08:33:32 Started by upstream project "Trigger" build number 44
08:33:32 originally caused by:
08:33:32 Started by user devspace
08:33:32 Running as SYSTEM
08:33:32 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
08:33:32 [OMERO-server] $ /bin/bash -xe /tmp/jenkins414977725632433581.sh
08:33:33 + source /home/settings.env
08:33:33 ++ OMERO_DB_HOST=pg
08:33:33 ++ OMERO_DB_USER=postgres
08:33:33 ++ OMERO_DB_PASS=
08:33:33 ++ OMERO_ROOT_PASS=omero
08:33:33 ++ OMERO_DATA_DIR=/OMERO
08:33:33 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
08:33:33 + OMERO_DB_NAME=OMERO-server
08:33:33 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
08:33:33 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:33:33 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:33:33 + OMERO_DATA_DIR=/home/omero/omero-server-data
08:33:33 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
08:33:33 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
08:33:33 ++ deactivate nondestructive
08:33:33 ++ '[' -n '' ']'
08:33:33 ++ '[' -n '' ']'
08:33:33 ++ '[' -n /bin/bash -o -n '' ']'
08:33:33 ++ hash -r
08:33:33 ++ '[' -n '' ']'
08:33:33 ++ unset VIRTUAL_ENV
08:33:33 ++ '[' '!' nondestructive = nondestructive ']'
08:33:33 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
08:33:33 ++ export VIRTUAL_ENV
08:33:33 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:33:33 ++ 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
08:33:33 ++ export PATH
08:33:33 ++ '[' -n '' ']'
08:33:33 ++ '[' -z '' ']'
08:33:33 ++ _OLD_VIRTUAL_PS1=
08:33:33 ++ PS1='(.venv3) '
08:33:33 ++ export PS1
08:33:33 ++ '[' -n /bin/bash -o -n '' ']'
08:33:33 ++ hash -r
08:33:33 + omero admin stop
08:33:52 Server not running
08:33:53 + echo not running
08:33:53 not running
08:33:53 + sleep 5
08:33:58 + deactivate
08:33:58 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
08:33:58 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:33:58 + export PATH
08:33:58 + unset _OLD_VIRTUAL_PATH
08:33:58 + '[' -n '' ']'
08:33:58 + '[' -n /bin/bash -o -n '' ']'
08:33:58 + hash -r
08:33:58 + '[' -n '' ']'
08:33:58 + unset VIRTUAL_ENV
08:33:58 + '[' '!' '' = nondestructive ']'
08:33:58 + unset -f deactivate
08:33:58 + rm -rf /home/omero/workspace/OMERO-server/.venv3
08:34:06 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
08:34:12 + '[' false = true ']'
08:34:12 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
08:34:12 Skipping PURGE_DATA:CleanDbAndRepo
08:34:12 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
08:34:18 Copied 1 artifact from "OMERO-build" build number 37
08:34:18 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 37
08:34:19 Copied 2 artifacts from "OMERO-build-build" build number 38
08:34:19 [OMERO-server] $ /bin/bash -xe /tmp/jenkins1598860310457670623.sh
08:34:19 + source /home/settings.env
08:34:19 ++ OMERO_DB_HOST=pg
08:34:19 ++ OMERO_DB_USER=postgres
08:34:19 ++ OMERO_DB_PASS=
08:34:19 ++ OMERO_ROOT_PASS=omero
08:34:19 ++ OMERO_DATA_DIR=/OMERO
08:34:19 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
08:34:19 + OMERO_DB_NAME=OMERO-server
08:34:19 + OMERO_DATA_DIR=/home/omero/omero-server-data
08:34:19 + mkdir -p /home/omero/omero-server-data
08:34:19 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
08:34:19 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:34:19 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:34:19 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
08:34:19 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
08:34:19 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
08:34:19 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
08:34:19 ++ ls OMERO.server-5.6.3-454-801f831fde-ice36.zip
08:34:19 + ZIP=OMERO.server-5.6.3-454-801f831fde-ice36.zip
08:34:19 + '[' '!' -z '' ']'
08:34:19 + DIST=OMERO.server-5.6.3-454-801f831fde-ice36
08:34:19 + unzip OMERO.server-5.6.3-454-801f831fde-ice36.zip
08:34:19 Archive: OMERO.server-5.6.3-454-801f831fde-ice36.zip
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/blitz/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/grid/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/profiles/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/error/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/grid/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/luts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/luts/janelia/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/luts/ncsa_paledit/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/luts/wcif/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/analysis_scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/annotation_scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/export_scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/figure_scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/import_scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/scripts/omero/util_scripts/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/share/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/misc/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__1/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__10/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__11/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__2/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__3/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__4/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__5/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__6/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__7/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__8/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__9/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__4/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__5/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__6/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__7/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.1__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.2__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.2__0/t/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.3__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.4__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.0__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.1__1/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.2__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4DEV__1/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4DEV__2/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4DEV__3/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/
08:34:19 creating: OMERO.server-5.6.3-454-801f831fde-ice36/var/
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/LICENSE.txt
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/backup.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/blitz/mail-senders.example
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/blitz/mail-server.example
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/build.properties
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/env.bat
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/env.sh
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/hibernate.properties
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/ice.config
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/logback-cli.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/logback-indexing-cli.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/logback-indexing.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/logback.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/mime.types
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/node1.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/node2.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/omero.properties
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/profiles/psql
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/rollover.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/Windows.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/error/maintainance.html
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/grid/README
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/grid/default.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/grid/templates.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/grid/windefault.xml
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/ice.config
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/internal.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/master.cfg
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/templates/robot.template
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/etc/testdropbox.config
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/history.rst
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/OMEZarrReader.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/activation.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/aggdesigner-algorithm.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/aircompressor.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/annotations.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/antlr.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/aopalliance.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/avatica-core.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/avatica-metrics.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/aws-java-sdk-core.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/aws-java-sdk-kms.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/aws-java-sdk-s3.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/base.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-all.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-anim.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-awt-util.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-bridge.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-codec.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-constants.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-css.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-dom.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-ext.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-extension.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-gui-util.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-gvt.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-i18n.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-parser.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-rasterizer-ext.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-rasterizer.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-script.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-slideshow.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-squiggle-ext.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-squiggle.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-svg-dom.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-svgbrowser.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-svggen.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-svgpp.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-svgrasterizer.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-swing.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-transcoder.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-ttf2svg.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-util.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/batik-xml.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/btm.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/bufr.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/c3p0.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/calcite-core.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/calcite-linq4j.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/cdm-core.jar
08:34:19 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/client/checker-qual.jar
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08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/ome-poi.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/ome-xml.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-blitz.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-common.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-gateway.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-model.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-renderer.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-romio.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/omero-server.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/pdfbox.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/perf4j.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/postgresql.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/protobuf-java.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/quartz.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/re2j.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/reflectasm.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/rhino.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/serializer.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/sketches-core.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/slf4j-api.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/snakeyaml.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/solr-analysis-extras.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/solr-commons-csv.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/solr-core.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/solr-solrj.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/specification.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-aop.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-beans.jar
08:34:22 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-context-support.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-context.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-core.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-expression.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-jdbc.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-jms.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-ldap-core.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-messaging.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-orm.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-security-core.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-security-ldap.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/spring-tx.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/sqlite-jdbc.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/subethasmtp.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/turbojpeg.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/udunits.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xalan.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xercesImpl.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xml-apis-ext.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xml-apis.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xmlgraphics-commons.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xmpcore.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/lib/server/xpp3.jar
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/README
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/agpl.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/antlr.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/apache-v1.1.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/apache-v2.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/asm.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/bouncy_castle_license.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/bsd.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/cddl-v1.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/cpl-v10.html
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/crystalclear.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/django.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/dom4j.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/epl-v1.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/fbsd.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/freemarker.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/gpl-v2.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/gpl.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/gtest.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/iconsweets_license.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/jamon.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/jmock.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/jquery.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/jtidy.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/lgpl-3.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/lgpl-v2.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/lgpl-v2.1.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/lgpl-v3.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/lgpl.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/matplotlib.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/mit.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/mpl-v1_0.htm
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/npl-1_1.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/path.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/pil.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/postgresql.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/psf-v2.0.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/psf-v2.5.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/scons.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/slf4j.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/tablelayout.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/which.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/zlib-libpng.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/share/licenses/zpl-v2.1.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/README.txt
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/misc/Makefile
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/misc/current.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/misc/enums.py
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__4/OMERO3__1.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__5/OMERO3__4.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__6/OMERO3__5.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO3__7/OMERO3__6.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/psql-header.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/schema.sql
08:34:23 inflating: OMERO.server-5.6.3-454-801f831fde-ice36/sql/psql/OMERO5.4__0/views.sql
08:34:23 + rm -f OMERO.server-5.6.3-454-801f831fde-ice36.zip
08:34:23 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-454-801f831fde-ice36 /home/omero/workspace/OMERO-server/OMERO.server
08:34:23 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
08:34:23 ++ deactivate nondestructive
08:34:23 ++ '[' -n '' ']'
08:34:23 ++ '[' -n '' ']'
08:34:23 ++ '[' -n /bin/bash -o -n '' ']'
08:34:23 ++ hash -r
08:34:23 ++ '[' -n '' ']'
08:34:23 ++ unset VIRTUAL_ENV
08:34:23 ++ '[' '!' nondestructive = nondestructive ']'
08:34:23 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
08:34:23 ++ export VIRTUAL_ENV
08:34:23 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:34:23 ++ 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
08:34:23 ++ export PATH
08:34:23 ++ '[' -n '' ']'
08:34:23 ++ '[' -z '' ']'
08:34:23 ++ _OLD_VIRTUAL_PS1=
08:34:23 ++ PS1='(.venv3) '
08:34:23 ++ export PS1
08:34:23 ++ '[' -n /bin/bash -o -n '' ']'
08:34:23 ++ hash -r
08:34:23 + 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
08:34:23 Collecting zeroc-ice==3.6.5
08:34:24 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)
08:34:26 Installing collected packages: zeroc-ice
08:34:27 Successfully installed zeroc-ice-3.6.5
08:34:27 + pip install -U pip future
08:34:28 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
08:34:28 Collecting pip
08:34:28 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
08:34:29 Collecting future
08:34:29 Using cached future-1.0.0-py3-none-any.whl (491 kB)
08:34:29 Installing collected packages: pip, future
08:34:29 Attempting uninstall: pip
08:34:29 Found existing installation: pip 21.2.3
08:34:29 Uninstalling pip-21.2.3:
08:34:29 Successfully uninstalled pip-21.2.3
08:34:32 Successfully installed future-1.0.0 pip-24.0
08:34:32 + pip install markdown
08:34:33 Collecting markdown
08:34:33 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
08:34:33 Collecting importlib-metadata>=4.4 (from markdown)
08:34:33 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
08:34:33 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
08:34:33 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
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08:34:34 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
08:34:34 Installing collected packages: zipp, importlib-metadata, markdown
08:34:34 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
08:34:34 + pip install reportlab
08:34:35 Collecting reportlab
08:34:35 Downloading reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
08:34:36 Collecting pillow>=9.0.0 (from reportlab)
08:34:36 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
08:34:36 Collecting chardet (from reportlab)
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08:34:36 Downloading reportlab-4.2.0-py3-none-any.whl (1.9 MB)
08:34:36 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.9/1.9 MB 8.6 MB/s eta 0:00:00
08:34:36 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
08:34:37 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
08:34:37 Installing collected packages: pillow, chardet, reportlab
08:34:39 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
08:34:39 + pip install omego
08:34:40 Collecting omego
08:34:40 Using cached omego-0.7.0-py3-none-any.whl
08:34:40 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
08:34:40 Collecting yaclifw>=0.1.1 (from omego)
08:34:40 Using cached yaclifw-0.2.0-py3-none-any.whl
08:34:41 Collecting six (from yaclifw>=0.1.1->omego)
08:34:41 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
08:34:41 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
08:34:41 Installing collected packages: six, yaclifw, omego
08:34:42 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
08:34:42 + pip install tables
08:34:43 Collecting tables
08:34:43 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
08:34:44 Collecting numpy>=1.19.0 (from tables)
08:34:44 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
08:34:44 Collecting numexpr>=2.6.2 (from tables)
08:34:44 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
08:34:44 Collecting packaging (from tables)
08:34:44 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
08:34:44 Collecting py-cpuinfo (from tables)
08:34:44 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
08:34:44 Collecting blosc2>=2.3.0 (from tables)
08:34:44 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
08:34:44 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
08:34:44 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
08:34:44 Collecting msgpack (from blosc2>=2.3.0->tables)
08:34:44 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
08:34:44 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
08:34:45 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
08:34:45 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
08:34:45 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
08:34:45 Using cached packaging-24.0-py3-none-any.whl (53 kB)
08:34:45 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
08:34:45 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
08:34:45 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
08:34:45 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
08:34:50 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
08:34:50 + pip install jinja2
08:34:51 Collecting jinja2
08:34:51 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
08:34:51 Collecting MarkupSafe>=2.0 (from jinja2)
08:34:51 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
08:34:51 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
08:34:51 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
08:34:52 Installing collected packages: MarkupSafe, jinja2
08:34:52 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
08:34:52 + pip install omero-py
08:34:53 Collecting omero-py
08:34:53 Using cached omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
08:34:53 Collecting urllib3<2 (from omero-py)
08:34:53 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
08:34:53 Collecting appdirs (from omero-py)
08:34:53 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
08:34:53 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
08:34:53 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
08:34:53 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
08:34:53 Collecting PyYAML (from omero-py)
08:34:53 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
08:34:53 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
08:34:53 Collecting requests (from omero-py)
08:34:53 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
08:34:53 Collecting portalocker (from omero-py)
08:34:53 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
08:34:54 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
08:34:54 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
08:34:54 Collecting idna<4,>=2.5 (from requests->omero-py)
08:34:54 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
08:34:54 Collecting certifi>=2017.4.17 (from requests->omero-py)
08:34:54 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
08:34:54 Using cached omero_py-5.19.1-py3-none-any.whl (2.8 MB)
08:34:54 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
08:34:54 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
08:34:54 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
08:34:54 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
08:34:54 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
08:34:54 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
08:34:54 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
08:34:54 Using cached idna-3.7-py3-none-any.whl (66 kB)
08:34:54 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
08:34:58 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
08:34:58 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
08:34:59 Collecting omero-metadata
08:34:59 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-lys_n53j/omero-metadata_12bb70f0861c44669865f22e028e1563
08:34:59 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-lys_n53j/omero-metadata_12bb70f0861c44669865f22e028e1563
08:35:00 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 057f47600b7282b66cee220a65b5384a8972db6f
08:35:00 Installing build dependencies: started
08:35:02 Installing build dependencies: finished with status 'done'
08:35:02 Getting requirements to build wheel: started
08:35:02 Getting requirements to build wheel: finished with status 'done'
08:35:02 Installing backend dependencies: started
08:35:03 Installing backend dependencies: finished with status 'done'
08:35:03 Preparing metadata (pyproject.toml): started
08:35:04 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:04 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
08:35:04 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
08:35:04 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
08:35:04 Collecting pandas (from omero-metadata)
08:35:04 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
08:35:04 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
08:35:04 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
08:35:04 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
08:35:04 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
08:35:04 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.3.0)
08:35:04 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)
08:35:04 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
08:35:04 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
08:35:04 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
08:35:04 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
08:35:04 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
08:35:05 Collecting pytz>=2020.1 (from pandas->omero-metadata)
08:35:05 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
08:35:05 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
08:35:05 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
08:35:05 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)
08:35:05 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)
08:35:05 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
08:35:05 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
08:35:05 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
08:35:05 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
08:35:05 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
08:35:05 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
08:35:05 Building wheels for collected packages: omero-metadata
08:35:05 Building wheel for omero-metadata (pyproject.toml): started
08:35:06 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
08:35:06 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=10b46e0381266f6a3e56296f5b8ceca4f631ab3163e90bd904fb9fc0df03aa91
08:35:06 Stored in directory: /tmp/pip-ephem-wheel-cache-4bntg2ya/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
08:35:06 Successfully built omero-metadata
08:35:06 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
08:35:12 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
08:35:12 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
08:35:12 Collecting omero-cli-render
08:35:12 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-5qq5d7xk/omero-cli-render_db2a6ba006c64e66a835f655bc5ca454
08:35:12 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-5qq5d7xk/omero-cli-render_db2a6ba006c64e66a835f655bc5ca454
08:35:14 Running command git checkout -b merge_ci --track origin/merge_ci
08:35:14 Switched to a new branch 'merge_ci'
08:35:14 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:35:14 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit ef248cdafb13a49dc225187868e32484cb26a85e
08:35:14 Installing build dependencies: started
08:35:18 Installing build dependencies: finished with status 'done'
08:35:18 Getting requirements to build wheel: started
08:35:19 Getting requirements to build wheel: finished with status 'done'
08:35:19 Installing backend dependencies: started
08:35:20 Installing backend dependencies: finished with status 'done'
08:35:20 Preparing metadata (pyproject.toml): started
08:35:20 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:20 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
08:35:20 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
08:35:20 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
08:35:20 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
08:35:20 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
08:35:20 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
08:35:20 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.3.0)
08:35:20 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)
08:35:20 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
08:35:20 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
08:35:20 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)
08:35:20 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
08:35:20 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
08:35:20 Building wheels for collected packages: omero-cli-render
08:35:20 Building wheel for omero-cli-render (pyproject.toml): started
08:35:20 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
08:35:20 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=200ee067bdd8fd7a96618815e5fa33c426e6c3c20283cfb9a1cae5f1d26cac75
08:35:20 Stored in directory: /tmp/pip-ephem-wheel-cache-eruzq_mm/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
08:35:20 Successfully built omero-cli-render
08:35:20 Installing collected packages: omero-cli-render
08:35:20 Successfully installed omero-cli-render-0.8.1.dev0
08:35:21 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
08:35:21 Collecting omero-cli-duplicate
08:35:21 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-gzt6q4tu/omero-cli-duplicate_bee77368a69f4c5b93f55359d5c82bd7
08:35:21 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-gzt6q4tu/omero-cli-duplicate_bee77368a69f4c5b93f55359d5c82bd7
08:35:22 Running command git checkout -b merge_ci --track origin/merge_ci
08:35:22 Switched to a new branch 'merge_ci'
08:35:22 branch 'merge_ci' set up to track 'origin/merge_ci'.
08:35:22 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit fc2ff6be6af8ba48bc41029a67b01ad9a22e11a0
08:35:22 Installing build dependencies: started
08:35:24 Installing build dependencies: finished with status 'done'
08:35:24 Getting requirements to build wheel: started
08:35:25 Getting requirements to build wheel: finished with status 'done'
08:35:25 Installing backend dependencies: started
08:35:26 Installing backend dependencies: finished with status 'done'
08:35:26 Preparing metadata (pyproject.toml): started
08:35:26 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:26 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
08:35:26 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
08:35:26 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
08:35:26 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
08:35:26 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
08:35:26 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.3.0)
08:35:26 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
08:35:26 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)
08:35:26 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
08:35:26 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
08:35:26 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)
08:35:26 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
08:35:26 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
08:35:26 Building wheels for collected packages: omero-cli-duplicate
08:35:26 Building wheel for omero-cli-duplicate (pyproject.toml): started
08:35:26 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
08:35:26 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=ce78617580d3f1c1c9baed3ed2dbc8c9d714c3564fa232eb56d410597faf8db8
08:35:26 Stored in directory: /tmp/pip-ephem-wheel-cache-acl1b3f8/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
08:35:26 Successfully built omero-cli-duplicate
08:35:26 Installing collected packages: omero-cli-duplicate
08:35:26 Successfully installed omero-cli-duplicate-0.4.1.dev0
08:35:26 + pip install omero-certificates
08:35:27 Collecting omero-certificates
08:35:27 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
08:35:27 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
08:35:27 Collecting distro==1.8.0 (from omero-certificates)
08:35:27 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
08:35:27 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
08:35:27 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
08:35:27 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
08:35:27 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
08:35:27 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.3.0)
08:35:27 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
08:35:27 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
08:35:27 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
08:35:27 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
08:35:27 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)
08:35:27 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
08:35:27 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
08:35:27 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
08:35:27 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
08:35:27 Installing collected packages: distro, omero-certificates
08:35:27 Successfully installed distro-1.8.0 omero-certificates-0.3.2
08:35:28 + for x in *.tar.gz
08:35:28 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
08:35:28 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
08:35:28 Installing build dependencies: started
08:35:30 Installing build dependencies: finished with status 'done'
08:35:30 Getting requirements to build wheel: started
08:35:30 Getting requirements to build wheel: finished with status 'done'
08:35:30 Installing backend dependencies: started
08:35:32 Installing backend dependencies: finished with status 'done'
08:35:32 Preparing metadata (pyproject.toml): started
08:35:32 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:32 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
08:35:32 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
08:35:32 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
08:35:32 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
08:35:32 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
08:35:32 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.3.0)
08:35:32 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
08:35:32 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
08:35:32 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
08:35:32 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
08:35:32 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
08:35:32 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.7)
08:35:32 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
08:35:32 Building wheels for collected packages: omero-dropbox
08:35:32 Building wheel for omero-dropbox (pyproject.toml): started
08:35:32 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
08:35:32 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=4323b12f44c7d596f4735bf25e9c6df05798063ec40c0a2a7dc7291794a223c5
08:35:32 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
08:35:32 Successfully built omero-dropbox
08:35:32 Installing collected packages: omero-dropbox
08:35:33 Successfully installed omero-dropbox-5.6.3.dev0
08:35:33 + for x in *.tar.gz
08:35:33 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
08:35:33 Processing ./omero_marshal-0.9.1.dev0.tar.gz
08:35:33 Installing build dependencies: started
08:35:35 Installing build dependencies: finished with status 'done'
08:35:35 Getting requirements to build wheel: started
08:35:36 Getting requirements to build wheel: finished with status 'done'
08:35:36 Installing backend dependencies: started
08:35:37 Installing backend dependencies: finished with status 'done'
08:35:37 Preparing metadata (pyproject.toml): started
08:35:37 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:37 Building wheels for collected packages: omero_marshal
08:35:37 Building wheel for omero_marshal (pyproject.toml): started
08:35:37 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
08:35:37 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=812892826bb5d1ea10944a069ac6be525ff9b1173c24eb0ccf20a6e355777efc
08:35:37 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
08:35:37 Successfully built omero_marshal
08:35:38 Installing collected packages: omero_marshal
08:35:38 Successfully installed omero_marshal-0.9.1.dev0
08:35:38 + for x in *.tar.gz
08:35:38 + pip install -U omero_py-5.19.2.dev0.tar.gz
08:35:39 Processing ./omero_py-5.19.2.dev0.tar.gz
08:35:39 Installing build dependencies: started
08:35:42 Installing build dependencies: finished with status 'done'
08:35:42 Getting requirements to build wheel: started
08:35:42 Getting requirements to build wheel: finished with status 'done'
08:35:42 Installing backend dependencies: started
08:35:43 Installing backend dependencies: finished with status 'done'
08:35:43 Preparing metadata (pyproject.toml): started
08:35:43 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:43 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
08:35:43 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
08:35:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
08:35:43 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
08:35:43 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.3.0)
08:35:43 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
08:35:43 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (3.6.5)
08:35:43 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
08:35:43 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
08:35:43 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.3.2)
08:35:43 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.7)
08:35:43 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (2024.2.2)
08:35:43 Building wheels for collected packages: omero-py
08:35:43 Building wheel for omero-py (pyproject.toml): started
08:35:45 Building wheel for omero-py (pyproject.toml): finished with status 'done'
08:35:45 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2782056 sha256=f933d00d9f6bc95e64bc24ac5e7e8a7c081b3a43f7829334ca4e01bbb74462ad
08:35:45 Stored in directory: /home/omero/.cache/pip/wheels/ea/20/e5/a97f3d9612c4992136d63e55f22641013e62a9095142003978
08:35:45 Successfully built omero-py
08:35:45 Installing collected packages: omero-py
08:35:45 Attempting uninstall: omero-py
08:35:45 Found existing installation: omero-py 5.19.1
08:35:45 Uninstalling omero-py-5.19.1:
08:35:45 Successfully uninstalled omero-py-5.19.1
08:35:48 Successfully installed omero-py-5.19.2.dev0
08:35:48 + for x in *.tar.gz
08:35:48 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
08:35:49 Processing ./omero_scripts-5.8.3.dev0.tar.gz
08:35:49 Installing build dependencies: started
08:35:51 Installing build dependencies: finished with status 'done'
08:35:51 Getting requirements to build wheel: started
08:35:51 Getting requirements to build wheel: finished with status 'done'
08:35:51 Installing backend dependencies: started
08:35:52 Installing backend dependencies: finished with status 'done'
08:35:52 Preparing metadata (pyproject.toml): started
08:35:52 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:52 Building wheels for collected packages: omero-scripts
08:35:52 Building wheel for omero-scripts (pyproject.toml): started
08:35:53 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
08:35:53 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=2610b04cad0d7a7e7d793b07c3d8ed4d8bdeecad077207d202e512d301805231
08:35:53 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
08:35:53 Successfully built omero-scripts
08:35:53 Installing collected packages: omero-scripts
08:35:53 Successfully installed omero-scripts-5.8.3.dev0
08:35:53 + for x in *.tar.gz
08:35:53 + pip install -U omero_web-5.25.1.dev0.tar.gz
08:35:54 Processing ./omero_web-5.25.1.dev0.tar.gz
08:35:54 Installing build dependencies: started
08:35:56 Installing build dependencies: finished with status 'done'
08:35:56 Getting requirements to build wheel: started
08:35:57 Getting requirements to build wheel: finished with status 'done'
08:35:57 Installing backend dependencies: started
08:35:58 Installing backend dependencies: finished with status 'done'
08:35:58 Preparing metadata (pyproject.toml): started
08:35:58 Preparing metadata (pyproject.toml): finished with status 'done'
08:35:58 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.2.dev0)
08:35:58 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
08:35:58 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
08:35:58 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
08:35:58 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
08:35:59 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
08:35:59 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
08:35:59 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
08:35:59 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
08:35:59 Collecting django-csp (from omero-web==5.25.1.dev0)
08:35:59 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
08:35:59 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
08:35:59 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
08:35:59 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
08:35:59 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
08:35:59 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
08:35:59 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
08:35:59 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
08:35:59 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
08:35:59 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
08:35:59 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
08:35:59 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
08:35:59 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
08:35:59 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
08:35:59 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
08:35:59 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
08:35:59 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
08:35:59 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
08:35:59 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
08:35:59 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6.5)
08:35:59 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
08:35:59 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
08:35:59 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
08:35:59 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
08:35:59 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.7)
08:35:59 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
08:36:00 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
08:36:00 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
08:36:00 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
08:36:00 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
08:36:00 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
08:36:00 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
08:36:00 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
08:36:00 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
08:36:00 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
08:36:00 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
08:36:00 Building wheels for collected packages: omero-web
08:36:00 Building wheel for omero-web (pyproject.toml): started
08:36:01 Building wheel for omero-web (pyproject.toml): finished with status 'done'
08:36:01 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2772197 sha256=e0eabff71e8fa40a4c36b7f944441ad4ff031a19933f20d320ee676f5b1cd271
08:36:01 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
08:36:01 Successfully built omero-web
08:36:02 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
08:36:05 Successfully installed Django-4.2.11 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-22.0.0 omero-web-5.25.1.dev0 sqlparse-0.5.0 typing-extensions-4.11.0 whitenoise-6.6.0
08:36:05 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
08:36:06 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
08:36:06 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
08:36:06 --2024-04-19 08:36:06-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
08:36:06 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.110.133, ...
08:36:06 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
08:36:06 HTTP request sent, awaiting response... 200 OK
08:36:06 Length: 94614 (92K) [text/plain]
08:36:06 Saving to: ‘Figure_To_Pdf.py’
08:36:06
08:36:06 0K .......... .......... .......... .......... .......... 54% 1.90M 0s
08:36:06 50K .......... .......... .......... .......... .. 100% 4.55M=0.03s
08:36:06
08:36:06 2024-04-19 08:36:06 (2.59 MB/s) - ‘Figure_To_Pdf.py’ saved [94614/94614]
08:36:06
08:36:06 + chmod 755 Figure_To_Pdf.py
08:36:06 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
08:36:06 + omero config set omero.db.name OMERO-server
08:36:09 + omero config set omero.db.host pg
08:36:10 + omero config set omero.db.user postgres
08:36:12 + omero config set omero.data.dir /home/omero/omero-server-data
08:36:13 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
08:36:15 + omero config set omero.db.poolsize 25
08:36:17 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
08:36:19 + omero config set omero.security.trustStorePassword changeit
08:36:20 + omero config set omero.mail.config true
08:36:22 + omero config set omero.mail.from qa@openmicroscopy.org.uk
08:36:24 + omero config set omero.mail.host smtp.dundee.ac.uk
08:36:26 + omero certificates
08:36:27 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
08:36:27 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
08:36:28 + '[' false = true ']'
08:36:28 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
08:36:28 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
08:36:28 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG dbcommand => upgrade
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG dbhost => localhost
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG dbname => OMERO-server
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG dbpass => omero
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG dbuser => omero
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG rootpass => omero
08:36:28 2024-04-19 08:36:28,209 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
08:36:28 2024-04-19 08:36:28,209 [omego.extern] INFO Executing : omero version
08:36:29 OMERO.py version:
08:36:29 OMERO.server version:
08:36:29 5.6.3-454-801f831fde-ice36
08:36:29 5.19.2.dev0
08:36:30 2024-04-19 08:36:30,135 [omego.extern] INFO Completed [1.925 s]
08:36:30 2024-04-19 08:36:30,135 [omego.extern] DEBUG Using omero CLI from omero
08:36:30 2024-04-19 08:36:30,135 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
08:36:30 2024-04-19 08:36:30,135 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:36:30 2024-04-19 08:36:30,135 [omego.extern] INFO Executing : omero config get --show-password
08:36:31 2024-04-19 08:36:31,804 [omego.extern] INFO Completed [1.669 s]
08:36:31 2024-04-19 08:36:31,805 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:36:31 2024-04-19 08:36:31,805 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
08:36:32 2024-04-19 08:36:32,084 [omego.extern] INFO Completed [0.279 s]
08:36:32 2024-04-19 08:36:32,085 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
08:36:32 2024-04-19 08:36:32,085 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
08:36:32
08:36:32 2024-04-19 08:36:32,085 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:36:32 2024-04-19 08:36:32,085 [omego.extern] INFO Executing : omero config get --show-password
08:36:33 2024-04-19 08:36:33,711 [omego.extern] INFO Completed [1.626 s]
08:36:33 2024-04-19 08:36:33,712 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:36:33 2024-04-19 08:36:33,712 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
08:36:33 2024-04-19 08:36:33,958 [omego.extern] INFO Completed [0.246 s]
08:36:33 2024-04-19 08:36:33,959 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.6") at port "5432".\n'
08:36:33 2024-04-19 08:36:33,959 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
08:36:33 2024-04-19 08:36:33,959 [omego.extern] INFO Running [current environment]: omero config get --show-password
08:36:33 2024-04-19 08:36:33,959 [omego.extern] INFO Executing : omero config get --show-password
08:36:35 2024-04-19 08:36:35,772 [omego.extern] INFO Completed [1.813 s]
08:36:35 2024-04-19 08:36:35,772 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
08:36:35 2024-04-19 08:36:35,772 [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
08:36:36 2024-04-19 08:36:36,406 [omego.extern] INFO Completed [0.634 s]
08:36:36 2024-04-19 08:36:36,406 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
08:36:36 2024-04-19 08:36:36,406 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
08:36:36 2024-04-19 08:36:36,408 [ omego.db] INFO Database is already at OMERO5.4__0
08:36:36 + export LANG=en_US.UTF-8
08:36:36 + LANG=en_US.UTF-8
08:36:36 + export LANGUAGE=en_US:en
08:36:36 + LANGUAGE=en_US:en
08:36:36 + export LC_ALL=en_US.UTF-8
08:36:36 + LC_ALL=en_US.UTF-8
08:36:36 + BUILD_ID=DONT_KILL_ME
08:36:36 + omero admin start
08:36:52 WARNING: lock files in /home/omero/omero-server-data
08:36:52 ----------------------------------------
08:36:52 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
08:36:52 ----------------------------------------
08:36:52
08:36:52 You may want to stop all server processes and remove
08:36:52 these files manually. Lock files can remain after an
08:36:52 abrupt server outage and are especially frequent on
08:36:52 remotely mounted filesystems like NFS.
08:36:52
08:36:52 No descriptor given. Using etc/grid/default.xml
08:37:15 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
08:37:15 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
08:37:15 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
08:37:15 Waiting on startup. Use CTRL-C to exit
08:37:16 + omero admin waitup
08:37:18 Waiting on startup. Use CTRL-C to exit
08:37:19 + omero admin diagnostics
08:37:20
08:37:20 ================================================================================
08:37:20 OMERO Diagnostics (admin)
08:37:20 ================================================================================
08:37:20
08:37:20 Commands: java -version 11.0.22 (/usr/bin/java)
08:37:21 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
08:37:21 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
08:37:21 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
08:37:21 Commands: psql --version 16.2 (/usr/bin/psql)
08:37:21 Commands: openssl version 3.0.71 (/usr/bin/openssl)
08:37:21
08:37:21 Component: OMERO.py 5.19.2.dev0
08:37:21 Component: OMERO.server 5.6.3-454-801f831fde-ice36
08:37:21
08:37:21 Server: icegridnode running
08:37:21 Server: Blitz-0 active (pid = 2325, enabled)
08:37:21 Server: DropBox active (pid = 2347, enabled)
08:37:21 Server: FileServer active (pid = 2354, enabled)
08:37:21 Server: Indexer-0 active (pid = 2371, enabled)
08:37:21 Server: MonitorServer active (pid = 2355, enabled)
08:37:21 Server: OMERO.Glacier2 active (pid = 2356, enabled)
08:37:21 Server: OMERO.IceStorm active (pid = 2359, enabled)
08:37:21 Server: PixelData-0 active (pid = 2370, enabled)
08:37:21 Server: Processor-0 activating (enabled)
08:37:21 Server: Tables-0 activating (enabled)
08:37:21 Server: TestDropBox inactive (enabled)
08:37:21
08:37:21 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
08:37:21 Log files: Blitz-0.log 25.7 KB errors=0 warnings=1
08:37:21 Log files: DropBox.log 1.2 KB
08:37:21 Log files: FileServer.log 114 B
08:37:21 Log files: Indexer-0.log 2.6 KB
08:37:21 Log files: MonitorServer.log 1.1 KB
08:37:21 Log files: PixelData-0.log 3.4 KB
08:37:21 Log files: Processor-0.log 592 B
08:37:21 Log files: Tables-0.log 841 B
08:37:21 Log files: TestDropBox.log n/a
08:37:21 Log files: master.err 2.1 KB
08:37:21 Log files: master.out 41.5 KB
08:37:21 Log files: Total size 0.08 MB
08:37:21
08:37:21
08:37:21 Environment:OMERO_HOME=(unset)
08:37:21 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
08:37:21 Environment:OMERO_NODE=(unset)
08:37:21 Environment:OMERO_MASTER=(unset)
08:37:21 Environment:OMERO_USERDIR=(unset)
08:37:21 Environment:OMERO_TMPDIR=(unset)
08:37:21 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
08:37:21 Environment:PYTHONPATH=(unset)
08:37:21 Environment:ICE_HOME=/opt/ice-3.6.5
08:37:21 Environment:LD_LIBRARY_PATH=(unset)
08:37:21 Environment:DYLD_LIBRARY_PATH=(unset)
08:37:21
08:37:21 OMERO SSL port:4064
08:37:21 OMERO TCP port:4063
08:37:21 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
08:37:21 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
08:37:21
08:37:21 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:37:21 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:37:21 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:37:21 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
08:37:21
08:37:21 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 19 April 2024 fc54b0141760fc727b19b6f2ccb04bc9745d5bec
08:37:21 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 19 April 2024 fc54b0141760fc727b19b6f2ccb04bc9745d5bec
08:37:21 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 19 April 2024 fc54b0141760fc727b19b6f2ccb04bc9745d5bec
08:37:21 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 19 April 2024 c6fcd3418ddc36ff3201c06211760740d0804d54
08:37:21 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 19 April 2024 c6fcd3418ddc36ff3201c06211760740d0804d54
08:37:21 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 19 April 2024 c6fcd3418ddc36ff3201c06211760740d0804d54
08:37:21 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 19 April 2024 c6fcd3418ddc36ff3201c06211760740d0804d54
08:37:21 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 19 April 2024 c6fcd3418ddc36ff3201c06211760740d0804d54
08:37:21 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 19 April 2024 c6fcd3418ddc36ff3201c06211760740d0804d54
08:37:21 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
08:37:21 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
08:37:21 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
08:37:21 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
08:37:21 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
08:37:21 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
08:37:21 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
08:37:22 + deactivate
08:37:22 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
08:37:22 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
08:37:22 + export PATH
08:37:22 + unset _OLD_VIRTUAL_PATH
08:37:22 + '[' -n '' ']'
08:37:22 + '[' -n /bin/bash -o -n '' ']'
08:37:22 + hash -r
08:37:22 + '[' -n '' ']'
08:37:22 + unset VIRTUAL_ENV
08:37:22 + '[' '!' '' = nondestructive ']'
08:37:22 + unset -f deactivate
08:37:22 Finished: SUCCESS
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