11:11:42 Started by user devspace
11:11:42 Running as SYSTEM
11:11:42 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
11:11:43 [OMERO-server] $ /bin/bash -xe /tmp/jenkins17302514838715779956.sh
11:11:43 + source /home/settings.env
11:11:43 ++ OMERO_DB_HOST=pg
11:11:43 ++ OMERO_DB_USER=postgres
11:11:43 ++ OMERO_DB_PASS=
11:11:43 ++ OMERO_ROOT_PASS=omero
11:11:43 ++ OMERO_DATA_DIR=/OMERO
11:11:43 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:11:43 + OMERO_DB_NAME=OMERO-server
11:11:43 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:11:43 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:11:43 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:11:43 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:11:43 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
11:11:43 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:11:43 ++ deactivate nondestructive
11:11:43 ++ '[' -n '' ']'
11:11:43 ++ '[' -n '' ']'
11:11:43 ++ '[' -n /bin/bash -o -n '' ']'
11:11:43 ++ hash -r
11:11:43 ++ '[' -n '' ']'
11:11:43 ++ unset VIRTUAL_ENV
11:11:43 ++ '[' '!' nondestructive = nondestructive ']'
11:11:43 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:11:43 ++ export VIRTUAL_ENV
11:11:43 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:11:43 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:11:43 ++ export PATH
11:11:43 ++ '[' -n '' ']'
11:11:43 ++ '[' -z '' ']'
11:11:43 ++ _OLD_VIRTUAL_PS1=
11:11:43 ++ PS1='(.venv3) '
11:11:43 ++ export PS1
11:11:43 ++ '[' -n /bin/bash -o -n '' ']'
11:11:43 ++ hash -r
11:11:43 + omero admin stop
11:12:03 Server not running
11:12:03 + echo not running
11:12:03 not running
11:12:03 + sleep 5
11:12:08 + deactivate
11:12:08 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
11:12:08 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:12:08 + export PATH
11:12:08 + unset _OLD_VIRTUAL_PATH
11:12:08 + '[' -n '' ']'
11:12:08 + '[' -n /bin/bash -o -n '' ']'
11:12:08 + hash -r
11:12:08 + '[' -n '' ']'
11:12:08 + unset VIRTUAL_ENV
11:12:08 + '[' '!' '' = nondestructive ']'
11:12:08 + unset -f deactivate
11:12:08 + rm -rf /home/omero/workspace/OMERO-server/.venv3
11:12:08 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
11:12:13 + '[' false = true ']'
11:12:13 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
11:12:13 Skipping PURGE_DATA:CleanDbAndRepo
11:12:13 + 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-5.19.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
11:12:16 Copied 1 artifact from "OMERO-build" build number 47
11:12:16 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 47
11:12:16 Copied 2 artifacts from "OMERO-build-build" build number 48
11:12:16 [OMERO-server] $ /bin/bash -xe /tmp/jenkins11759113232804903905.sh
11:12:16 + source /home/settings.env
11:12:16 ++ OMERO_DB_HOST=pg
11:12:16 ++ OMERO_DB_USER=postgres
11:12:16 ++ OMERO_DB_PASS=
11:12:16 ++ OMERO_ROOT_PASS=omero
11:12:16 ++ OMERO_DATA_DIR=/OMERO
11:12:16 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:12:16 + OMERO_DB_NAME=OMERO-server
11:12:16 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:12:16 + mkdir -p /home/omero/omero-server-data
11:12:16 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:12:16 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:12:16 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:12:16 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
11:12:16 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
11:12:16 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
11:12:16 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
11:12:16 ++ ls OMERO.server-5.6.3-458-36e3ea22a7-ice36.zip
11:12:16 + ZIP=OMERO.server-5.6.3-458-36e3ea22a7-ice36.zip
11:12:16 + '[' '!' -z '' ']'
11:12:16 + DIST=OMERO.server-5.6.3-458-36e3ea22a7-ice36
11:12:16 + unzip OMERO.server-5.6.3-458-36e3ea22a7-ice36.zip
11:12:16 Archive: OMERO.server-5.6.3-458-36e3ea22a7-ice36.zip
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/blitz/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/grid/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/profiles/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/error/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/grid/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/luts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/luts/janelia/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/luts/ncsa_paledit/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/luts/wcif/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/analysis_scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/annotation_scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/export_scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/figure_scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/import_scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/scripts/omero/util_scripts/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/server/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/share/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/share/licenses/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/misc/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__1/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__10/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__11/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__2/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__3/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__4/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__5/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__6/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__7/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__8/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3A__9/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3__4/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3__5/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3__6/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO3__7/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO4.1__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO4.2__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO4.2__0/t/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO4.3__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO4.4__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO4__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.0__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.1__1/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.2__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.3__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.4DEV__1/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.4DEV__2/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.4DEV__3/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/sql/psql/OMERO5.4__0/
11:12:16 creating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/var/
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/LICENSE.txt
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/backup.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/blitz/mail-senders.example
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/blitz/mail-server.example
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/build.properties
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/env.bat
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/env.sh
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/hibernate.properties
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/ice.config
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/logback-cli.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/logback-indexing-cli.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/logback-indexing.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/logback.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/mime.types
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/node1.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/node2.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/omero.properties
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/profiles/psql
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/rollover.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/Windows.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/error/maintainance.html
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/grid/README
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/grid/default.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/grid/templates.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/grid/windefault.xml
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/ice.config
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/internal.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/master.cfg
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/templates/robot.template
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/etc/testdropbox.config
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/history.rst
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/OMEZarrReader.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/activation.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/aggdesigner-algorithm.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/aircompressor.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/annotations.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/antlr.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/aopalliance.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/avatica-core.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/avatica-metrics.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/aws-java-sdk-core.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/aws-java-sdk-kms.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/aws-java-sdk-s3.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/base.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-all.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-anim.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-awt-util.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-bridge.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-codec.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-constants.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-css.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-dom.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-ext.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-extension.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-gui-util.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-gvt.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-i18n.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-parser.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-rasterizer-ext.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-rasterizer.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-script.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-slideshow.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-squiggle-ext.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-squiggle.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-svg-dom.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-svgbrowser.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-svggen.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-svgpp.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-svgrasterizer.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-swing.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-transcoder.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-ttf2svg.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-util.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/batik-xml.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/btm.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/bufr.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/c3p0.jar
11:12:16 inflating: OMERO.server-5.6.3-458-36e3ea22a7-ice36/lib/client/calcite-core.jar
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11:12:19 + rm -f OMERO.server-5.6.3-458-36e3ea22a7-ice36.zip
11:12:19 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-458-36e3ea22a7-ice36 /home/omero/workspace/OMERO-server/OMERO.server
11:12:19 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:12:19 ++ deactivate nondestructive
11:12:19 ++ '[' -n '' ']'
11:12:19 ++ '[' -n '' ']'
11:12:19 ++ '[' -n /bin/bash -o -n '' ']'
11:12:19 ++ hash -r
11:12:19 ++ '[' -n '' ']'
11:12:19 ++ unset VIRTUAL_ENV
11:12:19 ++ '[' '!' nondestructive = nondestructive ']'
11:12:19 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:12:19 ++ export VIRTUAL_ENV
11:12:19 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:12:19 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:12:19 ++ export PATH
11:12:19 ++ '[' -n '' ']'
11:12:19 ++ '[' -z '' ']'
11:12:19 ++ _OLD_VIRTUAL_PS1=
11:12:19 ++ PS1='(.venv3) '
11:12:19 ++ export PS1
11:12:19 ++ '[' -n /bin/bash -o -n '' ']'
11:12:19 ++ hash -r
11:12:19 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl
11:12:19 Collecting zeroc-ice==3.6.5
11:12:20 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB)
11:12:22 Installing collected packages: zeroc-ice
11:12:23 Successfully installed zeroc-ice-3.6.5
11:12:23 + pip install -U pip future
11:12:24 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
11:12:24 Collecting pip
11:12:24 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
11:12:24 Collecting future
11:12:24 Using cached future-1.0.0-py3-none-any.whl (491 kB)
11:12:24 Installing collected packages: pip, future
11:12:24 Attempting uninstall: pip
11:12:24 Found existing installation: pip 21.2.3
11:12:25 Uninstalling pip-21.2.3:
11:12:25 Successfully uninstalled pip-21.2.3
11:12:26 Successfully installed future-1.0.0 pip-24.0
11:12:26 + pip install markdown
11:12:27 Collecting markdown
11:12:27 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
11:12:27 Collecting importlib-metadata>=4.4 (from markdown)
11:12:27 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
11:12:27 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
11:12:27 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
11:12:27 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
11:12:27 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
11:12:27 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
11:12:27 Installing collected packages: zipp, importlib-metadata, markdown
11:12:28 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
11:12:28 + pip install reportlab
11:12:28 Collecting reportlab
11:12:28 Using cached reportlab-4.2.0-py3-none-any.whl.metadata (1.4 kB)
11:12:29 Collecting pillow>=9.0.0 (from reportlab)
11:12:29 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
11:12:29 Collecting chardet (from reportlab)
11:12:29 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
11:12:29 Using cached reportlab-4.2.0-py3-none-any.whl (1.9 MB)
11:12:29 Using cached pillow-10.3.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
11:12:29 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
11:12:29 Installing collected packages: pillow, chardet, reportlab
11:12:30 Successfully installed chardet-5.2.0 pillow-10.3.0 reportlab-4.2.0
11:12:31 + pip install omego
11:12:31 Collecting omego
11:12:31 Using cached omego-0.7.0-py3-none-any.whl
11:12:31 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
11:12:33 Collecting yaclifw>=0.1.1 (from omego)
11:12:33 Using cached yaclifw-0.2.0-py3-none-any.whl
11:12:33 Collecting six (from yaclifw>=0.1.1->omego)
11:12:33 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
11:12:33 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
11:12:33 Installing collected packages: six, yaclifw, omego
11:12:34 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
11:12:34 + pip install tables
11:12:34 Collecting tables
11:12:34 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
11:12:34 Collecting numpy>=1.19.0 (from tables)
11:12:34 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
11:12:35 Collecting numexpr>=2.6.2 (from tables)
11:12:35 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
11:12:36 Collecting packaging (from tables)
11:12:36 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
11:12:37 Collecting py-cpuinfo (from tables)
11:12:37 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
11:12:37 Collecting blosc2>=2.3.0 (from tables)
11:12:37 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
11:12:37 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
11:12:37 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
11:12:37 Collecting msgpack (from blosc2>=2.3.0->tables)
11:12:37 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
11:12:37 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
11:12:37 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
11:12:37 Using cached numexpr-2.10.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (375 kB)
11:12:37 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
11:12:37 Using cached packaging-24.0-py3-none-any.whl (53 kB)
11:12:37 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
11:12:37 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
11:12:37 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
11:12:37 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
11:12:40 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.10.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
11:12:40 + pip install jinja2
11:12:41 Collecting jinja2
11:12:41 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
11:12:41 Collecting MarkupSafe>=2.0 (from jinja2)
11:12:41 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
11:12:41 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
11:12:41 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
11:12:41 Installing collected packages: MarkupSafe, jinja2
11:12:41 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
11:12:41 + pip install omero-py
11:12:43 Collecting omero-py
11:12:43 Using cached omero_py-5.19.2-py3-none-any.whl.metadata (6.6 kB)
11:12:44 Collecting urllib3<2 (from omero-py)
11:12:44 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
11:12:44 Collecting appdirs (from omero-py)
11:12:44 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
11:12:44 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
11:12:44 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
11:12:44 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.3.0)
11:12:44 Collecting PyYAML (from omero-py)
11:12:44 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
11:12:44 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
11:12:44 Collecting requests (from omero-py)
11:12:44 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
11:12:45 Collecting portalocker (from omero-py)
11:12:45 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
11:12:45 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
11:12:45 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
11:12:45 Collecting idna<4,>=2.5 (from requests->omero-py)
11:12:45 Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
11:12:45 Collecting certifi>=2017.4.17 (from requests->omero-py)
11:12:45 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
11:12:45 Using cached omero_py-5.19.2-py3-none-any.whl (2.8 MB)
11:12:45 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
11:12:45 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
11:12:45 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
11:12:45 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
11:12:45 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
11:12:45 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
11:12:45 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
11:12:45 Using cached idna-3.7-py3-none-any.whl (66 kB)
11:12:46 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
11:12:48 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.7 omero-py-5.19.2 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
11:12:48 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
11:12:48 Collecting omero-metadata
11:12:48 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-h31r5lse/omero-metadata_1810d0ec549647f090afd054e4082e78
11:12:48 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-h31r5lse/omero-metadata_1810d0ec549647f090afd054e4082e78
11:12:49 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 34c253e43ef1b352f202784f7ca297f8efaaa2fd
11:12:49 Installing build dependencies: started
11:12:51 Installing build dependencies: finished with status 'done'
11:12:51 Getting requirements to build wheel: started
11:12:51 Getting requirements to build wheel: finished with status 'done'
11:12:51 Installing backend dependencies: started
11:12:52 Installing backend dependencies: finished with status 'done'
11:12:52 Preparing metadata (pyproject.toml): started
11:12:52 Preparing metadata (pyproject.toml): finished with status 'done'
11:12:52 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.2)
11:12:52 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
11:12:52 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
11:12:53 Collecting pandas (from omero-metadata)
11:12:53 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
11:12:53 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
11:12:53 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
11:12:53 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
11:12:53 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
11:12:53 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.3.0)
11:12:53 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5)
11:12:53 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
11:12:53 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
11:12:53 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
11:12:53 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
11:12:53 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
11:12:53 Collecting pytz>=2020.1 (from pandas->omero-metadata)
11:12:53 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
11:12:53 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
11:12:53 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
11:12:53 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
11:12:53 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
11:12:53 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.7)
11:12:53 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
11:12:53 Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
11:12:53 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
11:12:53 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
11:12:54 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
11:12:54 Building wheels for collected packages: omero-metadata
11:12:54 Building wheel for omero-metadata (pyproject.toml): started
11:12:54 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
11:12:54 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=62900f39d87b7e0c5db8d0c186ede9622f3cdd9c3712feb106fa8bfabebd3845
11:12:54 Stored in directory: /tmp/pip-ephem-wheel-cache-zymgvlcb/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
11:12:54 Successfully built omero-metadata
11:12:54 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
11:13:00 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.2 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
11:13:00 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
11:13:01 Collecting omero-cli-render
11:13:01 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-vzdxgpap/omero-cli-render_9e037ba552dd46be9635f3eecd902b09
11:13:01 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-vzdxgpap/omero-cli-render_9e037ba552dd46be9635f3eecd902b09
11:13:02 Running command git checkout -b merge_ci --track origin/merge_ci
11:13:02 Switched to a new branch 'merge_ci'
11:13:02 branch 'merge_ci' set up to track 'origin/merge_ci'.
11:13:02 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit bbf71cdf354109d7f4cbe591396562b9219bf242
11:13:02 Installing build dependencies: started
11:13:04 Installing build dependencies: finished with status 'done'
11:13:04 Getting requirements to build wheel: started
11:13:04 Getting requirements to build wheel: finished with status 'done'
11:13:04 Installing backend dependencies: started
11:13:05 Installing backend dependencies: finished with status 'done'
11:13:05 Preparing metadata (pyproject.toml): started
11:13:05 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:05 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
11:13:05 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.2)
11:13:05 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
11:13:05 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
11:13:05 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
11:13:05 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
11:13:05 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.3.0)
11:13:05 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5)
11:13:05 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
11:13:05 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
11:13:05 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.3.2)
11:13:05 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.7)
11:13:05 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.2.2)
11:13:05 Building wheels for collected packages: omero-cli-render
11:13:05 Building wheel for omero-cli-render (pyproject.toml): started
11:13:05 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
11:13:05 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=3d4bf1b7b2013c10d23fa07cb25b579f9e857ca6846c4c30c45b01e4754b6957
11:13:05 Stored in directory: /tmp/pip-ephem-wheel-cache-kaly_nzd/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
11:13:05 Successfully built omero-cli-render
11:13:06 Installing collected packages: omero-cli-render
11:13:06 Successfully installed omero-cli-render-0.8.1.dev0
11:13:06 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
11:13:06 Collecting omero-cli-duplicate
11:13:06 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-vfjye6gw/omero-cli-duplicate_2d4cd72b241a4587919ea197a0a6b682
11:13:06 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-vfjye6gw/omero-cli-duplicate_2d4cd72b241a4587919ea197a0a6b682
11:13:07 Running command git checkout -b merge_ci --track origin/merge_ci
11:13:07 Switched to a new branch 'merge_ci'
11:13:07 branch 'merge_ci' set up to track 'origin/merge_ci'.
11:13:07 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 43f7cf0d79de3f2e999ac7e82dcd2f1bae64f0b8
11:13:07 Installing build dependencies: started
11:13:09 Installing build dependencies: finished with status 'done'
11:13:09 Getting requirements to build wheel: started
11:13:09 Getting requirements to build wheel: finished with status 'done'
11:13:09 Installing backend dependencies: started
11:13:10 Installing backend dependencies: finished with status 'done'
11:13:10 Preparing metadata (pyproject.toml): started
11:13:10 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:10 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.2)
11:13:10 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
11:13:10 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
11:13:10 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
11:13:10 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
11:13:10 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.3.0)
11:13:10 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
11:13:10 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5)
11:13:10 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
11:13:10 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
11:13:10 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.3.2)
11:13:10 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.7)
11:13:10 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.2.2)
11:13:10 Building wheels for collected packages: omero-cli-duplicate
11:13:10 Building wheel for omero-cli-duplicate (pyproject.toml): started
11:13:11 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
11:13:11 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=152574a3595ae2ab2c81c5e02331a86ebc60199df7f29fe4e2ec5252c51345b2
11:13:11 Stored in directory: /tmp/pip-ephem-wheel-cache-vqq7jqtw/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
11:13:11 Successfully built omero-cli-duplicate
11:13:11 Installing collected packages: omero-cli-duplicate
11:13:11 Successfully installed omero-cli-duplicate-0.4.1.dev0
11:13:11 + pip install omero-certificates
11:13:11 Collecting omero-certificates
11:13:11 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
11:13:11 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.2)
11:13:11 Collecting distro==1.8.0 (from omero-certificates)
11:13:11 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
11:13:11 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
11:13:11 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
11:13:11 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
11:13:11 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
11:13:11 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.3.0)
11:13:11 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
11:13:11 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5)
11:13:11 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
11:13:11 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
11:13:12 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.3.2)
11:13:12 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.7)
11:13:12 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.2.2)
11:13:12 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
11:13:12 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
11:13:12 Installing collected packages: distro, omero-certificates
11:13:12 Successfully installed distro-1.8.0 omero-certificates-0.3.2
11:13:12 + for x in *.tar.gz
11:13:12 + pip install -U omero_dropbox-5.6.3.dev0.tar.gz
11:13:12 Processing ./omero_dropbox-5.6.3.dev0.tar.gz
11:13:12 Installing build dependencies: started
11:13:14 Installing build dependencies: finished with status 'done'
11:13:14 Getting requirements to build wheel: started
11:13:14 Getting requirements to build wheel: finished with status 'done'
11:13:14 Installing backend dependencies: started
11:13:15 Installing backend dependencies: finished with status 'done'
11:13:15 Preparing metadata (pyproject.toml): started
11:13:15 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:15 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.2)
11:13:15 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
11:13:15 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
11:13:15 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
11:13:15 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
11:13:15 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.3.0)
11:13:15 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
11:13:15 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (3.6.5)
11:13:15 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
11:13:15 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
11:13:15 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.3.2)
11:13:15 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.7)
11:13:15 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (2024.2.2)
11:13:15 Building wheels for collected packages: omero-dropbox
11:13:15 Building wheel for omero-dropbox (pyproject.toml): started
11:13:15 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
11:13:15 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=127ed0daab90897cddfea3d36cef93cdd986001094aec68197e451047bd532c8
11:13:15 Stored in directory: /home/omero/.cache/pip/wheels/f4/cc/2d/e8cb90723edb0dd09a23d7e300334e5aa51dc6579befeaf8c6
11:13:16 Successfully built omero-dropbox
11:13:16 Installing collected packages: omero-dropbox
11:13:16 Successfully installed omero-dropbox-5.6.3.dev0
11:13:16 + for x in *.tar.gz
11:13:16 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
11:13:16 Processing ./omero_marshal-0.9.1.dev0.tar.gz
11:13:16 Installing build dependencies: started
11:13:18 Installing build dependencies: finished with status 'done'
11:13:18 Getting requirements to build wheel: started
11:13:18 Getting requirements to build wheel: finished with status 'done'
11:13:18 Installing backend dependencies: started
11:13:19 Installing backend dependencies: finished with status 'done'
11:13:19 Preparing metadata (pyproject.toml): started
11:13:19 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:19 Building wheels for collected packages: omero_marshal
11:13:19 Building wheel for omero_marshal (pyproject.toml): started
11:13:20 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
11:13:20 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=3c1acabebec1f498f09669f6123ae2820ff95b18c8b2e30cb3cf390f36aef650
11:13:20 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
11:13:20 Successfully built omero_marshal
11:13:20 Installing collected packages: omero_marshal
11:13:20 Successfully installed omero_marshal-0.9.1.dev0
11:13:20 + for x in *.tar.gz
11:13:20 + pip install -U omero_py-5.19.3.dev0.tar.gz
11:13:20 Processing ./omero_py-5.19.3.dev0.tar.gz
11:13:21 Installing build dependencies: started
11:13:22 Installing build dependencies: finished with status 'done'
11:13:22 Getting requirements to build wheel: started
11:13:23 Getting requirements to build wheel: finished with status 'done'
11:13:23 Installing backend dependencies: started
11:13:23 Installing backend dependencies: finished with status 'done'
11:13:23 Preparing metadata (pyproject.toml): started
11:13:24 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:24 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.18)
11:13:24 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.4.4)
11:13:24 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.0.0)
11:13:24 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (1.26.4)
11:13:24 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (10.3.0)
11:13:24 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (6.0.1)
11:13:24 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (3.6.5)
11:13:24 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.31.0)
11:13:24 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.3.dev0) (2.8.2)
11:13:24 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.3.2)
11:13:24 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (3.7)
11:13:24 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.3.dev0) (2024.2.2)
11:13:24 Building wheels for collected packages: omero-py
11:13:24 Building wheel for omero-py (pyproject.toml): started
11:13:25 Building wheel for omero-py (pyproject.toml): finished with status 'done'
11:13:25 Created wheel for omero-py: filename=omero_py-5.19.3.dev0-py3-none-any.whl size=2783096 sha256=975c277daeba90e4b6b7502c09587a8d86a58879112abffbbbe6d75048a748c9
11:13:25 Stored in directory: /home/omero/.cache/pip/wheels/da/30/d3/f2a83bdd6a0fbad84aa00dad9eb9431eedebb0e1310be5dd41
11:13:25 Successfully built omero-py
11:13:25 Installing collected packages: omero-py
11:13:25 Attempting uninstall: omero-py
11:13:25 Found existing installation: omero-py 5.19.2
11:13:25 Uninstalling omero-py-5.19.2:
11:13:25 Successfully uninstalled omero-py-5.19.2
11:13:27 Successfully installed omero-py-5.19.3.dev0
11:13:27 + for x in *.tar.gz
11:13:27 + pip install -U omero_scripts-5.8.3.dev0.tar.gz
11:13:28 Processing ./omero_scripts-5.8.3.dev0.tar.gz
11:13:28 Installing build dependencies: started
11:13:30 Installing build dependencies: finished with status 'done'
11:13:30 Getting requirements to build wheel: started
11:13:30 Getting requirements to build wheel: finished with status 'done'
11:13:30 Installing backend dependencies: started
11:13:31 Installing backend dependencies: finished with status 'done'
11:13:31 Preparing metadata (pyproject.toml): started
11:13:31 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:31 Building wheels for collected packages: omero-scripts
11:13:31 Building wheel for omero-scripts (pyproject.toml): started
11:13:31 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
11:13:32 Created wheel for omero-scripts: filename=omero_scripts-5.8.3.dev0-py3-none-any.whl size=116568 sha256=9f85cfb687afae0bd25a107b4e5ec2a345e100409fb1467d0ee39f1f99b2a467
11:13:32 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446
11:13:32 Successfully built omero-scripts
11:13:32 Installing collected packages: omero-scripts
11:13:33 Successfully installed omero-scripts-5.8.3.dev0
11:13:33 + for x in *.tar.gz
11:13:33 + pip install -U omero_web-5.25.1.dev0.tar.gz
11:13:33 Processing ./omero_web-5.25.1.dev0.tar.gz
11:13:33 Installing build dependencies: started
11:13:35 Installing build dependencies: finished with status 'done'
11:13:35 Getting requirements to build wheel: started
11:13:35 Getting requirements to build wheel: finished with status 'done'
11:13:35 Installing backend dependencies: started
11:13:36 Installing backend dependencies: finished with status 'done'
11:13:36 Preparing metadata (pyproject.toml): started
11:13:37 Preparing metadata (pyproject.toml): finished with status 'done'
11:13:37 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.3.dev0)
11:13:37 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
11:13:37 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
11:13:37 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
11:13:37 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
11:13:37 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
11:13:37 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
11:13:37 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
11:13:37 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
11:13:37 Collecting django-csp (from omero-web==5.25.1.dev0)
11:13:37 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
11:13:37 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
11:13:37 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
11:13:37 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
11:13:37 Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB)
11:13:37 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (0.9.1.dev0)
11:13:37 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.3.0)
11:13:37 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
11:13:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
11:13:37 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
11:13:37 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
11:13:37 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
11:13:37 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
11:13:37 Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB)
11:13:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.18)
11:13:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.4.4)
11:13:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.0.0)
11:13:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (1.26.4)
11:13:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (6.0.1)
11:13:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.6.5)
11:13:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.25.1.dev0) (2.31.0)
11:13:37 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
11:13:37 Using cached typing_extensions-4.11.0-py3-none-any.whl.metadata (3.0 kB)
11:13:38 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.3.2)
11:13:38 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (3.7)
11:13:38 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.25.1.dev0) (2024.2.2)
11:13:38 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
11:13:38 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
11:13:38 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
11:13:38 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
11:13:38 Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB)
11:13:38 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
11:13:38 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
11:13:38 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
11:13:38 Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB)
11:13:38 Using cached typing_extensions-4.11.0-py3-none-any.whl (34 kB)
11:13:38 Building wheels for collected packages: omero-web
11:13:38 Building wheel for omero-web (pyproject.toml): started
11:13:39 Building wheel for omero-web (pyproject.toml): finished with status 'done'
11:13:39 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2770170 sha256=e894bcaad550d895029d3ae464f5877c2859c564955b564f506327398269b26c
11:13:39 Stored in directory: /home/omero/.cache/pip/wheels/33/ba/09/ce4e387d041ff0c2197723e41a9f679d0a8e4d0d4f906c19c9
11:13:39 Successfully built omero-web
11:13:39 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
11:13:42 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
11:13:42 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
11:13:43 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
11:13:43 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
11:13:43 --2024-04-30 11:13:43-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
11:13:44 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.110.133, 185.199.108.133, 185.199.111.133, ...
11:13:44 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.110.133|:443... connected.
11:13:44 HTTP request sent, awaiting response... 200 OK
11:13:44 Length: 94763 (93K) [text/plain]
11:13:44 Saving to: ‘Figure_To_Pdf.py’
11:13:44
11:13:44 0K .......... .......... .......... .......... .......... 54% 3.14M 0s
11:13:44 50K .......... .......... .......... .......... .. 100% 9.80M=0.02s
11:13:44
11:13:44 2024-04-30 11:13:44 (4.56 MB/s) - ‘Figure_To_Pdf.py’ saved [94763/94763]
11:13:44
11:13:44 + chmod 755 Figure_To_Pdf.py
11:13:44 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
11:13:44 + omero config set omero.db.name OMERO-server
11:13:45 + omero config set omero.db.host pg
11:13:46 + omero config set omero.db.user postgres
11:13:48 + omero config set omero.data.dir /home/omero/omero-server-data
11:13:49 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
11:13:50 + omero config set omero.db.poolsize 25
11:13:52 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
11:13:54 + omero config set omero.security.trustStorePassword changeit
11:13:55 + omero config set omero.mail.config true
11:13:56 + omero config set omero.mail.from qa@openmicroscopy.org.uk
11:13:58 + omero config set omero.mail.host smtp.dundee.ac.uk
11:13:59 + omero certificates
11:14:00 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
11:14:00 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
11:14:01 + '[' false = true ']'
11:14:01 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
11:14:01 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
11:14:01 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG dbcommand => upgrade
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG dbhost => localhost
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG dbname => OMERO-server
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG dbpass => omero
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG dbuser => omero
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG rootpass => omero
11:14:01 2024-04-30 11:14:01,310 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
11:14:01 2024-04-30 11:14:01,310 [omego.extern] INFO Executing : omero version
11:14:02 OMERO.py version:
11:14:02 OMERO.server version:
11:14:02 5.6.3-458-36e3ea22a7-ice36
11:14:02 5.19.3.dev0
11:14:02 2024-04-30 11:14:02,651 [omego.extern] INFO Completed [1.341 s]
11:14:02 2024-04-30 11:14:02,651 [omego.extern] DEBUG Using omero CLI from omero
11:14:02 2024-04-30 11:14:02,651 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
11:14:02 2024-04-30 11:14:02,652 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:14:02 2024-04-30 11:14:02,652 [omego.extern] INFO Executing : omero config get --show-password
11:14:03 2024-04-30 11:14:03,940 [omego.extern] INFO Completed [1.289 s]
11:14:03 2024-04-30 11:14:03,941 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:14:03 2024-04-30 11:14:03,941 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
11:14:04 2024-04-30 11:14:04,536 [omego.extern] INFO Completed [0.595 s]
11:14:04 2024-04-30 11:14:04,537 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
11:14:04 2024-04-30 11:14:04,537 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
11:14:04
11:14:04 2024-04-30 11:14:04,537 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:14:04 2024-04-30 11:14:04,537 [omego.extern] INFO Executing : omero config get --show-password
11:14:05 2024-04-30 11:14:05,867 [omego.extern] INFO Completed [1.330 s]
11:14:05 2024-04-30 11:14:05,868 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:14:05 2024-04-30 11:14:05,868 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
11:14:05 2024-04-30 11:14:05,955 [omego.extern] INFO Completed [0.087 s]
11:14:05 2024-04-30 11:14:05,955 [ 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'
11:14:05 2024-04-30 11:14:05,955 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
11:14:05 2024-04-30 11:14:05,955 [omego.extern] INFO Running [current environment]: omero config get --show-password
11:14:05 2024-04-30 11:14:05,955 [omego.extern] INFO Executing : omero config get --show-password
11:14:07 2024-04-30 11:14:07,293 [omego.extern] INFO Completed [1.337 s]
11:14:07 2024-04-30 11:14:07,293 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
11:14:07 2024-04-30 11:14:07,293 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
11:14:09 2024-04-30 11:14:09,561 [omego.extern] INFO Completed [2.268 s]
11:14:09 2024-04-30 11:14:09,561 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
11:14:09 2024-04-30 11:14:09,561 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
11:14:09 2024-04-30 11:14:09,563 [ omego.db] INFO Database is already at OMERO5.4__0
11:14:09 + export LANG=en_US.UTF-8
11:14:09 + LANG=en_US.UTF-8
11:14:09 + export LANGUAGE=en_US:en
11:14:09 + LANGUAGE=en_US:en
11:14:09 + export LC_ALL=en_US.UTF-8
11:14:09 + LC_ALL=en_US.UTF-8
11:14:09 + BUILD_ID=DONT_KILL_ME
11:14:09 + omero admin start
11:14:19 No descriptor given. Using etc/grid/default.xml
11:14:40 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
11:14:40 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
11:14:40 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
11:14:40 Waiting on startup. Use CTRL-C to exit
11:14:40 + omero admin waitup
11:14:41 Waiting on startup. Use CTRL-C to exit
11:14:41 + omero admin diagnostics
11:14:48 ERROR:omero.util.UpgradeCheck:HTTPConnectionPool(host='qa.openmicroscopy.org.uk', port=80): Read timed out. (read timeout=6.0)
11:14:48
11:14:48 ================================================================================
11:14:48 OMERO Diagnostics (admin)
11:14:48 ================================================================================
11:14:48
11:14:48 Commands: java -version 11.0.22 (/usr/bin/java)
11:14:48 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
11:14:48 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
11:14:49 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
11:14:49 Commands: psql --version 16.2 (/usr/bin/psql)
11:14:49 Commands: openssl version 3.0.71 (/usr/bin/openssl)
11:14:49
11:14:49 Component: OMERO.py 5.19.3.dev0
11:14:49 Component: OMERO.server 5.6.3-458-36e3ea22a7-ice36
11:14:49
11:14:49 Server: icegridnode running
11:14:49 Server: Blitz-0 active (pid = 2403, enabled)
11:14:49 Server: DropBox active (pid = 2424, enabled)
11:14:49 Server: FileServer active (pid = 2433, enabled)
11:14:49 Server: Indexer-0 active (pid = 2479, enabled)
11:14:49 Server: MonitorServer active (pid = 2436, enabled)
11:14:49 Server: OMERO.Glacier2 active (pid = 2469, enabled)
11:14:49 Server: OMERO.IceStorm active (pid = 2437, enabled)
11:14:49 Server: PixelData-0 active (pid = 2439, enabled)
11:14:49 Server: Processor-0 activating (enabled)
11:14:49 Server: Tables-0 activating (enabled)
11:14:49 Server: TestDropBox inactive (enabled)
11:14:49
11:14:49 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
11:14:49 Log files: Blitz-0.log 24.5 KB errors=1 warnings=0
11:14:49 Log files: DropBox.log 1.2 KB
11:14:49 Log files: FileServer.log 114 B
11:14:49 Log files: Indexer-0.log 2.6 KB
11:14:49 Log files: MonitorServer.log 1.1 KB
11:14:49 Log files: PixelData-0.log 3.4 KB
11:14:49 Log files: Processor-0.log 592 B
11:14:49 Log files: Tables-0.log 841 B
11:14:49 Log files: TestDropBox.log n/a
11:14:49 Log files: master.err 2.1 KB
11:14:49 Log files: master.out 41.5 KB
11:14:49 Log files: Total size 0.08 MB
11:14:49
11:14:49
11:14:49 Environment:OMERO_HOME=(unset)
11:14:49 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:14:49 Environment:OMERO_NODE=(unset)
11:14:49 Environment:OMERO_MASTER=(unset)
11:14:49 Environment:OMERO_USERDIR=(unset)
11:14:49 Environment:OMERO_TMPDIR=(unset)
11:14:49 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:14:49 Environment:PYTHONPATH=(unset)
11:14:49 Environment:ICE_HOME=/opt/ice-3.6.5
11:14:49 Environment:LD_LIBRARY_PATH=(unset)
11:14:49 Environment:DYLD_LIBRARY_PATH=(unset)
11:14:49
11:14:49 OMERO SSL port:4064
11:14:49 OMERO TCP port:4063
11:14:49 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
11:14:49 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
11:14:49
11:14:49 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:14:49 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:14:49 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:14:49 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
11:14:49
11:14:49 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 30 April 2024 40245ffc13a76e4bf4229c479bb94c764e698816
11:14:49 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 30 April 2024 40245ffc13a76e4bf4229c479bb94c764e698816
11:14:49 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 30 April 2024 40245ffc13a76e4bf4229c479bb94c764e698816
11:14:49 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 30 April 2024 f6c0b7443f290ba6beeb1513a09cb5815928db6d
11:14:49 Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 30 April 2024 f6c0b7443f290ba6beeb1513a09cb5815928db6d
11:14:49 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 30 April 2024 f6c0b7443f290ba6beeb1513a09cb5815928db6d
11:14:49 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 30 April 2024 f6c0b7443f290ba6beeb1513a09cb5815928db6d
11:14:49 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 30 April 2024 f6c0b7443f290ba6beeb1513a09cb5815928db6d
11:14:49 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 30 April 2024 f6c0b7443f290ba6beeb1513a09cb5815928db6d
11:14:49 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
11:14:49 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
11:14:49 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
11:14:49 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
11:14:49 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
11:14:49 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
11:14:49 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
11:14:49 + deactivate
11:14:49 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
11:14:49 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:14:49 + export PATH
11:14:49 + unset _OLD_VIRTUAL_PATH
11:14:49 + '[' -n '' ']'
11:14:49 + '[' -n /bin/bash -o -n '' ']'
11:14:49 + hash -r
11:14:49 + '[' -n '' ']'
11:14:49 + unset VIRTUAL_ENV
11:14:49 + '[' '!' '' = nondestructive ']'
11:14:49 + unset -f deactivate
11:14:49 Finished: SUCCESS
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