.server-5.6.3-505-24424b73de-ice36.zip
00:50:56 + '[' '!' -z '' ']'
00:50:56 + DIST=OMERO.server-5.6.3-505-24424b73de-ice36
00:50:56 + unzip OMERO.server-5.6.3-505-24424b73de-ice36.zip
00:50:56 Archive: OMERO.server-5.6.3-505-24424b73de-ice36.zip
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/blitz/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/grid/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/profiles/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/error/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/grid/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/luts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/luts/janelia/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/luts/ncsa_paledit/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/luts/wcif/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/analysis_scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/annotation_scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/export_scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/figure_scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/import_scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/scripts/omero/util_scripts/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/share/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/misc/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__1/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__10/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__11/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__2/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__3/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__4/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__5/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__6/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__7/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__8/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__9/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__4/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__5/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__6/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__7/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.1__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.2__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.2__0/t/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.3__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.4__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.0__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.1__1/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.2__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4DEV__1/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4DEV__2/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4DEV__3/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/
00:50:56 creating: OMERO.server-5.6.3-505-24424b73de-ice36/var/
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/LICENSE.txt
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/backup.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/blitz/mail-senders.example
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/blitz/mail-server.example
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/build.properties
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/env.bat
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/env.sh
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/hibernate.properties
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/ice.config
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/logback-cli.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/logback-indexing-cli.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/logback-indexing.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/logback.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/mime.types
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/node1.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/node2.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/omero.properties
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/profiles/psql
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/rollover.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/Windows.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/error/maintainance.html
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/grid/README
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/grid/default.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/grid/templates.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/grid/windefault.xml
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/ice.config
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/internal.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/master.cfg
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/templates/robot.template
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/etc/testdropbox.config
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/history.rst
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/OMEZarrReader.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/activation.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/aggdesigner-algorithm.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/aircompressor.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/annotations.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/antlr.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/aopalliance.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/avatica-core.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/avatica-metrics.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/aws-java-sdk-core.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/aws-java-sdk-kms.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/aws-java-sdk-s3.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/base.jar
00:50:56 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-all.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-anim.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-awt-util.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-bridge.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-codec.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-constants.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-css.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-dom.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-ext.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-extension.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-gui-util.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-gvt.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-i18n.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-parser.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-rasterizer-ext.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-rasterizer.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-script.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-slideshow.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-squiggle-ext.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-squiggle.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-svg-dom.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-svgbrowser.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-svggen.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-svgpp.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-svgrasterizer.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-swing.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-transcoder.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-ttf2svg.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-util.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/batik-xml.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/btm.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/bufr.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/c3p0.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/calcite-core.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/calcite-linq4j.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/cdm-core.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/checker-qual.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/commons-beanutils.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/commons-codec.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/commons-collections.jar
00:50:57 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/client/commons-collections4.jar
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00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/protobuf-java.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/quartz.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/re2j.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/reflectasm.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/rhino.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/serializer.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/sketches-core.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/slf4j-api.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/snakeyaml.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/solr-analysis-extras.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/solr-commons-csv.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/solr-core.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/solr-solrj.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/specification.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-aop.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-beans.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-context-support.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-context.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-core.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-expression.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-jdbc.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-jms.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-ldap-core.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-messaging.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-orm.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-security-core.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-security-ldap.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/spring-tx.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/sqlite-jdbc.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/subethasmtp.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/turbojpeg.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/udunits.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xalan.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xercesImpl.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xml-apis-ext.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xml-apis.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xmlgraphics-commons.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xmpcore.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/lib/server/xpp3.jar
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/README
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/agpl.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/antlr.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/apache-v1.1.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/apache-v2.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/asm.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/bouncy_castle_license.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/bsd.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/cddl-v1.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/cpl-v10.html
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/crystalclear.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/django.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/dom4j.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/epl-v1.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/fbsd.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/freemarker.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/gpl-v2.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/gpl.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/gtest.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/iconsweets_license.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/jamon.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/jmock.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/jquery.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/jtidy.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/lgpl-3.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/lgpl-v2.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/lgpl-v2.1.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/lgpl-v3.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/lgpl.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/matplotlib.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/mit.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/mpl-v1_0.htm
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/npl-1_1.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/path.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/pil.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/postgresql.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/psf-v2.0.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/psf-v2.5.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/scons.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/slf4j.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/tablelayout.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/which.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/zlib-libpng.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/share/licenses/zpl-v2.1.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/README.txt
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/misc/Makefile
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/misc/current.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/misc/enums.py
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/psql-header.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/schema.sql
00:50:59 inflating: OMERO.server-5.6.3-505-24424b73de-ice36/sql/psql/OMERO5.4__0/views.sql
00:50:59 + rm -f OMERO.server-5.6.3-505-24424b73de-ice36.zip
00:51:00 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-505-24424b73de-ice36 /home/omero/workspace/OMERO-server/OMERO.server
00:51:00 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
00:51:00 ++ deactivate nondestructive
00:51:00 ++ '[' -n '' ']'
00:51:00 ++ '[' -n '' ']'
00:51:00 ++ '[' -n /bin/bash -o -n '' ']'
00:51:00 ++ hash -r
00:51:00 ++ '[' -n '' ']'
00:51:00 ++ unset VIRTUAL_ENV
00:51:00 ++ '[' '!' nondestructive = nondestructive ']'
00:51:00 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
00:51:00 ++ export VIRTUAL_ENV
00:51:00 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:51:00 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:51:00 ++ export PATH
00:51:00 ++ '[' -n '' ']'
00:51:00 ++ '[' -z '' ']'
00:51:00 ++ _OLD_VIRTUAL_PS1=
00:51:00 ++ PS1='(.venv3) '
00:51:00 ++ export PS1
00:51:00 ++ '[' -n /bin/bash -o -n '' ']'
00:51:00 ++ hash -r
00:51:00 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
00:51:00 Collecting zeroc-ice==3.6.5
00:51:01 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
00:51:03 Installing collected packages: zeroc-ice
00:51:04 Successfully installed zeroc-ice-3.6.5
00:51:04 + pip install -U pip future
00:51:05 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
00:51:05 Collecting pip
00:51:05 Using cached pip-24.2-py3-none-any.whl (1.8 MB)
00:51:06 Collecting future
00:51:06 Using cached future-1.0.0-py3-none-any.whl (491 kB)
00:51:06 Installing collected packages: pip, future
00:51:06 Attempting uninstall: pip
00:51:06 Found existing installation: pip 21.2.3
00:51:06 Uninstalling pip-21.2.3:
00:51:06 Successfully uninstalled pip-21.2.3
00:51:07 Successfully installed future-1.0.0 pip-24.2
00:51:08 + pip install markdown
00:51:08 Collecting markdown
00:51:08 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
00:51:09 Collecting importlib-metadata>=4.4 (from markdown)
00:51:09 Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
00:51:09 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
00:51:09 Using cached zipp-3.20.2-py3-none-any.whl.metadata (3.7 kB)
00:51:09 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
00:51:09 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
00:51:09 Using cached zipp-3.20.2-py3-none-any.whl (9.2 kB)
00:51:09 Installing collected packages: zipp, importlib-metadata, markdown
00:51:09 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.20.2
00:51:09 + pip install reportlab
00:51:10 Collecting reportlab
00:51:10 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
00:51:10 Collecting pillow>=9.0.0 (from reportlab)
00:51:10 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
00:51:11 Collecting chardet (from reportlab)
00:51:11 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
00:51:11 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
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00:51:11 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
00:51:11 Installing collected packages: pillow, chardet, reportlab
00:51:13 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
00:51:13 + pip install omego
00:51:14 Collecting omego
00:51:14 Using cached omego-0.7.0-py3-none-any.whl
00:51:14 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
00:51:14 Collecting yaclifw>=0.1.1 (from omego)
00:51:14 Using cached yaclifw-0.2.0-py3-none-any.whl
00:51:14 Collecting six (from yaclifw>=0.1.1->omego)
00:51:14 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
00:51:14 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
00:51:14 Installing collected packages: six, yaclifw, omego
00:51:14 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
00:51:14 + pip install tables
00:51:14 Collecting tables
00:51:14 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
00:51:15 Collecting numpy>=1.19.0 (from tables)
00:51:15 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
00:51:15 Collecting numexpr>=2.6.2 (from tables)
00:51:15 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
00:51:16 Collecting packaging (from tables)
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00:51:16 Collecting py-cpuinfo (from tables)
00:51:16 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
00:51:16 Collecting blosc2>=2.3.0 (from tables)
00:51:16 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
00:51:16 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
00:51:16 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
00:51:17 Collecting msgpack (from blosc2>=2.3.0->tables)
00:51:17 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
00:51:17 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
00:51:17 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
00:51:17 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
00:51:17 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
00:51:17 Using cached packaging-24.1-py3-none-any.whl (53 kB)
00:51:17 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
00:51:17 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
00:51:17 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
00:51:18 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
00:51:21 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.8 numexpr-2.10.1 numpy-2.0.2 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2
00:51:21 + pip install jinja2
00:51:22 Collecting jinja2
00:51:22 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
00:51:22 Collecting MarkupSafe>=2.0 (from jinja2)
00:51:22 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
00:51:22 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
00:51:22 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
00:51:22 Installing collected packages: MarkupSafe, jinja2
00:51:22 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
00:51:22 + pip install omero-py
00:51:23 Collecting omero-py
00:51:23 Downloading omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
00:51:23 Collecting urllib3<2 (from omero-py)
00:51:23 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
00:51:23 Collecting appdirs (from omero-py)
00:51:23 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
00:51:23 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
00:51:24 Collecting numpy<2 (from omero-py)
00:51:24 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
00:51:24 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
00:51:24 Collecting PyYAML (from omero-py)
00:51:24 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
00:51:24 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
00:51:24 Collecting requests (from omero-py)
00:51:24 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
00:51:24 Collecting portalocker (from omero-py)
00:51:24 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
00:51:25 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
00:51:25 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
00:51:25 Collecting idna<4,>=2.5 (from requests->omero-py)
00:51:25 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
00:51:25 Collecting certifi>=2017.4.17 (from requests->omero-py)
00:51:25 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
00:51:25 Downloading omero_py-5.19.5-py3-none-any.whl (2.8 MB)
00:51:25 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.8/2.8 MB 21.6 MB/s eta 0:00:00
00:51:25 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
00:51:25 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
00:51:25 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
00:51:25 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
00:51:25 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
00:51:25 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
00:51:25 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
00:51:25 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
00:51:25 Using cached idna-3.10-py3-none-any.whl (70 kB)
00:51:26 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
00:51:26 Attempting uninstall: numpy
00:51:26 Found existing installation: numpy 2.0.2
00:51:26 Uninstalling numpy-2.0.2:
00:51:26 Successfully uninstalled numpy-2.0.2
00:51:33 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
00:51:33 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
00:51:34 Collecting omero-metadata
00:51:34 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-iye_muf3/omero-metadata_c9fdf27125854001b952cb447022473d
00:51:34 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-iye_muf3/omero-metadata_c9fdf27125854001b952cb447022473d
00:51:35 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit d75fbc11a58deca874d264115d6ff2eda0159fb9
00:51:35 Installing build dependencies: started
00:51:37 Installing build dependencies: finished with status 'done'
00:51:37 Getting requirements to build wheel: started
00:51:38 Getting requirements to build wheel: finished with status 'done'
00:51:38 Preparing metadata (pyproject.toml): started
00:51:38 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:38 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
00:51:38 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
00:51:38 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
00:51:38 Collecting pandas (from omero-metadata)
00:51:38 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
00:51:38 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
00:51:38 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
00:51:38 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
00:51:38 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
00:51:38 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)
00:51:38 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
00:51:38 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
00:51:38 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
00:51:38 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
00:51:38 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
00:51:38 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
00:51:39 Collecting pytz>=2020.1 (from pandas->omero-metadata)
00:51:39 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
00:51:39 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
00:51:39 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
00:51:39 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
00:51:39 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
00:51:39 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)
00:51:39 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)
00:51:39 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
00:51:39 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
00:51:39 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
00:51:40 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
00:51:40 Building wheels for collected packages: omero-metadata
00:51:40 Building wheel for omero-metadata (pyproject.toml): started
00:51:40 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
00:51:40 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39187 sha256=4a108d1475d4546eefa50fe822a1681bd1592f736d70daaf19cbfdec927ab25c
00:51:40 Stored in directory: /tmp/pip-ephem-wheel-cache-29a9h9s6/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
00:51:40 Successfully built omero-metadata
00:51:40 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
00:51:46 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.1
00:51:46 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
00:51:46 Collecting omero-cli-render
00:51:46 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-j28o70fu/omero-cli-render_ce7f7503ae594cd0863fa30a68fc9841
00:51:46 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-j28o70fu/omero-cli-render_ce7f7503ae594cd0863fa30a68fc9841
00:51:47 Running command git checkout -b merge_ci --track origin/merge_ci
00:51:48 Switched to a new branch 'merge_ci'
00:51:48 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:51:48 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 1f0bad769cbca59bf1eec83f1702a1488181b96d
00:51:48 Installing build dependencies: started
00:51:50 Installing build dependencies: finished with status 'done'
00:51:50 Getting requirements to build wheel: started
00:51:50 Getting requirements to build wheel: finished with status 'done'
00:51:50 Preparing metadata (pyproject.toml): started
00:51:50 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:50 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
00:51:50 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
00:51:50 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
00:51:50 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
00:51:50 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
00:51:50 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
00:51:50 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)
00:51:50 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
00:51:50 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
00:51:50 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
00:51:50 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
00:51:50 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)
00:51:50 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)
00:51:50 Building wheels for collected packages: omero-cli-render
00:51:50 Building wheel for omero-cli-render (pyproject.toml): started
00:51:50 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
00:51:50 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18031 sha256=39cfba5d6d6e84ab3cc4d2a7adebd8c376a3815f664eb50fbca16319f88e06f4
00:51:50 Stored in directory: /tmp/pip-ephem-wheel-cache-clulzaqc/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
00:51:51 Successfully built omero-cli-render
00:51:51 Installing collected packages: omero-cli-render
00:51:51 Successfully installed omero-cli-render-0.8.2.dev0
00:51:51 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
00:51:51 Collecting omero-cli-duplicate
00:51:51 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-t4pwktzl/omero-cli-duplicate_d09b05b1fe314474997c6a96b0a4f39c
00:51:51 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-t4pwktzl/omero-cli-duplicate_d09b05b1fe314474997c6a96b0a4f39c
00:51:54 Running command git checkout -b merge_ci --track origin/merge_ci
00:51:54 Switched to a new branch 'merge_ci'
00:51:54 branch 'merge_ci' set up to track 'origin/merge_ci'.
00:51:54 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 8b9204daa659a551d6df5664becae51d12e84d65
00:51:54 Installing build dependencies: started
00:51:56 Installing build dependencies: finished with status 'done'
00:51:56 Getting requirements to build wheel: started
00:51:56 Getting requirements to build wheel: finished with status 'done'
00:51:56 Preparing metadata (pyproject.toml): started
00:51:56 Preparing metadata (pyproject.toml): finished with status 'done'
00:51:56 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
00:51:56 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
00:51:56 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
00:51:56 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
00:51:56 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
00:51:56 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)
00:51:56 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
00:51:56 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
00:51:56 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
00:51:56 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
00:51:56 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
00:51:56 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)
00:51:56 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)
00:51:56 Building wheels for collected packages: omero-cli-duplicate
00:51:56 Building wheel for omero-cli-duplicate (pyproject.toml): started
00:51:57 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
00:51:57 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=0ea4f12401e72f3e1c4e93242ef7fc5d01335a842e7da0058d7132151d30680a
00:51:57 Stored in directory: /tmp/pip-ephem-wheel-cache-qdbtgwfs/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
00:51:57 Successfully built omero-cli-duplicate
00:51:57 Installing collected packages: omero-cli-duplicate
00:51:57 Successfully installed omero-cli-duplicate-0.4.1.dev0
00:51:57 + pip install omero-certificates
00:51:58 Collecting omero-certificates
00:51:58 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
00:51:58 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
00:51:58 Collecting distro==1.8.0 (from omero-certificates)
00:51:58 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
00:51:58 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
00:51:58 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
00:51:58 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
00:51:58 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
00:51:58 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)
00:51:58 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
00:51:58 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
00:51:58 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
00:51:58 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
00:51:58 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
00:51:58 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)
00:51:58 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)
00:51:58 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
00:51:58 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
00:51:58 Installing collected packages: distro, omero-certificates
00:51:58 Successfully installed distro-1.8.0 omero-certificates-0.3.2
00:51:58 + for x in *.tar.gz
00:51:58 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
00:51:59 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
00:51:59 Installing build dependencies: started
00:52:01 Installing build dependencies: finished with status 'done'
00:52:01 Getting requirements to build wheel: started
00:52:01 Getting requirements to build wheel: finished with status 'done'
00:52:01 Preparing metadata (pyproject.toml): started
00:52:01 Preparing metadata (pyproject.toml): finished with status 'done'
00:52:01 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
00:52:01 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
00:52:01 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
00:52:01 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
00:52:01 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
00:52:01 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)
00:52:01 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
00:52:01 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)
00:52:01 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
00:52:01 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
00:52:01 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)
00:52:01 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)
00:52:01 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)
00:52:01 Building wheels for collected packages: omero-dropbox
00:52:01 Building wheel for omero-dropbox (pyproject.toml): started
00:52:01 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
00:52:01 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49056 sha256=56ecf8eae717cbbacd872b6a8b15337bbf4bea7787a396a2c29edaecdc4c2abe
00:52:01 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
00:52:01 Successfully built omero-dropbox
00:52:02 Installing collected packages: omero-dropbox
00:52:02 Successfully installed omero-dropbox-5.7.1.dev0
00:52:02 + for x in *.tar.gz
00:52:02 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
00:52:02 Processing ./omero_marshal-0.9.1.dev0.tar.gz
00:52:02 Installing build dependencies: started
00:52:04 Installing build dependencies: finished with status 'done'
00:52:04 Getting requirements to build wheel: started
00:52:05 Getting requirements to build wheel: finished with status 'done'
00:52:05 Preparing metadata (pyproject.toml): started
00:52:05 Preparing metadata (pyproject.toml): finished with status 'done'
00:52:05 Building wheels for collected packages: omero_marshal
00:52:05 Building wheel for omero_marshal (pyproject.toml): started
00:52:05 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
00:52:05 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88030 sha256=987284e3b0092a8798a64be85e413620f3146ea7f372a8fc8ef3baa8178df016
00:52:05 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
00:52:05 Successfully built omero_marshal
00:52:06 Installing collected packages: omero_marshal
00:52:06 Successfully installed omero_marshal-0.9.1.dev0
00:52:06 + for x in *.tar.gz
00:52:06 + pip install -U omero_py-5.19.6.dev0.tar.gz
00:52:06 Processing ./omero_py-5.19.6.dev0.tar.gz
00:52:07 Installing build dependencies: started
00:52:09 Installing build dependencies: finished with status 'done'
00:52:09 Getting requirements to build wheel: started
00:52:09 Getting requirements to build wheel: finished with status 'done'
00:52:09 Preparing metadata (pyproject.toml): started
00:52:10 Preparing metadata (pyproject.toml): finished with status 'done'
00:52:10 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
00:52:10 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
00:52:10 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
00:52:10 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
00:52:10 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (10.4.0)
00:52:10 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
00:52:10 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)
00:52:10 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
00:52:10 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.10.1)
00:52:10 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)
00:52:10 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
00:52:10 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)
00:52:10 Building wheels for collected packages: omero-py
00:52:10 Building wheel for omero-py (pyproject.toml): started
00:52:11 Building wheel for omero-py (pyproject.toml): finished with status 'done'
00:52:11 Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2782852 sha256=3669f3034e1d1f4cffa7be96a4d02f8602ccc0fe167aab4d6c730c72d8ba6184
00:52:11 Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
00:52:11 Successfully built omero-py
00:52:11 Installing collected packages: omero-py
00:52:11 Attempting uninstall: omero-py
00:52:11 Found existing installation: omero-py 5.19.5
00:52:11 Uninstalling omero-py-5.19.5:
00:52:12 Successfully uninstalled omero-py-5.19.5
00:52:14 Successfully installed omero-py-5.19.6.dev0
00:52:14 + for x in *.tar.gz
00:52:14 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
00:52:15 Processing ./omero_scripts-5.8.4.dev0.tar.gz
00:52:15 Installing build dependencies: started
00:52:17 Installing build dependencies: finished with status 'done'
00:52:17 Getting requirements to build wheel: started
00:52:17 Getting requirements to build wheel: finished with status 'done'
00:52:17 Preparing metadata (pyproject.toml): started
00:52:18 Preparing metadata (pyproject.toml): finished with status 'done'
00:52:18 Building wheels for collected packages: omero-scripts
00:52:18 Building wheel for omero-scripts (pyproject.toml): started
00:52:18 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
00:52:18 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116644 sha256=ce6e1e021e80434532fbd3bc08ea65469e439b711c9f1b51400a1e90d58edf38
00:52:18 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
00:52:18 Successfully built omero-scripts
00:52:18 Installing collected packages: omero-scripts
00:52:18 Successfully installed omero-scripts-5.8.4.dev0
00:52:18 + for x in *.tar.gz
00:52:18 + pip install -U omero_web-5.27.3.dev0.tar.gz
00:52:19 Processing ./omero_web-5.27.3.dev0.tar.gz
00:52:19 Installing build dependencies: started
00:52:22 Installing build dependencies: finished with status 'done'
00:52:22 Getting requirements to build wheel: started
00:52:22 Getting requirements to build wheel: finished with status 'done'
00:52:22 Preparing metadata (pyproject.toml): started
00:52:22 Preparing metadata (pyproject.toml): finished with status 'done'
00:52:22 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)
00:52:22 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0)
00:52:22 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
00:52:23 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0)
00:52:23 Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB)
00:52:23 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0)
00:52:23 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
00:52:23 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0)
00:52:23 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
00:52:23 Collecting django-csp (from omero-web==5.27.3.dev0)
00:52:23 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
00:52:23 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0)
00:52:23 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
00:52:23 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0)
00:52:23 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
00:52:23 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)
00:52:23 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (10.4.0)
00:52:23 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2)
00:52:23 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1)
00:52:23 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1)
00:52:23 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
00:52:23 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
00:52:24 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
00:52:24 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
00:52:24 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)
00:52:24 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)
00:52:24 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)
00:52:24 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)
00:52:24 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)
00:52:24 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)
00:52:24 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)
00:52:24 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
00:52:24 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
00:52:24 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)
00:52:24 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)
00:52:24 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)
00:52:24 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
00:52:24 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
00:52:24 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
00:52:24 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB)
00:52:25 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
00:52:25 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
00:52:25 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
00:52:25 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
00:52:25 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
00:52:25 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
00:52:25 Building wheels for collected packages: omero-web
00:52:25 Building wheel for omero-web (pyproject.toml): started
00:52:26 Building wheel for omero-web (pyproject.toml): finished with status 'done'
00:52:26 Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766665 sha256=6705e91aa35b477640658a8f88e6f2a7c6e4d754aa95e9257be9a6b9828b949f
00:52:26 Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b
00:52:26 Successfully built omero-web
00:52:27 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
00:52:30 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
00:52:31 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:52:32 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
00:52:32 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
00:52:32 --2024-09-17 00:52:32-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
00:52:32 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.109.133, 185.199.108.133, ...
00:52:32 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
00:52:33 HTTP request sent, awaiting response... 200 OK
00:52:33 Length: 98962 (97K) [text/plain]
00:52:33 Saving to: ‘Figure_To_Pdf.py’
00:52:33
00:52:33 0K .......... .......... .......... .......... .......... 51% 926K 0s
00:52:33 50K .......... .......... .......... .......... ...... 100% 5.88M=0.06s
00:52:33
00:52:33 2024-09-17 00:52:33 (1.53 MB/s) - ‘Figure_To_Pdf.py’ saved [98962/98962]
00:52:33
00:52:33 + chmod 755 Figure_To_Pdf.py
00:52:33 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
00:52:33 + omero config set omero.db.name OMERO-server
00:52:36 + omero config set omero.db.host pg
00:52:38 + omero config set omero.db.user postgres
00:52:40 + omero config set omero.data.dir /home/omero/omero-server-data
00:52:42 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
00:52:44 + omero config set omero.db.poolsize 25
00:52:47 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
00:52:49 + omero config set omero.security.trustStorePassword changeit
00:52:51 + omero config set omero.mail.config true
00:52:53 + omero config set omero.mail.from qa@openmicroscopy.org.uk
00:52:55 + omero config set omero.mail.host smtp.dundee.ac.uk
00:52:57 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
00:52:58 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
00:53:00 + omero certificates
00:53:02 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
00:53:02 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
00:53:03 + '[' false = true ']'
00:53:03 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
00:53:03 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
00:53:03 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
00:53:03 2024-09-17 00:53:03,452 [ omego.db] DEBUG dbcommand => upgrade
00:53:03 2024-09-17 00:53:03,452 [ omego.db] DEBUG dbhost => localhost
00:53:03 2024-09-17 00:53:03,452 [ omego.db] DEBUG dbname => OMERO-server
00:53:03 2024-09-17 00:53:03,452 [ omego.db] DEBUG dbpass => omero
00:53:03 2024-09-17 00:53:03,452 [ omego.db] DEBUG dbuser => omero
00:53:03 2024-09-17 00:53:03,453 [ omego.db] DEBUG rootpass => omero
00:53:03 2024-09-17 00:53:03,453 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
00:53:03 2024-09-17 00:53:03,453 [omego.extern] INFO Executing : omero version
00:53:04 OMERO.py version:
00:53:05 OMERO.server version:
00:53:05 5.6.3-505-24424b73de-ice36
00:53:05 5.19.6.dev0
00:53:05 2024-09-17 00:53:05,462 [omego.extern] INFO Completed [2.009 s]
00:53:05 2024-09-17 00:53:05,463 [omego.extern] DEBUG Using omero CLI from omero
00:53:05 2024-09-17 00:53:05,463 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
00:53:05 2024-09-17 00:53:05,463 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:53:05 2024-09-17 00:53:05,463 [omego.extern] INFO Executing : omero config get --show-password
00:53:07 2024-09-17 00:53:07,246 [omego.extern] INFO Completed [1.783 s]
00:53:07 2024-09-17 00:53:07,246 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:53:07 2024-09-17 00:53:07,247 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
00:53:07 2024-09-17 00:53:07,600 [omego.extern] INFO Completed [0.353 s]
00:53:07 2024-09-17 00:53:07,600 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
00:53:07 2024-09-17 00:53:07,600 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
00:53:07
00:53:07 2024-09-17 00:53:07,600 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:53:07 2024-09-17 00:53:07,600 [omego.extern] INFO Executing : omero config get --show-password
00:53:09 2024-09-17 00:53:09,489 [omego.extern] INFO Completed [1.889 s]
00:53:09 2024-09-17 00:53:09,490 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:53:09 2024-09-17 00:53:09,490 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
00:53:09 2024-09-17 00:53:09,658 [omego.extern] INFO Completed [0.168 s]
00:53:09 2024-09-17 00:53:09,658 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.5") at port "5432".\n'
00:53:09 2024-09-17 00:53:09,658 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:53:09 2024-09-17 00:53:09,658 [omego.extern] INFO Running [current environment]: omero config get --show-password
00:53:09 2024-09-17 00:53:09,658 [omego.extern] INFO Executing : omero config get --show-password
00:53:11 2024-09-17 00:53:11,127 [omego.extern] INFO Completed [1.469 s]
00:53:11 2024-09-17 00:53:11,128 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
00:53:11 2024-09-17 00:53:11,128 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
00:53:11 2024-09-17 00:53:11,537 [omego.extern] INFO Completed [0.409 s]
00:53:11 2024-09-17 00:53:11,537 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
00:53:11 2024-09-17 00:53:11,538 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
00:53:11 2024-09-17 00:53:11,541 [ omego.db] INFO Database is already at OMERO5.4__0
00:53:11 + export LANG=en_US.UTF-8
00:53:11 + LANG=en_US.UTF-8
00:53:11 + export LANGUAGE=en_US:en
00:53:11 + LANGUAGE=en_US:en
00:53:11 + export LC_ALL=en_US.UTF-8
00:53:11 + LC_ALL=en_US.UTF-8
00:53:11 + BUILD_ID=DONT_KILL_ME
00:53:11 + omero admin start
00:53:31 No descriptor given. Using etc/grid/default.xml
00:53:53 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
00:53:53 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
00:53:53 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
00:53:53 Waiting on startup. Use CTRL-C to exit
00:53:53 + omero admin waitup
00:53:55 Waiting on startup. Use CTRL-C to exit
00:53:55 + omero admin diagnostics
00:53:56
00:53:56 ================================================================================
00:53:56 OMERO Diagnostics (admin)
00:53:56 ================================================================================
00:53:56
00:53:56 Commands: java -version 11.0.22 (/usr/bin/java)
00:53:57 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
00:53:57 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
00:53:57 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
00:53:57 Commands: psql --version 16.2 (/usr/bin/psql)
00:53:57 Commands: openssl version 3.0.71 (/usr/bin/openssl)
00:53:57
00:53:57 Component: OMERO.py 5.19.6.dev0
00:53:57 Component: OMERO.server 5.6.3-505-24424b73de-ice36
00:53:57
00:53:57 Server: icegridnode running
00:53:57 Server: Blitz-0 active (pid = 89922, enabled)
00:53:57 Server: Indexer-0 active (pid = 89944, enabled)
00:53:57 Server: OMERO.Glacier2 active (pid = 89948, enabled)
00:53:57 Server: OMERO.IceStorm active (pid = 89970, enabled)
00:53:57 Server: Processor-0 activating (enabled)
00:53:57 Server: Tables-0 activating (enabled)
00:53:57
00:53:57 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
00:53:57 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
00:53:57 Log files: DropBox.log n/a
00:53:57 Log files: FileServer.log n/a
00:53:57 Log files: Indexer-0.log 2.6 KB
00:53:57 Log files: MonitorServer.log n/a
00:53:57 Log files: Processor-0.log 592 B
00:53:57 Log files: Tables-0.log 841 B
00:53:57 Log files: TestDropBox.log n/a
00:53:57 Log files: master.err 180 B
00:53:57 Log files: master.out 30.1 KB
00:53:57 Log files: Total size 0.06 MB
00:53:57
00:53:57
00:53:57 Environment:OMERO_HOME=(unset)
00:53:57 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
00:53:57 Environment:OMERO_NODE=(unset)
00:53:57 Environment:OMERO_MASTER=(unset)
00:53:57 Environment:OMERO_USERDIR=(unset)
00:53:57 Environment:OMERO_TMPDIR=(unset)
00:53:57 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:53:57 Environment:PYTHONPATH=(unset)
00:53:57 Environment:ICE_HOME=/opt/ice-3.6.5
00:53:57 Environment:LD_LIBRARY_PATH=(unset)
00:53:57 Environment:DYLD_LIBRARY_PATH=(unset)
00:53:57
00:53:57 OMERO SSL port:4064
00:53:57 OMERO TCP port:4063
00:53:57 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
00:53:57 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
00:53:57
00:53:57 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:53:57 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:53:57 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:53:57 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
00:53:57
00:53:57 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 17 September 2024 1d5e11cc0c1569a0ca785bbc868a2f07634216cc
00:53:57 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 17 September 2024 1d5e11cc0c1569a0ca785bbc868a2f07634216cc
00:53:57 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 17 September 2024 1d5e11cc0c1569a0ca785bbc868a2f07634216cc
00:53:57 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 17 September 2024 0c6118c7cb0848f6af6d05858f584d109c03b464
00:53:57 Jar: lib/server/ome-common.jar OME Common Java 6.0.24-SNAPSHOT 17 September 2024 0c6118c7cb0848f6af6d05858f584d109c03b464
00:53:57 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 17 September 2024 0c6118c7cb0848f6af6d05858f584d109c03b464
00:53:57 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 17 September 2024 0c6118c7cb0848f6af6d05858f584d109c03b464
00:53:57 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 17 September 2024 0c6118c7cb0848f6af6d05858f584d109c03b464
00:53:57 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 17 September 2024 0c6118c7cb0848f6af6d05858f584d109c03b464
00:53:57 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT
00:53:57 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT
00:53:57 Jar: lib/server/omero-gateway.jar jar 5.9.4-SNAPSHOT
00:53:57 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT
00:53:57 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT
00:53:57 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT
00:53:57 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT
00:53:57 + deactivate
00:53:57 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
00:53:57 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:53:57 + export PATH
00:53:57 + unset _OLD_VIRTUAL_PATH
00:53:57 + '[' -n '' ']'
00:53:57 + '[' -n /bin/bash -o -n '' ']'
00:53:57 + hash -r
00:53:57 + '[' -n '' ']'
00:53:57 + unset VIRTUAL_ENV
00:53:57 + '[' '!' '' = nondestructive ']'
00:53:57 + unset -f deactivate
00:53:57 Finished: SUCCESS
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