05:47:24 Started by upstream project "Trigger" build number 225
05:47:24 originally caused by:
05:47:24 Started by user devspace
05:47:24 Running as SYSTEM
05:47:24 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
05:47:25 [OMERO-server] $ /bin/bash -xe /tmp/jenkins8733345695525662544.sh
05:47:25 + source /home/settings.env
05:47:25 ++ OMERO_DB_HOST=pg
05:47:25 ++ OMERO_DB_USER=postgres
05:47:25 ++ OMERO_DB_PASS=
05:47:25 ++ OMERO_ROOT_PASS=omero
05:47:25 ++ OMERO_DATA_DIR=/OMERO
05:47:25 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
05:47:25 + OMERO_DB_NAME=OMERO-server
05:47:25 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
05:47:25 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:47:25 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:47:25 + OMERO_DATA_DIR=/home/omero/omero-server-data
05:47:25 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
05:47:25 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
05:47:25 ++ deactivate nondestructive
05:47:25 ++ '[' -n '' ']'
05:47:25 ++ '[' -n '' ']'
05:47:25 ++ '[' -n /bin/bash -o -n '' ']'
05:47:25 ++ hash -r
05:47:25 ++ '[' -n '' ']'
05:47:25 ++ unset VIRTUAL_ENV
05:47:25 ++ '[' '!' nondestructive = nondestructive ']'
05:47:25 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
05:47:25 ++ export VIRTUAL_ENV
05:47:25 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:47:25 ++ 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
05:47:25 ++ export PATH
05:47:25 ++ '[' -n '' ']'
05:47:25 ++ '[' -z '' ']'
05:47:25 ++ _OLD_VIRTUAL_PS1=
05:47:25 ++ PS1='(.venv3) '
05:47:25 ++ export PS1
05:47:25 ++ '[' -n /bin/bash -o -n '' ']'
05:47:25 ++ hash -r
05:47:25 + omero admin stop
05:47:46 Server not running
05:47:47 + echo not running
05:47:47 not running
05:47:47 + sleep 5
05:47:52 + deactivate
05:47:52 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
05:47:52 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:47:52 + export PATH
05:47:52 + unset _OLD_VIRTUAL_PATH
05:47:52 + '[' -n '' ']'
05:47:52 + '[' -n /bin/bash -o -n '' ']'
05:47:52 + hash -r
05:47:52 + '[' -n '' ']'
05:47:52 + unset VIRTUAL_ENV
05:47:52 + '[' '!' '' = nondestructive ']'
05:47:52 + unset -f deactivate
05:47:52 + rm -rf /home/omero/workspace/OMERO-server/.venv3
05:47:52 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
05:47:56 + '[' false = true ']'
05:47:56 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
05:47:56 Skipping PURGE_DATA:CleanDbAndRepo
05:47:56 + 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
05:47:59 Copied 1 artifact from "OMERO-build" build number 187
05:47:59 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 184
05:47:59 Copied 2 artifacts from "OMERO-build-build" build number 192
05:47:59 [OMERO-server] $ /bin/bash -xe /tmp/jenkins8613978635372786458.sh
05:47:59 + source /home/settings.env
05:47:59 ++ OMERO_DB_HOST=pg
05:47:59 ++ OMERO_DB_USER=postgres
05:47:59 ++ OMERO_DB_PASS=
05:47:59 ++ OMERO_ROOT_PASS=omero
05:47:59 ++ OMERO_DATA_DIR=/OMERO
05:47:59 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
05:47:59 + OMERO_DB_NAME=OMERO-server
05:47:59 + OMERO_DATA_DIR=/home/omero/omero-server-data
05:47:59 + mkdir -p /home/omero/omero-server-data
05:47:59 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
05:47:59 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:47:59 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:47:59 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
05:47:59 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
05:47:59 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
05:47:59 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
05:47:59 ++ ls OMERO.server-5.6.3-513-f903836379-ice36.zip
05:47:59 + ZIP=OMERO.server-5.6.3-513-f903836379-ice36.zip
05:47:59 + '[' '!' -z '' ']'
05:47:59 + DIST=OMERO.server-5.6.3-513-f903836379-ice36
05:47:59 + unzip OMERO.server-5.6.3-513-f903836379-ice36.zip
05:47:59 Archive: OMERO.server-5.6.3-513-f903836379-ice36.zip
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/blitz/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/grid/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/profiles/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/error/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/grid/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/luts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/luts/janelia/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/luts/ncsa_paledit/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/luts/wcif/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/analysis_scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/annotation_scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/export_scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/figure_scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/import_scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/scripts/omero/util_scripts/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/share/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/misc/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__1/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__10/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__11/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__2/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__3/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__4/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__5/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__6/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__7/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__8/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__9/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__4/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__5/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__6/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__7/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.1__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.2__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.2__0/t/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.3__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.4__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.0__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.1__1/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.2__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4DEV__1/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4DEV__2/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4DEV__3/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/
05:47:59 creating: OMERO.server-5.6.3-513-f903836379-ice36/var/
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/LICENSE.txt
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/backup.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/blitz/mail-senders.example
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/blitz/mail-server.example
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/build.properties
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/env.bat
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/env.sh
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/hibernate.properties
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/ice.config
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/logback-cli.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/logback-indexing-cli.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/logback-indexing.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/logback.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/mime.types
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/node1.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/node2.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/omero.properties
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/profiles/psql
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/rollover.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/Windows.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/error/maintainance.html
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/grid/README
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/grid/default.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/grid/templates.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/grid/windefault.xml
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/ice.config
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/internal.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/master.cfg
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/templates/robot.template
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/etc/testdropbox.config
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/history.rst
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/OMEZarrReader.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/activation.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/aggdesigner-algorithm.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/aircompressor.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/annotations.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/antlr.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/aopalliance.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/avatica-core.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/avatica-metrics.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/aws-java-sdk-core.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/aws-java-sdk-kms.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/aws-java-sdk-s3.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/base.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-all.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-anim.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-awt-util.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-bridge.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-codec.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-constants.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-css.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-dom.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-ext.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-extension.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-gui-util.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-gvt.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-i18n.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-parser.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-rasterizer-ext.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-rasterizer.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-script.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-slideshow.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-squiggle-ext.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-squiggle.jar
05:47:59 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-svg-dom.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-svgbrowser.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-svggen.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-svgpp.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-svgrasterizer.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-swing.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-transcoder.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-ttf2svg.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-util.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/batik-xml.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/btm.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/bufr.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/c3p0.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/calcite-core.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/calcite-linq4j.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/cdm-core.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/checker-qual.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/commons-beanutils.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/commons-codec.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/commons-collections.jar
05:48:00 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/client/commons-collections4.jar
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05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/protobuf-java.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/quartz.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/re2j.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/reflectasm.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/rhino.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/serializer.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/sketches-core.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/slf4j-api.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/snakeyaml.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/solr-analysis-extras.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/solr-commons-csv.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/solr-core.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/solr-solrj.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/specification.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-aop.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-beans.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-context-support.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-context.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-core.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-expression.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-jdbc.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-jms.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-ldap-core.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-messaging.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-orm.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-security-core.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-security-ldap.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/spring-tx.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/sqlite-jdbc.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/subethasmtp.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/turbojpeg.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/udunits.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xalan.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xercesImpl.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xml-apis-ext.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xml-apis.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xmlgraphics-commons.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xmpcore.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/lib/server/xpp3.jar
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/README
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/agpl.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/antlr.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/apache-v1.1.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/apache-v2.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/asm.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/bouncy_castle_license.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/bsd.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/cddl-v1.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/cpl-v10.html
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/crystalclear.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/django.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/dom4j.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/epl-v1.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/fbsd.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/freemarker.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/gpl-v2.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/gpl.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/gtest.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/iconsweets_license.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/jamon.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/jmock.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/jquery.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/jtidy.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/lgpl-3.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/lgpl-v2.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/lgpl-v2.1.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/lgpl-v3.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/lgpl.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/matplotlib.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/mit.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/mpl-v1_0.htm
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/npl-1_1.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/path.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/pil.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/postgresql.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/psf-v2.0.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/psf-v2.5.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/scons.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/slf4j.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/tablelayout.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/which.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/zlib-libpng.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/share/licenses/zpl-v2.1.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/README.txt
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/misc/Makefile
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/misc/current.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/misc/enums.py
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/psql-header.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/schema.sql
05:48:02 inflating: OMERO.server-5.6.3-513-f903836379-ice36/sql/psql/OMERO5.4__0/views.sql
05:48:02 + rm -f OMERO.server-5.6.3-513-f903836379-ice36.zip
05:48:02 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-513-f903836379-ice36 /home/omero/workspace/OMERO-server/OMERO.server
05:48:02 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
05:48:02 ++ deactivate nondestructive
05:48:02 ++ '[' -n '' ']'
05:48:02 ++ '[' -n '' ']'
05:48:02 ++ '[' -n /bin/bash -o -n '' ']'
05:48:02 ++ hash -r
05:48:02 ++ '[' -n '' ']'
05:48:02 ++ unset VIRTUAL_ENV
05:48:02 ++ '[' '!' nondestructive = nondestructive ']'
05:48:02 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
05:48:02 ++ export VIRTUAL_ENV
05:48:02 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:48:02 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:48:02 ++ export PATH
05:48:02 ++ '[' -n '' ']'
05:48:02 ++ '[' -z '' ']'
05:48:02 ++ _OLD_VIRTUAL_PS1=
05:48:02 ++ PS1='(.venv3) '
05:48:02 ++ export PS1
05:48:02 ++ '[' -n /bin/bash -o -n '' ']'
05:48:02 ++ hash -r
05:48:02 + 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
05:48:02 Collecting zeroc-ice==3.6.5
05:48:03 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)
05:48:05 Installing collected packages: zeroc-ice
05:48:05 Successfully installed zeroc-ice-3.6.5
05:48:05 + pip install -U pip future
05:48:06 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
05:48:06 Collecting pip
05:48:06 Using cached pip-24.2-py3-none-any.whl (1.8 MB)
05:48:06 Collecting future
05:48:06 Using cached future-1.0.0-py3-none-any.whl (491 kB)
05:48:06 Installing collected packages: pip, future
05:48:06 Attempting uninstall: pip
05:48:06 Found existing installation: pip 21.2.3
05:48:07 Uninstalling pip-21.2.3:
05:48:07 Successfully uninstalled pip-21.2.3
05:48:08 Successfully installed future-1.0.0 pip-24.2
05:48:08 + pip install markdown
05:48:09 Collecting markdown
05:48:09 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB)
05:48:09 Collecting importlib-metadata>=4.4 (from markdown)
05:48:09 Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB)
05:48:09 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown)
05:48:09 Using cached zipp-3.20.2-py3-none-any.whl.metadata (3.7 kB)
05:48:09 Using cached Markdown-3.7-py3-none-any.whl (106 kB)
05:48:09 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
05:48:09 Using cached zipp-3.20.2-py3-none-any.whl (9.2 kB)
05:48:09 Installing collected packages: zipp, importlib-metadata, markdown
05:48:10 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.20.2
05:48:10 + pip install reportlab
05:48:11 Collecting reportlab
05:48:11 Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB)
05:48:11 Collecting pillow>=9.0.0 (from reportlab)
05:48:11 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
05:48:11 Collecting chardet (from reportlab)
05:48:11 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
05:48:11 Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB)
05:48:11 Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
05:48:11 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
05:48:11 Installing collected packages: pillow, chardet, reportlab
05:48:13 Successfully installed chardet-5.2.0 pillow-10.4.0 reportlab-4.2.2
05:48:13 + pip install omego
05:48:13 Collecting omego
05:48:13 Using cached omego-0.7.0-py3-none-any.whl
05:48:13 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
05:48:13 Collecting yaclifw>=0.1.1 (from omego)
05:48:13 Using cached yaclifw-0.2.0-py3-none-any.whl
05:48:14 Collecting six (from yaclifw>=0.1.1->omego)
05:48:14 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
05:48:14 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
05:48:14 Installing collected packages: six, yaclifw, omego
05:48:14 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
05:48:14 + pip install tables
05:48:14 Collecting tables
05:48:14 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
05:48:15 Collecting numpy>=1.19.0 (from tables)
05:48:15 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB)
05:48:15 Collecting numexpr>=2.6.2 (from tables)
05:48:15 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB)
05:48:15 Collecting packaging (from tables)
05:48:15 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB)
05:48:15 Collecting py-cpuinfo (from tables)
05:48:15 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
05:48:15 Collecting blosc2>=2.3.0 (from tables)
05:48:15 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
05:48:15 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
05:48:15 Downloading ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB)
05:48:16 Collecting msgpack (from blosc2>=2.3.0->tables)
05:48:16 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB)
05:48:16 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
05:48:16 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
05:48:16 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB)
05:48:16 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
05:48:16 Using cached packaging-24.1-py3-none-any.whl (53 kB)
05:48:16 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
05:48:16 Downloading ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB)
05:48:16 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB)
05:48:16 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
05:48:20 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
05:48:20 + pip install jinja2
05:48:20 Collecting jinja2
05:48:20 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB)
05:48:21 Collecting MarkupSafe>=2.0 (from jinja2)
05:48:21 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
05:48:21 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB)
05:48:21 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
05:48:21 Installing collected packages: MarkupSafe, jinja2
05:48:21 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.4
05:48:21 + pip install omero-py
05:48:21 Collecting omero-py
05:48:21 Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB)
05:48:21 Collecting urllib3<2 (from omero-py)
05:48:22 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB)
05:48:22 Collecting appdirs (from omero-py)
05:48:22 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
05:48:22 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
05:48:22 Collecting numpy<2 (from omero-py)
05:48:22 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
05:48:22 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0)
05:48:22 Collecting PyYAML (from omero-py)
05:48:22 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
05:48:22 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
05:48:22 Collecting requests (from omero-py)
05:48:22 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB)
05:48:22 Collecting portalocker (from omero-py)
05:48:22 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB)
05:48:22 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
05:48:22 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
05:48:22 Collecting idna<4,>=2.5 (from requests->omero-py)
05:48:22 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB)
05:48:22 Collecting certifi>=2017.4.17 (from requests->omero-py)
05:48:22 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB)
05:48:22 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB)
05:48:23 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
05:48:23 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
05:48:23 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
05:48:23 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB)
05:48:23 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
05:48:23 Using cached requests-2.32.3-py3-none-any.whl (64 kB)
05:48:23 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB)
05:48:23 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
05:48:23 Using cached idna-3.10-py3-none-any.whl (70 kB)
05:48:23 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py
05:48:23 Attempting uninstall: numpy
05:48:23 Found existing installation: numpy 2.0.2
05:48:23 Uninstalling numpy-2.0.2:
05:48:23 Successfully uninstalled numpy-2.0.2
05:48:28 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
05:48:28 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
05:48:28 Collecting omero-metadata
05:48:28 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-qvkycwj0/omero-metadata_f573f3c8a3724c1cbef1881ef99d06d3
05:48:29 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-qvkycwj0/omero-metadata_f573f3c8a3724c1cbef1881ef99d06d3
05:48:30 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 7ca292c1d754736c9300297e3a407db948b9c638
05:48:30 Installing build dependencies: started
05:48:32 Installing build dependencies: finished with status 'done'
05:48:32 Getting requirements to build wheel: started
05:48:32 Getting requirements to build wheel: finished with status 'done'
05:48:32 Preparing metadata (pyproject.toml): started
05:48:32 Preparing metadata (pyproject.toml): finished with status 'done'
05:48:32 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5)
05:48:32 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2)
05:48:32 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4)
05:48:32 Collecting pandas (from omero-metadata)
05:48:32 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
05:48:32 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20)
05:48:32 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
05:48:32 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
05:48:32 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
05:48:32 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)
05:48:32 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)
05:48:32 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3)
05:48:32 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1)
05:48:32 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
05:48:33 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
05:48:33 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
05:48:33 Collecting pytz>=2020.1 (from pandas->omero-metadata)
05:48:33 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB)
05:48:33 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
05:48:33 Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB)
05:48:33 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)
05:48:33 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)
05:48:33 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)
05:48:33 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)
05:48:33 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
05:48:33 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
05:48:33 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB)
05:48:33 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB)
05:48:33 Building wheels for collected packages: omero-metadata
05:48:33 Building wheel for omero-metadata (pyproject.toml): started
05:48:33 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
05:48:33 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39187 sha256=dcbe8c7ee45b8f652c1ad47cc82742280106772815765dce2201e007bc2dedd7
05:48:33 Stored in directory: /tmp/pip-ephem-wheel-cache-xykmrr5f/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
05:48:33 Successfully built omero-metadata
05:48:34 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
05:48:39 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2
05:48:39 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
05:48:39 Collecting omero-cli-render
05:48:39 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-j6_zmeej/omero-cli-render_d17546fe48f04d06ad6475a71873aafa
05:48:39 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-j6_zmeej/omero-cli-render_d17546fe48f04d06ad6475a71873aafa
05:48:40 Running command git checkout -b merge_ci --track origin/merge_ci
05:48:41 Switched to a new branch 'merge_ci'
05:48:41 branch 'merge_ci' set up to track 'origin/merge_ci'.
05:48:41 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 285c14ce83972a890c1db05ce06bf5df4f02ede0
05:48:41 Installing build dependencies: started
05:48:42 Installing build dependencies: finished with status 'done'
05:48:42 Getting requirements to build wheel: started
05:48:43 Getting requirements to build wheel: finished with status 'done'
05:48:43 Preparing metadata (pyproject.toml): started
05:48:43 Preparing metadata (pyproject.toml): finished with status 'done'
05:48:43 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2)
05:48:43 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5)
05:48:43 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20)
05:48:43 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
05:48:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0)
05:48:43 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
05:48:43 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)
05:48:43 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
05:48:43 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3)
05:48:43 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1)
05:48:43 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)
05:48:43 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)
05:48:43 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)
05:48:43 Building wheels for collected packages: omero-cli-render
05:48:43 Building wheel for omero-cli-render (pyproject.toml): started
05:48:43 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
05:48:43 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18031 sha256=a139a2aaf5f44889aea0a19b9f67dbd58a2f5f0baa67706fda625402d3376083
05:48:43 Stored in directory: /tmp/pip-ephem-wheel-cache-hko3vcjr/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
05:48:43 Successfully built omero-cli-render
05:48:43 Installing collected packages: omero-cli-render
05:48:43 Successfully installed omero-cli-render-0.8.2.dev0
05:48:43 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
05:48:44 Collecting omero-cli-duplicate
05:48:44 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-ot6stlws/omero-cli-duplicate_eae27d83622b4edbb852b128b907fab0
05:48:44 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-ot6stlws/omero-cli-duplicate_eae27d83622b4edbb852b128b907fab0
05:48:45 Running command git checkout -b merge_ci --track origin/merge_ci
05:48:45 Switched to a new branch 'merge_ci'
05:48:45 branch 'merge_ci' set up to track 'origin/merge_ci'.
05:48:45 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 26fd3fdbea488c4923d7316a255b24c99920a356
05:48:45 Installing build dependencies: started
05:48:47 Installing build dependencies: finished with status 'done'
05:48:47 Getting requirements to build wheel: started
05:48:47 Getting requirements to build wheel: finished with status 'done'
05:48:47 Preparing metadata (pyproject.toml): started
05:48:47 Preparing metadata (pyproject.toml): finished with status 'done'
05:48:47 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5)
05:48:47 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20)
05:48:47 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
05:48:47 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
05:48:47 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
05:48:47 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)
05:48:47 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2)
05:48:47 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)
05:48:47 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3)
05:48:47 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1)
05:48:47 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)
05:48:47 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)
05:48:47 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)
05:48:47 Building wheels for collected packages: omero-cli-duplicate
05:48:47 Building wheel for omero-cli-duplicate (pyproject.toml): started
05:48:48 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
05:48:48 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=e268b169e28682b5d2c4b30170924682e5164543104907d789f5963983866fd7
05:48:48 Stored in directory: /tmp/pip-ephem-wheel-cache-ezofb6j_/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
05:48:48 Successfully built omero-cli-duplicate
05:48:48 Installing collected packages: omero-cli-duplicate
05:48:48 Successfully installed omero-cli-duplicate-0.4.1.dev0
05:48:48 + pip install omero-certificates
05:48:48 Collecting omero-certificates
05:48:48 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
05:48:48 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5)
05:48:48 Collecting distro==1.8.0 (from omero-certificates)
05:48:48 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
05:48:48 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20)
05:48:48 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
05:48:48 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
05:48:48 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
05:48:48 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)
05:48:48 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2)
05:48:48 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)
05:48:48 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3)
05:48:48 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1)
05:48:48 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)
05:48:48 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)
05:48:48 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)
05:48:48 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
05:48:48 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
05:48:49 Installing collected packages: distro, omero-certificates
05:48:49 Successfully installed distro-1.8.0 omero-certificates-0.3.2
05:48:49 + for x in *.tar.gz
05:48:49 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz
05:48:49 Processing ./omero_dropbox-5.7.1.dev0.tar.gz
05:48:49 Installing build dependencies: started
05:48:51 Installing build dependencies: finished with status 'done'
05:48:51 Getting requirements to build wheel: started
05:48:51 Getting requirements to build wheel: finished with status 'done'
05:48:51 Preparing metadata (pyproject.toml): started
05:48:51 Preparing metadata (pyproject.toml): finished with status 'done'
05:48:51 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5)
05:48:51 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20)
05:48:51 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4)
05:48:51 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0)
05:48:51 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4)
05:48:51 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)
05:48:51 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2)
05:48:51 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)
05:48:51 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3)
05:48:51 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1)
05:48:51 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)
05:48:51 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)
05:48:51 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)
05:48:51 Building wheels for collected packages: omero-dropbox
05:48:51 Building wheel for omero-dropbox (pyproject.toml): started
05:48:52 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
05:48:52 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49056 sha256=c87f3536b110511a5bc1409884a051a99097688ed0cd7d1149e026d55c2a5deb
05:48:52 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079
05:48:52 Successfully built omero-dropbox
05:48:52 Installing collected packages: omero-dropbox
05:48:52 Successfully installed omero-dropbox-5.7.1.dev0
05:48:52 + for x in *.tar.gz
05:48:52 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
05:48:52 Processing ./omero_marshal-0.9.1.dev0.tar.gz
05:48:52 Installing build dependencies: started
05:48:54 Installing build dependencies: finished with status 'done'
05:48:54 Getting requirements to build wheel: started
05:48:54 Getting requirements to build wheel: finished with status 'done'
05:48:54 Preparing metadata (pyproject.toml): started
05:48:55 Preparing metadata (pyproject.toml): finished with status 'done'
05:48:55 Building wheels for collected packages: omero_marshal
05:48:55 Building wheel for omero_marshal (pyproject.toml): started
05:48:55 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
05:48:55 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88030 sha256=8aeadc1733cec778824645e1c0e8727bab6c2eaeeb1849d469d604ce4d68537d
05:48:55 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
05:48:55 Successfully built omero_marshal
05:48:55 Installing collected packages: omero_marshal
05:48:55 Successfully installed omero_marshal-0.9.1.dev0
05:48:55 + for x in *.tar.gz
05:48:55 + pip install -U omero_py-5.19.6.dev0.tar.gz
05:48:56 Processing ./omero_py-5.19.6.dev0.tar.gz
05:48:56 Installing build dependencies: started
05:48:58 Installing build dependencies: finished with status 'done'
05:48:58 Getting requirements to build wheel: started
05:48:58 Getting requirements to build wheel: finished with status 'done'
05:48:58 Preparing metadata (pyproject.toml): started
05:48:59 Preparing metadata (pyproject.toml): finished with status 'done'
05:48:59 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20)
05:48:59 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4)
05:48:59 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0)
05:48:59 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4)
05:48:59 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (10.4.0)
05:48:59 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2)
05:48:59 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)
05:48:59 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3)
05:48:59 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.10.1)
05:48:59 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)
05:48:59 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10)
05:48:59 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)
05:48:59 Building wheels for collected packages: omero-py
05:48:59 Building wheel for omero-py (pyproject.toml): started
05:49:00 Building wheel for omero-py (pyproject.toml): finished with status 'done'
05:49:00 Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783155 sha256=f318449a2e851bff2d42039564d1d6342e0ea2890debcfe2905b77139fd85ead
05:49:00 Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d
05:49:00 Successfully built omero-py
05:49:00 Installing collected packages: omero-py
05:49:00 Attempting uninstall: omero-py
05:49:00 Found existing installation: omero-py 5.19.5
05:49:00 Uninstalling omero-py-5.19.5:
05:49:01 Successfully uninstalled omero-py-5.19.5
05:49:03 Successfully installed omero-py-5.19.6.dev0
05:49:03 + for x in *.tar.gz
05:49:03 + pip install -U omero_scripts-5.8.4.dev0.tar.gz
05:49:03 Processing ./omero_scripts-5.8.4.dev0.tar.gz
05:49:03 Installing build dependencies: started
05:49:05 Installing build dependencies: finished with status 'done'
05:49:05 Getting requirements to build wheel: started
05:49:05 Getting requirements to build wheel: finished with status 'done'
05:49:05 Preparing metadata (pyproject.toml): started
05:49:06 Preparing metadata (pyproject.toml): finished with status 'done'
05:49:06 Building wheels for collected packages: omero-scripts
05:49:06 Building wheel for omero-scripts (pyproject.toml): started
05:49:06 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
05:49:06 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116644 sha256=b0edb8c879d4a74b51a59c5d8b2ceb30d00dc5dc6b32ee1d93a1cc4db828bf19
05:49:06 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c
05:49:06 Successfully built omero-scripts
05:49:06 Installing collected packages: omero-scripts
05:49:06 Successfully installed omero-scripts-5.8.4.dev0
05:49:06 + for x in *.tar.gz
05:49:06 + pip install -U omero_web-5.27.3.dev0.tar.gz
05:49:07 Processing ./omero_web-5.27.3.dev0.tar.gz
05:49:07 Installing build dependencies: started
05:49:09 Installing build dependencies: finished with status 'done'
05:49:09 Getting requirements to build wheel: started
05:49:09 Getting requirements to build wheel: finished with status 'done'
05:49:09 Preparing metadata (pyproject.toml): started
05:49:10 Preparing metadata (pyproject.toml): finished with status 'done'
05:49:10 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)
05:49:10 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0)
05:49:10 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
05:49:10 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0)
05:49:10 Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB)
05:49:10 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0)
05:49:10 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
05:49:10 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0)
05:49:10 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
05:49:10 Collecting django-csp (from omero-web==5.27.3.dev0)
05:49:10 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
05:49:10 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0)
05:49:10 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB)
05:49:10 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0)
05:49:10 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB)
05:49:10 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)
05:49:10 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (10.4.0)
05:49:10 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2)
05:49:10 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1)
05:49:10 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1)
05:49:10 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
05:49:10 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
05:49:11 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
05:49:11 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB)
05:49:11 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)
05:49:11 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)
05:49:11 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)
05:49:11 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)
05:49:11 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)
05:49:11 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)
05:49:11 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)
05:49:11 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0)
05:49:11 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB)
05:49:11 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)
05:49:11 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)
05:49:11 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)
05:49:11 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
05:49:11 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
05:49:11 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
05:49:11 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB)
05:49:11 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB)
05:49:11 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB)
05:49:11 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
05:49:11 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
05:49:11 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB)
05:49:11 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB)
05:49:11 Building wheels for collected packages: omero-web
05:49:11 Building wheel for omero-web (pyproject.toml): started
05:49:12 Building wheel for omero-web (pyproject.toml): finished with status 'done'
05:49:12 Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766665 sha256=1d6a06424daceddf817adad3b11a41ff12c90d4947a1e075d5674eb5e7e2548e
05:49:12 Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b
05:49:12 Successfully built omero-web
05:49:13 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
05:49:16 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
05:49:16 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
05:49:16 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
05:49:16 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
05:49:16 --2024-09-26 05:49:16-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
05:49:17 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.111.133, 185.199.110.133, 185.199.109.133, ...
05:49:17 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.111.133|:443... connected.
05:49:17 HTTP request sent, awaiting response... 200 OK
05:49:17 Length: 98962 (97K) [text/plain]
05:49:17 Saving to: ‘Figure_To_Pdf.py’
05:49:17
05:49:17 0K .......... .......... .......... .......... .......... 51% 3.43M 0s
05:49:17 50K .......... .......... .......... .......... ...... 100% 4.78M=0.02s
05:49:17
05:49:17 2024-09-26 05:49:17 (3.97 MB/s) - ‘Figure_To_Pdf.py’ saved [98962/98962]
05:49:17
05:49:17 + chmod 755 Figure_To_Pdf.py
05:49:17 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
05:49:17 + omero config set omero.db.name OMERO-server
05:49:19 + omero config set omero.db.host pg
05:49:20 + omero config set omero.db.user postgres
05:49:22 + omero config set omero.data.dir /home/omero/omero-server-data
05:49:23 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
05:49:25 + omero config set omero.db.poolsize 25
05:49:26 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
05:49:28 + omero config set omero.security.trustStorePassword changeit
05:49:30 + omero config set omero.mail.config true
05:49:31 + omero config set omero.mail.from qa@openmicroscopy.org.uk
05:49:33 + omero config set omero.mail.host smtp.dundee.ac.uk
05:49:34 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0
05:49:36 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED'
05:49:37 + omero certificates
05:49:39 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
05:49:39 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
05:49:39 + '[' false = true ']'
05:49:39 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
05:49:39 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
05:49:39 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
05:49:39 2024-09-26 05:49:39,713 [ omego.db] DEBUG dbcommand => upgrade
05:49:39 2024-09-26 05:49:39,713 [ omego.db] DEBUG dbhost => localhost
05:49:39 2024-09-26 05:49:39,713 [ omego.db] DEBUG dbname => OMERO-server
05:49:39 2024-09-26 05:49:39,714 [ omego.db] DEBUG dbpass => omero
05:49:39 2024-09-26 05:49:39,714 [ omego.db] DEBUG dbuser => omero
05:49:39 2024-09-26 05:49:39,714 [ omego.db] DEBUG rootpass => omero
05:49:39 2024-09-26 05:49:39,714 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
05:49:39 2024-09-26 05:49:39,714 [omego.extern] INFO Executing : omero version
05:49:40 OMERO.py version:
05:49:41 OMERO.server version:
05:49:41 5.6.3-513-f903836379-ice36
05:49:41 5.19.6.dev0
05:49:41 2024-09-26 05:49:41,283 [omego.extern] INFO Completed [1.569 s]
05:49:41 2024-09-26 05:49:41,283 [omego.extern] DEBUG Using omero CLI from omero
05:49:41 2024-09-26 05:49:41,283 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
05:49:41 2024-09-26 05:49:41,283 [omego.extern] INFO Running [current environment]: omero config get --show-password
05:49:41 2024-09-26 05:49:41,283 [omego.extern] INFO Executing : omero config get --show-password
05:49:42 2024-09-26 05:49:42,810 [omego.extern] INFO Completed [1.527 s]
05:49:42 2024-09-26 05:49:42,811 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
05:49:42 2024-09-26 05:49:42,811 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
05:49:43 2024-09-26 05:49:43,031 [omego.extern] INFO Completed [0.220 s]
05:49:43 2024-09-26 05:49:43,031 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n'
05:49:43 2024-09-26 05:49:43,031 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4
05:49:43
05:49:43 2024-09-26 05:49:43,031 [omego.extern] INFO Running [current environment]: omero config get --show-password
05:49:43 2024-09-26 05:49:43,031 [omego.extern] INFO Executing : omero config get --show-password
05:49:44 2024-09-26 05:49:44,503 [omego.extern] INFO Completed [1.472 s]
05:49:44 2024-09-26 05:49:44,503 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
05:49:44 2024-09-26 05:49:44,504 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
05:49:44 2024-09-26 05:49:44,649 [omego.extern] INFO Completed [0.145 s]
05:49:44 2024-09-26 05:49:44,649 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.2") at port "5432".\n'
05:49:44 2024-09-26 05:49:44,649 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
05:49:44 2024-09-26 05:49:44,649 [omego.extern] INFO Running [current environment]: omero config get --show-password
05:49:44 2024-09-26 05:49:44,649 [omego.extern] INFO Executing : omero config get --show-password
05:49:46 2024-09-26 05:49:46,234 [omego.extern] INFO Completed [1.585 s]
05:49:46 2024-09-26 05:49:46,234 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
05:49:46 2024-09-26 05:49:46,235 [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
05:49:46 2024-09-26 05:49:46,800 [omego.extern] INFO Completed [0.565 s]
05:49:46 2024-09-26 05:49:46,800 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
05:49:46 2024-09-26 05:49:46,800 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
05:49:46 2024-09-26 05:49:46,802 [ omego.db] INFO Database is already at OMERO5.4__0
05:49:46 + export LANG=en_US.UTF-8
05:49:46 + LANG=en_US.UTF-8
05:49:46 + export LANGUAGE=en_US:en
05:49:46 + LANGUAGE=en_US:en
05:49:46 + export LC_ALL=en_US.UTF-8
05:49:46 + LC_ALL=en_US.UTF-8
05:49:46 + BUILD_ID=DONT_KILL_ME
05:49:46 + omero admin start
05:49:59 WARNING: lock files in /home/omero/omero-server-data
05:49:59 ----------------------------------------
05:49:59 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
05:49:59 ----------------------------------------
05:49:59
05:49:59 You may want to stop all server processes and remove
05:49:59 these files manually. Lock files can remain after an
05:49:59 abrupt server outage and are especially frequent on
05:49:59 remotely mounted filesystems like NFS.
05:49:59
05:49:59 No descriptor given. Using etc/grid/default.xml
05:50:13 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
05:50:13 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
05:50:13 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
05:50:13 Waiting on startup. Use CTRL-C to exit
05:50:13 + omero admin waitup
05:50:14 Waiting on startup. Use CTRL-C to exit
05:50:15 + omero admin diagnostics
05:50:16
05:50:16 ================================================================================
05:50:16 OMERO Diagnostics (admin)
05:50:16 ================================================================================
05:50:16
05:50:16 Commands: java -version 11.0.24 (/usr/bin/java)
05:50:16 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
05:50:16 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
05:50:16 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
05:50:16 Commands: psql --version 16.4 (/usr/bin/psql)
05:50:16 Commands: openssl version 3.0.71 (/usr/bin/openssl)
05:50:16
05:50:16 Component: OMERO.py 5.19.6.dev0
05:50:16 Component: OMERO.server 5.6.3-513-f903836379-ice36
05:50:16
05:50:16 Server: icegridnode running
05:50:16 Server: Blitz-0 active (pid = 2578, enabled)
05:50:16 Server: Indexer-0 activating (enabled)
05:50:16 Server: OMERO.Glacier2 active (pid = 2605, enabled)
05:50:16 Server: OMERO.IceStorm active (pid = 2623, enabled)
05:50:16 Server: Processor-0 activating (enabled)
05:50:16 Server: Tables-0 activating (enabled)
05:50:16
05:50:16 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
05:50:16 Log files: Blitz-0.log 21.7 KB errors=0 warnings=1
05:50:16 Log files: DropBox.log n/a
05:50:16 Log files: FileServer.log n/a
05:50:16 Log files: Indexer-0.log 2.4 KB
05:50:16 Log files: MonitorServer.log n/a
05:50:16 Log files: Processor-0.log 592 B
05:50:16 Log files: Tables-0.log 841 B
05:50:16 Log files: TestDropBox.log n/a
05:50:16 Log files: master.err 180 B
05:50:16 Log files: master.out 30.1 KB
05:50:16 Log files: Total size 0.06 MB
05:50:16
05:50:16
05:50:16 Environment:OMERO_HOME=(unset)
05:50:16 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
05:50:16 Environment:OMERO_NODE=(unset)
05:50:16 Environment:OMERO_MASTER=(unset)
05:50:16 Environment:OMERO_USERDIR=(unset)
05:50:16 Environment:OMERO_TMPDIR=(unset)
05:50:16 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
05:50:16 Environment:PYTHONPATH=(unset)
05:50:16 Environment:ICE_HOME=/opt/ice-3.6.5
05:50:16 Environment:LD_LIBRARY_PATH=(unset)
05:50:16 Environment:DYLD_LIBRARY_PATH=(unset)
05:50:16
05:50:16 OMERO SSL port:4064
05:50:16 OMERO TCP port:4063
05:50:16 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
05:50:16 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
05:50:16
05:50:16 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:50:16 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:50:16 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:50:16 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
05:50:16
05:50:16 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 26 September 2024 14f20ac4731b59a6adc41865ac15de04b49d611a
05:50:16 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 26 September 2024 14f20ac4731b59a6adc41865ac15de04b49d611a
05:50:16 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 26 September 2024 14f20ac4731b59a6adc41865ac15de04b49d611a
05:50:16 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 26 September 2024 f29afb8ebae5493eccd5dca9afbbfc63c6b4af6b
05:50:16 Jar: lib/server/ome-common.jar OME Common Java 6.0.24-SNAPSHOT 26 September 2024 f29afb8ebae5493eccd5dca9afbbfc63c6b4af6b
05:50:16 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 26 September 2024 f29afb8ebae5493eccd5dca9afbbfc63c6b4af6b
05:50:16 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 26 September 2024 f29afb8ebae5493eccd5dca9afbbfc63c6b4af6b
05:50:17 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 26 September 2024 f29afb8ebae5493eccd5dca9afbbfc63c6b4af6b
05:50:17 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 26 September 2024 f29afb8ebae5493eccd5dca9afbbfc63c6b4af6b
05:50:17 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT
05:50:17 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT
05:50:17 Jar: lib/server/omero-gateway.jar jar 5.9.4-SNAPSHOT
05:50:17 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT
05:50:17 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT
05:50:17 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT
05:50:17 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT
05:50:17 + deactivate
05:50:17 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
05:50:17 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
05:50:17 + export PATH
05:50:17 + unset _OLD_VIRTUAL_PATH
05:50:17 + '[' -n '' ']'
05:50:17 + '[' -n /bin/bash -o -n '' ']'
05:50:17 + hash -r
05:50:17 + '[' -n '' ']'
05:50:17 + unset VIRTUAL_ENV
05:50:17 + '[' '!' '' = nondestructive ']'
05:50:17 + unset -f deactivate
05:50:17 Finished: SUCCESS
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