00:47:59 Started by upstream project "Trigger" build number 249 00:47:59 originally caused by: 00:47:59 Started by timer 00:47:59 Running as SYSTEM 00:47:59 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server 00:48:00 [OMERO-server] $ /bin/bash -xe /tmp/jenkins8409347640049613276.sh 00:48:00 + source /home/settings.env 00:48:00 ++ OMERO_DB_HOST=pg 00:48:00 ++ OMERO_DB_USER=postgres 00:48:00 ++ OMERO_DB_PASS= 00:48:00 ++ OMERO_ROOT_PASS=omero 00:48:00 ++ OMERO_DATA_DIR=/OMERO 00:48:00 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR 00:48:00 + OMERO_DB_NAME=OMERO-server 00:48:00 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server 00:48:00 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 00:48:00 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 00:48:00 + OMERO_DATA_DIR=/home/omero/omero-server-data 00:48:00 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']' 00:48:00 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate 00:48:00 ++ deactivate nondestructive 00:48:00 ++ '[' -n '' ']' 00:48:00 ++ '[' -n '' ']' 00:48:00 ++ '[' -n /bin/bash -o -n '' ']' 00:48:00 ++ hash -r 00:48:00 ++ '[' -n '' ']' 00:48:00 ++ unset VIRTUAL_ENV 00:48:00 ++ '[' '!' nondestructive = nondestructive ']' 00:48:00 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 00:48:00 ++ export VIRTUAL_ENV 00:48:00 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:48:00 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:48:00 ++ export PATH 00:48:00 ++ '[' -n '' ']' 00:48:00 ++ '[' -z '' ']' 00:48:00 ++ _OLD_VIRTUAL_PS1= 00:48:00 ++ PS1='(.venv3) ' 00:48:00 ++ export PS1 00:48:00 ++ '[' -n /bin/bash -o -n '' ']' 00:48:00 ++ hash -r 00:48:00 + omero admin stop 00:48:36 Server not running 00:48:36 + echo not running 00:48:36 not running 00:48:36 + sleep 5 00:48:41 + deactivate 00:48:41 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' 00:48:41 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:48:41 + export PATH 00:48:41 + unset _OLD_VIRTUAL_PATH 00:48:41 + '[' -n '' ']' 00:48:41 + '[' -n /bin/bash -o -n '' ']' 00:48:41 + hash -r 00:48:41 + '[' -n '' ']' 00:48:41 + unset VIRTUAL_ENV 00:48:41 + '[' '!' '' = nondestructive ']' 00:48:41 + unset -f deactivate 00:48:41 + rm -rf /home/omero/workspace/OMERO-server/.venv3 00:48:42 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3 00:48:46 + '[' false = true ']' 00:48:46 + echo 'Skipping PURGE_DATA:CleanDbAndRepo' 00:48:46 Skipping PURGE_DATA:CleanDbAndRepo 00:48:46 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.5-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.6.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.4.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.27.3.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties 00:48:48 Copied 1 artifact from "OMERO-build" build number 206 00:48:48 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 203 00:48:48 Copied 2 artifacts from "OMERO-build-build" build number 214 00:48:48 [OMERO-server] $ /bin/bash -xe /tmp/jenkins14124258572137623310.sh 00:48:48 + source /home/settings.env 00:48:48 ++ OMERO_DB_HOST=pg 00:48:48 ++ OMERO_DB_USER=postgres 00:48:48 ++ OMERO_DB_PASS= 00:48:48 ++ OMERO_ROOT_PASS=omero 00:48:48 ++ OMERO_DATA_DIR=/OMERO 00:48:48 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR 00:48:48 + OMERO_DB_NAME=OMERO-server 00:48:48 + OMERO_DATA_DIR=/home/omero/omero-server-data 00:48:48 + mkdir -p /home/omero/omero-server-data 00:48:48 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server 00:48:48 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 00:48:48 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 00:48:48 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip 00:48:48 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip 00:48:48 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties 00:48:48 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties 00:48:48 ++ ls OMERO.server-5.6.3-513-f26570a705-ice36.zip 00:48:48 + ZIP=OMERO.server-5.6.3-513-f26570a705-ice36.zip 00:48:48 + '[' '!' -z '' ']' 00:48:48 + DIST=OMERO.server-5.6.3-513-f26570a705-ice36 00:48:48 + unzip OMERO.server-5.6.3-513-f26570a705-ice36.zip 00:48:48 Archive: OMERO.server-5.6.3-513-f26570a705-ice36.zip 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/blitz/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/grid/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/profiles/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/error/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/grid/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/luts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/luts/janelia/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/luts/ncsa_paledit/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/luts/wcif/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/analysis_scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/annotation_scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/export_scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/figure_scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/import_scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/scripts/omero/util_scripts/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/server/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/share/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/share/licenses/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/misc/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__1/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__10/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__11/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__2/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__3/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__4/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__5/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__6/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__7/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__8/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3A__9/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3__4/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3__5/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3__6/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO3__7/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO4.1__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO4.2__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO4.2__0/t/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO4.3__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO4.4__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO4__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.0__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.1__1/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.2__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.3__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4DEV__1/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4DEV__2/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4DEV__3/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/ 00:48:48 creating: OMERO.server-5.6.3-513-f26570a705-ice36/var/ 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/LICENSE.txt 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/backup.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/blitz/mail-senders.example 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/blitz/mail-server.example 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/build.properties 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/env.bat 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/env.sh 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/hibernate.properties 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/ice.config 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/logback-cli.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/logback-indexing-cli.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/logback-indexing.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/logback.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/mime.types 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/node1.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/node2.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/omero.properties 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/profiles/psql 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/rollover.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/Windows.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/error/maintainance.html 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/grid/README 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/grid/default.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/grid/templates.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/grid/windefault.xml 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/ice.config 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/internal.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/master.cfg 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/templates/robot.template 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/etc/testdropbox.config 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/history.rst 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/OMEZarrReader.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/activation.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/aggdesigner-algorithm.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/aircompressor.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/annotations.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/antlr.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/aopalliance.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/avatica-core.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/avatica-metrics.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/aws-java-sdk-core.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/aws-java-sdk-kms.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/aws-java-sdk-s3.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/base.jar 00:48:48 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-all.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-anim.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-awt-util.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-bridge.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-codec.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-constants.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-css.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-dom.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-ext.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-extension.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-gui-util.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-gvt.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-i18n.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-parser.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-rasterizer-ext.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-rasterizer.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-script.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-slideshow.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-squiggle-ext.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-squiggle.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-svg-dom.jar 00:48:49 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/lib/client/batik-svgbrowser.jar 00:48:49 inflating: 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OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/psql-footer.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/psql-header.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/schema.sql 00:48:51 inflating: OMERO.server-5.6.3-513-f26570a705-ice36/sql/psql/OMERO5.4__0/views.sql 00:48:51 + rm -f OMERO.server-5.6.3-513-f26570a705-ice36.zip 00:48:51 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-513-f26570a705-ice36 /home/omero/workspace/OMERO-server/OMERO.server 00:48:51 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate 00:48:51 ++ deactivate nondestructive 00:48:51 ++ '[' -n '' ']' 00:48:51 ++ '[' -n '' ']' 00:48:51 ++ '[' -n /bin/bash -o -n '' ']' 00:48:51 ++ hash -r 00:48:51 ++ '[' -n '' ']' 00:48:51 ++ unset VIRTUAL_ENV 00:48:51 ++ '[' '!' nondestructive = nondestructive ']' 00:48:51 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 00:48:51 ++ export VIRTUAL_ENV 00:48:51 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:48:51 ++ PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:48:51 ++ export PATH 00:48:51 ++ '[' -n '' ']' 00:48:51 ++ '[' -z '' ']' 00:48:51 ++ _OLD_VIRTUAL_PS1= 00:48:51 ++ PS1='(.venv3) ' 00:48:51 ++ export PS1 00:48:51 ++ '[' -n /bin/bash -o -n '' ']' 00:48:51 ++ hash -r 00:48:51 + pip install https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl 00:48:51 Collecting zeroc-ice==3.6.5 00:48:52 Downloading https://github.com/glencoesoftware/zeroc-ice-py-rhel9-x86_64/releases/download/20230830/zeroc_ice-3.6.5-cp39-cp39-linux_x86_64.whl (31.3 MB) 00:48:54 Installing collected packages: zeroc-ice 00:48:55 Successfully installed zeroc-ice-3.6.5 00:48:55 + pip install -U pip future 00:48:55 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3) 00:48:56 Collecting pip 00:48:56 Using cached pip-24.2-py3-none-any.whl (1.8 MB) 00:48:56 Collecting future 00:48:56 Using cached future-1.0.0-py3-none-any.whl (491 kB) 00:48:56 Installing collected packages: pip, future 00:48:56 Attempting uninstall: pip 00:48:56 Found existing installation: pip 21.2.3 00:48:56 Uninstalling pip-21.2.3: 00:48:56 Successfully uninstalled pip-21.2.3 00:48:57 Successfully installed future-1.0.0 pip-24.2 00:48:58 + pip install markdown 00:48:58 Collecting markdown 00:48:58 Using cached Markdown-3.7-py3-none-any.whl.metadata (7.0 kB) 00:48:58 Collecting importlib-metadata>=4.4 (from markdown) 00:48:59 Using cached importlib_metadata-8.5.0-py3-none-any.whl.metadata (4.8 kB) 00:48:59 Collecting zipp>=3.20 (from importlib-metadata>=4.4->markdown) 00:48:59 Using cached zipp-3.20.2-py3-none-any.whl.metadata (3.7 kB) 00:48:59 Using cached Markdown-3.7-py3-none-any.whl (106 kB) 00:48:59 Using cached importlib_metadata-8.5.0-py3-none-any.whl (26 kB) 00:48:59 Using cached zipp-3.20.2-py3-none-any.whl (9.2 kB) 00:48:59 Installing collected packages: zipp, importlib-metadata, markdown 00:48:59 Successfully installed importlib-metadata-8.5.0 markdown-3.7 zipp-3.20.2 00:48:59 + pip install reportlab 00:49:00 Collecting reportlab 00:49:00 Using cached reportlab-4.2.5-py3-none-any.whl.metadata (1.5 kB) 00:49:01 Collecting pillow>=9.0.0 (from reportlab) 00:49:01 Downloading pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.1 kB) 00:49:01 Collecting chardet (from reportlab) 00:49:01 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB) 00:49:01 Using cached reportlab-4.2.5-py3-none-any.whl (1.9 MB) 00:49:01 Downloading pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.4 MB) 00:49:01 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.4/4.4 MB 22.4 MB/s eta 0:00:00 00:49:01 Using cached chardet-5.2.0-py3-none-any.whl (199 kB) 00:49:01 Installing collected packages: pillow, chardet, reportlab 00:49:03 Successfully installed chardet-5.2.0 pillow-11.0.0 reportlab-4.2.5 00:49:03 + pip install omego 00:49:03 Collecting omego 00:49:03 Using cached omego-0.7.0-py3-none-any.whl 00:49:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0) 00:49:03 Collecting yaclifw>=0.1.1 (from omego) 00:49:03 Using cached yaclifw-0.2.0-py3-none-any.whl 00:49:03 Collecting six (from yaclifw>=0.1.1->omego) 00:49:03 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB) 00:49:03 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB) 00:49:03 Installing collected packages: six, yaclifw, omego 00:49:04 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0 00:49:04 + pip install tables 00:49:07 Collecting tables 00:49:07 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB) 00:49:07 Collecting numpy>=1.19.0 (from tables) 00:49:07 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB) 00:49:08 Collecting numexpr>=2.6.2 (from tables) 00:49:08 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB) 00:49:08 Collecting packaging (from tables) 00:49:08 Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB) 00:49:08 Collecting py-cpuinfo (from tables) 00:49:08 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes) 00:49:08 Collecting blosc2>=2.3.0 (from tables) 00:49:08 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB) 00:49:08 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables) 00:49:08 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.4 kB) 00:49:08 Collecting msgpack (from blosc2>=2.3.0->tables) 00:49:08 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (8.4 kB) 00:49:08 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB) 00:49:08 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB) 00:49:08 Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB) 00:49:08 Using cached numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB) 00:49:09 Using cached packaging-24.1-py3-none-any.whl (53 kB) 00:49:09 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB) 00:49:09 Using cached ndindex-1.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (478 kB) 00:49:09 Using cached msgpack-1.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (377 kB) 00:49:09 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables 00:49:13 Successfully installed blosc2-2.5.1 msgpack-1.1.0 ndindex-1.9.2 numexpr-2.10.1 numpy-2.0.2 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2 00:49:13 + pip install jinja2 00:49:13 Collecting jinja2 00:49:13 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 kB) 00:49:13 Collecting MarkupSafe>=2.0 (from jinja2) 00:49:13 Using cached MarkupSafe-3.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.0 kB) 00:49:14 Using cached jinja2-3.1.4-py3-none-any.whl (133 kB) 00:49:14 Using cached MarkupSafe-3.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB) 00:49:14 Installing collected packages: MarkupSafe, jinja2 00:49:14 Successfully installed MarkupSafe-3.0.1 jinja2-3.1.4 00:49:14 + pip install omero-py 00:49:15 Collecting omero-py 00:49:15 Using cached omero_py-5.19.5-py3-none-any.whl.metadata (6.3 kB) 00:49:15 Collecting urllib3<2 (from omero-py) 00:49:15 Using cached urllib3-1.26.20-py2.py3-none-any.whl.metadata (50 kB) 00:49:15 Collecting appdirs (from omero-py) 00:49:15 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB) 00:49:15 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0) 00:49:15 Collecting numpy<2 (from omero-py) 00:49:15 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB) 00:49:15 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (11.0.0) 00:49:16 Collecting PyYAML (from omero-py) 00:49:16 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB) 00:49:16 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5) 00:49:16 Collecting requests (from omero-py) 00:49:16 Using cached requests-2.32.3-py3-none-any.whl.metadata (4.6 kB) 00:49:16 Collecting portalocker (from omero-py) 00:49:16 Using cached portalocker-2.10.1-py3-none-any.whl.metadata (8.5 kB) 00:49:16 Collecting charset-normalizer<4,>=2 (from requests->omero-py) 00:49:16 Using cached charset_normalizer-3.4.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (34 kB) 00:49:16 Collecting idna<4,>=2.5 (from requests->omero-py) 00:49:16 Using cached idna-3.10-py3-none-any.whl.metadata (10 kB) 00:49:17 Collecting certifi>=2017.4.17 (from requests->omero-py) 00:49:17 Using cached certifi-2024.8.30-py3-none-any.whl.metadata (2.2 kB) 00:49:17 Using cached omero_py-5.19.5-py3-none-any.whl (2.8 MB) 00:49:17 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB) 00:49:17 Using cached urllib3-1.26.20-py2.py3-none-any.whl (144 kB) 00:49:17 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB) 00:49:17 Using cached portalocker-2.10.1-py3-none-any.whl (18 kB) 00:49:17 Using cached PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB) 00:49:17 Using cached requests-2.32.3-py3-none-any.whl (64 kB) 00:49:17 Using cached certifi-2024.8.30-py3-none-any.whl (167 kB) 00:49:17 Using cached charset_normalizer-3.4.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (144 kB) 00:49:17 Using cached idna-3.10-py3-none-any.whl (70 kB) 00:49:17 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py 00:49:18 Attempting uninstall: numpy 00:49:18 Found existing installation: numpy 2.0.2 00:49:18 Uninstalling numpy-2.0.2: 00:49:18 Successfully uninstalled numpy-2.0.2 00:49:22 Successfully installed PyYAML-6.0.2 appdirs-1.4.4 certifi-2024.8.30 charset-normalizer-3.4.0 idna-3.10 numpy-1.26.4 omero-py-5.19.5 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.20 00:49:22 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata 00:49:22 Collecting omero-metadata 00:49:22 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-ug997pq5/omero-metadata_8864a43a74074ec58def1a9efda14cb2 00:49:23 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-ug997pq5/omero-metadata_8864a43a74074ec58def1a9efda14cb2 00:49:24 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit de24788e05a51e95c9c1757bd0ee79be12e16668 00:49:24 Installing build dependencies: started 00:49:27 Installing build dependencies: finished with status 'done' 00:49:27 Getting requirements to build wheel: started 00:49:27 Getting requirements to build wheel: finished with status 'done' 00:49:27 Preparing metadata (pyproject.toml): started 00:49:27 Preparing metadata (pyproject.toml): finished with status 'done' 00:49:27 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.5) 00:49:27 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.2) 00:49:27 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.4) 00:49:29 Collecting pandas (from omero-metadata) 00:49:29 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB) 00:49:29 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.20) 00:49:29 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4) 00:49:29 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0) 00:49:29 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4) 00:49:29 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (11.0.0) 00:49:29 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (3.6.5) 00:49:29 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.32.3) 00:49:29 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1) 00:49:29 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (3.0.1) 00:49:29 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata) 00:49:29 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB) 00:49:29 Collecting pytz>=2020.1 (from pandas->omero-metadata) 00:49:29 Using cached pytz-2024.2-py2.py3-none-any.whl.metadata (22 kB) 00:49:29 Collecting tzdata>=2022.7 (from pandas->omero-metadata) 00:49:29 Using cached tzdata-2024.2-py2.py3-none-any.whl.metadata (1.4 kB) 00:49:29 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0) 00:49:29 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.4.0) 00:49:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.10) 00:49:29 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.8.30) 00:49:29 Using cached pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB) 00:49:30 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB) 00:49:30 Using cached pytz-2024.2-py2.py3-none-any.whl (508 kB) 00:49:30 Using cached tzdata-2024.2-py2.py3-none-any.whl (346 kB) 00:49:30 Building wheels for collected packages: omero-metadata 00:49:30 Building wheel for omero-metadata (pyproject.toml): started 00:49:30 Building wheel for omero-metadata (pyproject.toml): finished with status 'done' 00:49:30 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39187 sha256=6dfe556e41513268d8dc17175b7557e2b075c5668dba6396d75a7e2db9ea9151 00:49:30 Stored in directory: /tmp/pip-ephem-wheel-cache-7w012quv/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d 00:49:30 Successfully built omero-metadata 00:49:30 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata 00:49:35 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2024.2 tzdata-2024.2 00:49:35 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render 00:49:36 Collecting omero-cli-render 00:49:36 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-auv64u__/omero-cli-render_6fd4e349ad6943b39f7bd39f8701a9f4 00:49:36 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-auv64u__/omero-cli-render_6fd4e349ad6943b39f7bd39f8701a9f4 00:49:36 Running command git checkout -b merge_ci --track origin/merge_ci 00:49:37 Switched to a new branch 'merge_ci' 00:49:37 branch 'merge_ci' set up to track 'origin/merge_ci'. 00:49:37 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit 60dcc513e6e3802929cee26f1131598a1d785355 00:49:37 Installing build dependencies: started 00:49:38 Installing build dependencies: finished with status 'done' 00:49:38 Getting requirements to build wheel: started 00:49:39 Getting requirements to build wheel: finished with status 'done' 00:49:39 Preparing metadata (pyproject.toml): started 00:49:39 Preparing metadata (pyproject.toml): finished with status 'done' 00:49:39 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.2) 00:49:39 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.5) 00:49:39 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.20) 00:49:39 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4) 00:49:39 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0) 00:49:39 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4) 00:49:39 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (11.0.0) 00:49:39 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (3.6.5) 00:49:39 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.32.3) 00:49:39 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1) 00:49:39 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.4.0) 00:49:39 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.10) 00:49:39 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.8.30) 00:49:39 Building wheels for collected packages: omero-cli-render 00:49:39 Building wheel for omero-cli-render (pyproject.toml): started 00:49:39 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done' 00:49:39 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.2.dev0-py3-none-any.whl size=18031 sha256=a0edd79c450e187bf36637c3dc16856315a6dbf1e37e2b9a521a0630bd787673 00:49:39 Stored in directory: /tmp/pip-ephem-wheel-cache-4shq6ejt/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994 00:49:39 Successfully built omero-cli-render 00:49:39 Installing collected packages: omero-cli-render 00:49:39 Successfully installed omero-cli-render-0.8.2.dev0 00:49:39 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate 00:49:40 Collecting omero-cli-duplicate 00:49:40 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-5c5p90or/omero-cli-duplicate_6954000572294bffb84c1906f86631ed 00:49:40 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-5c5p90or/omero-cli-duplicate_6954000572294bffb84c1906f86631ed 00:49:41 Running command git checkout -b merge_ci --track origin/merge_ci 00:49:41 Switched to a new branch 'merge_ci' 00:49:41 branch 'merge_ci' set up to track 'origin/merge_ci'. 00:49:41 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 282fb62eab73e2d59bb38dc2419fa354be10d7f7 00:49:41 Installing build dependencies: started 00:49:43 Installing build dependencies: finished with status 'done' 00:49:43 Getting requirements to build wheel: started 00:49:43 Getting requirements to build wheel: finished with status 'done' 00:49:43 Preparing metadata (pyproject.toml): started 00:49:43 Preparing metadata (pyproject.toml): finished with status 'done' 00:49:43 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.5) 00:49:43 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.20) 00:49:43 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4) 00:49:43 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0) 00:49:43 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4) 00:49:43 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (11.0.0) 00:49:43 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.2) 00:49:43 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (3.6.5) 00:49:43 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.32.3) 00:49:43 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1) 00:49:43 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.4.0) 00:49:43 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.10) 00:49:43 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.8.30) 00:49:43 Building wheels for collected packages: omero-cli-duplicate 00:49:43 Building wheel for omero-cli-duplicate (pyproject.toml): started 00:49:43 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done' 00:49:43 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11442 sha256=8a7cf19be040ebbc0f75bdbc3dcbfeb3a859f88f5cbee90688c30c02397ce547 00:49:43 Stored in directory: /tmp/pip-ephem-wheel-cache-unjqp6jx/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84 00:49:43 Successfully built omero-cli-duplicate 00:49:43 Installing collected packages: omero-cli-duplicate 00:49:43 Successfully installed omero-cli-duplicate-0.4.1.dev0 00:49:43 + pip install omero-certificates 00:49:45 Collecting omero-certificates 00:49:45 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB) 00:49:45 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.5) 00:49:45 Collecting distro==1.8.0 (from omero-certificates) 00:49:45 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB) 00:49:45 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.20) 00:49:45 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4) 00:49:45 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0) 00:49:45 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4) 00:49:45 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (11.0.0) 00:49:45 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.2) 00:49:45 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (3.6.5) 00:49:45 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.32.3) 00:49:45 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1) 00:49:45 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.4.0) 00:49:45 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.10) 00:49:45 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.8.30) 00:49:45 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB) 00:49:45 Using cached distro-1.8.0-py3-none-any.whl (20 kB) 00:49:45 Installing collected packages: distro, omero-certificates 00:49:45 Successfully installed distro-1.8.0 omero-certificates-0.3.2 00:49:45 + for x in *.tar.gz 00:49:45 + pip install -U omero_dropbox-5.7.1.dev0.tar.gz 00:49:46 Processing ./omero_dropbox-5.7.1.dev0.tar.gz 00:49:46 Installing build dependencies: started 00:49:47 Installing build dependencies: finished with status 'done' 00:49:47 Getting requirements to build wheel: started 00:49:47 Getting requirements to build wheel: finished with status 'done' 00:49:47 Preparing metadata (pyproject.toml): started 00:49:48 Preparing metadata (pyproject.toml): finished with status 'done' 00:49:48 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.7.1.dev0) (5.19.5) 00:49:48 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.20) 00:49:48 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4) 00:49:48 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0) 00:49:48 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4) 00:49:48 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (11.0.0) 00:49:48 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.2) 00:49:48 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5) 00:49:48 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3) 00:49:48 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1) 00:49:48 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.4.0) 00:49:48 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.10) 00:49:48 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.8.30) 00:49:48 Building wheels for collected packages: omero-dropbox 00:49:48 Building wheel for omero-dropbox (pyproject.toml): started 00:49:48 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done' 00:49:48 Created wheel for omero-dropbox: filename=omero_dropbox-5.7.1.dev0-py3-none-any.whl size=49056 sha256=5455b03625d3b03edcc5f1bcd513caf35dc5051b17958628f686f9e95e1df70e 00:49:48 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079 00:49:48 Successfully built omero-dropbox 00:49:48 Installing collected packages: omero-dropbox 00:49:48 Successfully installed omero-dropbox-5.7.1.dev0 00:49:48 + for x in *.tar.gz 00:49:48 + pip install -U omero_marshal-0.9.1.dev0.tar.gz 00:49:49 Processing ./omero_marshal-0.9.1.dev0.tar.gz 00:49:49 Installing build dependencies: started 00:49:50 Installing build dependencies: finished with status 'done' 00:49:50 Getting requirements to build wheel: started 00:49:51 Getting requirements to build wheel: finished with status 'done' 00:49:51 Preparing metadata (pyproject.toml): started 00:49:51 Preparing metadata (pyproject.toml): finished with status 'done' 00:49:51 Building wheels for collected packages: omero_marshal 00:49:51 Building wheel for omero_marshal (pyproject.toml): started 00:49:51 Building wheel for omero_marshal (pyproject.toml): finished with status 'done' 00:49:51 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88030 sha256=efb89a1315c4d9c40602a4e5252759f9cd1ba3e5de57a235a0741c6f59a8f87b 00:49:51 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f 00:49:51 Successfully built omero_marshal 00:49:51 Installing collected packages: omero_marshal 00:49:51 Successfully installed omero_marshal-0.9.1.dev0 00:49:52 + for x in *.tar.gz 00:49:52 + pip install -U omero_py-5.19.6.dev0.tar.gz 00:49:52 Processing ./omero_py-5.19.6.dev0.tar.gz 00:49:52 Installing build dependencies: started 00:49:54 Installing build dependencies: finished with status 'done' 00:49:54 Getting requirements to build wheel: started 00:49:55 Getting requirements to build wheel: finished with status 'done' 00:49:55 Preparing metadata (pyproject.toml): started 00:49:55 Preparing metadata (pyproject.toml): finished with status 'done' 00:49:55 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.20) 00:49:55 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.4.4) 00:49:55 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.0.0) 00:49:55 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (1.26.4) 00:49:55 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (11.0.0) 00:49:55 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (6.0.2) 00:49:55 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (3.6.5) 00:49:55 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.32.3) 00:49:55 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.6.dev0) (2.10.1) 00:49:55 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.4.0) 00:49:55 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (3.10) 00:49:55 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.6.dev0) (2024.8.30) 00:49:55 Building wheels for collected packages: omero-py 00:49:55 Building wheel for omero-py (pyproject.toml): started 00:49:56 Building wheel for omero-py (pyproject.toml): finished with status 'done' 00:49:56 Created wheel for omero-py: filename=omero_py-5.19.6.dev0-py3-none-any.whl size=2783245 sha256=212966745d163c28a4eabd498162aa6027a3be6cf63208ab3031642253210c46 00:49:56 Stored in directory: /home/omero/.cache/pip/wheels/80/e5/37/a3ff2b54d2fa16a058bb39e8eb6b77b050109520fb9f16931d 00:49:56 Successfully built omero-py 00:49:56 Installing collected packages: omero-py 00:49:56 Attempting uninstall: omero-py 00:49:56 Found existing installation: omero-py 5.19.5 00:49:56 Uninstalling omero-py-5.19.5: 00:49:57 Successfully uninstalled omero-py-5.19.5 00:49:59 Successfully installed omero-py-5.19.6.dev0 00:49:59 + for x in *.tar.gz 00:49:59 + pip install -U omero_scripts-5.8.4.dev0.tar.gz 00:49:59 Processing ./omero_scripts-5.8.4.dev0.tar.gz 00:49:59 Installing build dependencies: started 00:50:01 Installing build dependencies: finished with status 'done' 00:50:01 Getting requirements to build wheel: started 00:50:01 Getting requirements to build wheel: finished with status 'done' 00:50:01 Preparing metadata (pyproject.toml): started 00:50:01 Preparing metadata (pyproject.toml): finished with status 'done' 00:50:01 Building wheels for collected packages: omero-scripts 00:50:01 Building wheel for omero-scripts (pyproject.toml): started 00:50:01 Building wheel for omero-scripts (pyproject.toml): finished with status 'done' 00:50:01 Created wheel for omero-scripts: filename=omero_scripts-5.8.4.dev0-py3-none-any.whl size=116644 sha256=a4706108dbf52ec1227db4292f187e25481f39615890ec5e10a6e58d24be4f0b 00:50:01 Stored in directory: /home/omero/.cache/pip/wheels/50/80/aa/1e175e4f2a5b0a5343d01937a727d990d08c8e12000390ad9c 00:50:01 Successfully built omero-scripts 00:50:02 Installing collected packages: omero-scripts 00:50:02 Successfully installed omero-scripts-5.8.4.dev0 00:50:02 + for x in *.tar.gz 00:50:02 + pip install -U omero_web-5.27.3.dev0.tar.gz 00:50:02 Processing ./omero_web-5.27.3.dev0.tar.gz 00:50:02 Installing build dependencies: started 00:50:05 Installing build dependencies: finished with status 'done' 00:50:05 Getting requirements to build wheel: started 00:50:05 Getting requirements to build wheel: finished with status 'done' 00:50:05 Preparing metadata (pyproject.toml): started 00:50:05 Preparing metadata (pyproject.toml): finished with status 'done' 00:50:05 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (5.19.6.dev0) 00:50:06 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.27.3.dev0) 00:50:06 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB) 00:50:06 Collecting Django<4.3,>=4.2.3 (from omero-web==5.27.3.dev0) 00:50:06 Using cached Django-4.2.16-py3-none-any.whl.metadata (4.1 kB) 00:50:07 Collecting django-pipeline==2.1.0 (from omero-web==5.27.3.dev0) 00:50:07 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB) 00:50:07 Collecting django-cors-headers==3.7.0 (from omero-web==5.27.3.dev0) 00:50:07 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB) 00:50:07 Collecting django-csp (from omero-web==5.27.3.dev0) 00:50:07 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB) 00:50:07 Collecting whitenoise>=5.3.0 (from omero-web==5.27.3.dev0) 00:50:07 Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB) 00:50:07 Collecting gunicorn>=19.3 (from omero-web==5.27.3.dev0) 00:50:07 Using cached gunicorn-23.0.0-py3-none-any.whl.metadata (4.4 kB) 00:50:07 Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (0.9.1.dev0) 00:50:07 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (11.0.0) 00:50:07 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2024.2) 00:50:07 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (2.10.1) 00:50:07 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.27.3.dev0) (24.1) 00:50:07 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0) 00:50:07 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB) 00:50:07 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.27.3.dev0) 00:50:07 Using cached sqlparse-0.5.1-py3-none-any.whl.metadata (3.9 kB) 00:50:07 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.26.20) 00:50:07 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.4.4) 00:50:07 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.0.0) 00:50:07 Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (1.26.4) 00:50:07 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (6.0.2) 00:50:07 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.6.5) 00:50:07 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.27.3.dev0) (2.32.3) 00:50:07 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.27.3.dev0) 00:50:07 Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB) 00:50:07 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.4.0) 00:50:07 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (3.10) 00:50:07 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.27.3.dev0) (2024.8.30) 00:50:07 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB) 00:50:07 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB) 00:50:08 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB) 00:50:08 Using cached Django-4.2.16-py3-none-any.whl (8.0 MB) 00:50:08 Using cached gunicorn-23.0.0-py3-none-any.whl (85 kB) 00:50:08 Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB) 00:50:08 Using cached django_csp-3.8-py3-none-any.whl (17 kB) 00:50:08 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB) 00:50:08 Using cached sqlparse-0.5.1-py3-none-any.whl (44 kB) 00:50:08 Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB) 00:50:08 Building wheels for collected packages: omero-web 00:50:08 Building wheel for omero-web (pyproject.toml): started 00:50:10 Building wheel for omero-web (pyproject.toml): finished with status 'done' 00:50:10 Created wheel for omero-web: filename=omero_web-5.27.3.dev0-py3-none-any.whl size=2766671 sha256=1611cb1207056f0539a142cf96f13ca76b8b0d076114498e6cc3bc019fbe6be1 00:50:10 Stored in directory: /home/omero/.cache/pip/wheels/ae/1e/5f/7127f5403b089e5e8280a504b3d30303e78d1102aa8854c22b 00:50:10 Successfully built omero-web 00:50:10 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web 00:50:12 Successfully installed Django-4.2.16 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-23.0.0 omero-web-5.27.3.dev0 sqlparse-0.5.1 typing-extensions-4.12.2 whitenoise-6.7.0 00:50:13 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py 00:50:14 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file. 00:50:14 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled. 00:50:14 --2024-10-16 00:50:14-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py 00:50:14 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.110.133, 185.199.109.133, ... 00:50:14 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected. 00:50:14 HTTP request sent, awaiting response... 200 OK 00:50:14 Length: 99504 (97K) [text/plain] 00:50:14 Saving to: ‘Figure_To_Pdf.py’ 00:50:14 00:50:14 0K .......... .......... .......... .......... .......... 51% 2.78M 0s 00:50:14 50K .......... .......... .......... .......... ....... 100% 4.13M=0.03s 00:50:14 00:50:14 2024-10-16 00:50:14 (3.30 MB/s) - ‘Figure_To_Pdf.py’ saved [99504/99504] 00:50:14 00:50:14 + chmod 755 Figure_To_Pdf.py 00:50:14 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts 00:50:14 + omero config set omero.db.name OMERO-server 00:50:16 + omero config set omero.db.host pg 00:50:17 + omero config set omero.db.user postgres 00:50:19 + omero config set omero.data.dir /home/omero/omero-server-data 00:50:20 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time% 00:50:21 + omero config set omero.db.poolsize 25 00:50:23 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts 00:50:24 + omero config set omero.security.trustStorePassword changeit 00:50:25 + omero config set omero.mail.config true 00:50:27 + omero config set omero.mail.from qa@openmicroscopy.org.uk 00:50:28 + omero config set omero.mail.host smtp.dundee.ac.uk 00:50:30 + omero config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0 00:50:31 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED' 00:50:32 + omero certificates 00:50:34 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022) 00:50:34 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12 00:50:34 + '[' false = true ']' 00:50:34 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade' 00:50:34 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade 00:50:34 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG dbcommand => upgrade 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG dbhost => localhost 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG dbname => OMERO-server 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG dbpass => omero 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG dbuser => omero 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG rootpass => omero 00:50:35 2024-10-16 00:50:35,050 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server 00:50:35 2024-10-16 00:50:35,050 [omego.extern] INFO Executing : omero version 00:50:36 OMERO.py version: 00:50:36 OMERO.server version: 00:50:36 5.6.3-513-f26570a705-ice36 00:50:36 5.19.6.dev0 00:50:36 2024-10-16 00:50:36,445 [omego.extern] INFO Completed [1.395 s] 00:50:36 2024-10-16 00:50:36,446 [omego.extern] DEBUG Using omero CLI from omero 00:50:36 2024-10-16 00:50:36,446 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ... 00:50:36 2024-10-16 00:50:36,446 [omego.extern] INFO Running [current environment]: omero config get --show-password 00:50:36 2024-10-16 00:50:36,446 [omego.extern] INFO Executing : omero config get --show-password 00:50:37 2024-10-16 00:50:37,757 [omego.extern] INFO Completed [1.311 s] 00:50:37 2024-10-16 00:50:37,757 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 00:50:37 2024-10-16 00:50:37,757 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version 00:50:38 2024-10-16 00:50:38,321 [omego.extern] INFO Completed [0.563 s] 00:50:38 2024-10-16 00:50:38,321 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.4\n' 00:50:38 2024-10-16 00:50:38,321 [ omego.db] INFO psql version: psql (PostgreSQL) 16.4 00:50:38 00:50:38 2024-10-16 00:50:38,321 [omego.extern] INFO Running [current environment]: omero config get --show-password 00:50:38 2024-10-16 00:50:38,321 [omego.extern] INFO Executing : omero config get --show-password 00:50:39 2024-10-16 00:50:39,721 [omego.extern] INFO Completed [1.400 s] 00:50:39 2024-10-16 00:50:39,722 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 00:50:39 2024-10-16 00:50:39,722 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo 00:50:40 2024-10-16 00:50:40,374 [omego.extern] INFO Completed [0.652 s] 00:50:40 2024-10-16 00:50:40,374 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.6") at port "5432".\n' 00:50:40 2024-10-16 00:50:40,374 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 00:50:40 2024-10-16 00:50:40,375 [omego.extern] INFO Running [current environment]: omero config get --show-password 00:50:40 2024-10-16 00:50:40,375 [omego.extern] INFO Executing : omero config get --show-password 00:50:41 2024-10-16 00:50:41,733 [omego.extern] INFO Completed [1.358 s] 00:50:41 2024-10-16 00:50:41,733 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 00:50:41 2024-10-16 00:50:41,733 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 00:50:42 2024-10-16 00:50:42,545 [omego.extern] INFO Completed [0.812 s] 00:50:42 2024-10-16 00:50:42,546 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n' 00:50:42 2024-10-16 00:50:42,546 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0') 00:50:42 2024-10-16 00:50:42,548 [ omego.db] INFO Database is already at OMERO5.4__0 00:50:42 + export LANG=en_US.UTF-8 00:50:42 + LANG=en_US.UTF-8 00:50:42 + export LANGUAGE=en_US:en 00:50:42 + LANGUAGE=en_US:en 00:50:42 + export LC_ALL=en_US.UTF-8 00:50:42 + LC_ALL=en_US.UTF-8 00:50:42 + BUILD_ID=DONT_KILL_ME 00:50:42 + omero admin start 00:50:54 No descriptor given. Using etc/grid/default.xml 00:51:08 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master 00:51:08 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log 00:51:08 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry 00:51:08 Waiting on startup. Use CTRL-C to exit 00:51:08 + omero admin waitup 00:51:09 Waiting on startup. Use CTRL-C to exit 00:51:09 + omero admin diagnostics 00:51:11 00:51:11 ================================================================================ 00:51:11 OMERO Diagnostics (admin) 00:51:11 ================================================================================ 00:51:11 00:51:11 Commands: java -version 11.0.24 (/usr/bin/java) 00:51:11 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python) 00:51:11 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode) 00:51:11 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin) 00:51:11 Commands: psql --version 16.4 (/usr/bin/psql) 00:51:11 Commands: openssl version 3.0.71 (/usr/bin/openssl) 00:51:11 00:51:11 Component: OMERO.py 5.19.6.dev0 00:51:11 Component: OMERO.server 5.6.3-513-f26570a705-ice36 00:51:11 00:51:11 Server: icegridnode running 00:51:11 Server: Blitz-0 active (pid = 3015, enabled) 00:51:11 Server: Indexer-0 active (pid = 3037, enabled) 00:51:11 Server: OMERO.Glacier2 active (pid = 3042, enabled) 00:51:11 Server: OMERO.IceStorm active (pid = 3061, enabled) 00:51:11 Server: Processor-0 activating (enabled) 00:51:11 Server: Tables-0 activating (enabled) 00:51:11 00:51:11 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists 00:51:11 Log files: Blitz-0.log 14.8 KB errors=0 warnings=1 00:51:11 Log files: DropBox.log n/a 00:51:11 Log files: FileServer.log n/a 00:51:11 Log files: Indexer-0.log 2.6 KB 00:51:11 Log files: MonitorServer.log n/a 00:51:11 Log files: Processor-0.log 592 B 00:51:11 Log files: Tables-0.log 841 B 00:51:11 Log files: TestDropBox.log n/a 00:51:11 Log files: master.err 180 B 00:51:11 Log files: master.out 30.1 KB 00:51:11 Log files: Total size 0.05 MB 00:51:11 00:51:11 00:51:11 Environment:OMERO_HOME=(unset) 00:51:11 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server 00:51:11 Environment:OMERO_NODE=(unset) 00:51:11 Environment:OMERO_MASTER=(unset) 00:51:11 Environment:OMERO_USERDIR=(unset) 00:51:11 Environment:OMERO_TMPDIR=(unset) 00:51:11 Environment:PATH=/home/omero/workspace/OMERO-server/.venv3/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:51:11 Environment:PYTHONPATH=(unset) 00:51:11 Environment:ICE_HOME=/opt/ice-3.6.5 00:51:11 Environment:LD_LIBRARY_PATH=(unset) 00:51:11 Environment:DYLD_LIBRARY_PATH=(unset) 00:51:11 00:51:11 OMERO SSL port:4064 00:51:11 OMERO TCP port:4063 00:51:11 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True 00:51:11 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0) 00:51:11 00:51:11 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions 00:51:11 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions 00:51:11 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions 00:51:11 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions 00:51:11 00:51:11 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 16 October 2024 fe856970fb427f7c8daaf5642d3b30f6e32374f1 00:51:11 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 16 October 2024 fe856970fb427f7c8daaf5642d3b30f6e32374f1 00:51:11 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 16 October 2024 fe856970fb427f7c8daaf5642d3b30f6e32374f1 00:51:11 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 16 October 2024 43f7dc399f7ccc6525ef4170a8c43ea01649643b 00:51:11 Jar: lib/server/ome-common.jar OME Common Java 6.0.25-SNAPSHOT 16 October 2024 43f7dc399f7ccc6525ef4170a8c43ea01649643b 00:51:11 Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 16 October 2024 43f7dc399f7ccc6525ef4170a8c43ea01649643b 00:51:11 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 16 October 2024 43f7dc399f7ccc6525ef4170a8c43ea01649643b 00:51:11 Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 16 October 2024 43f7dc399f7ccc6525ef4170a8c43ea01649643b 00:51:11 Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 16 October 2024 43f7dc399f7ccc6525ef4170a8c43ea01649643b 00:51:11 Jar: lib/server/omero-blitz.jar jar 5.7.5-SNAPSHOT 00:51:11 Jar: lib/server/omero-common.jar jar 5.6.8-SNAPSHOT 00:51:11 Jar: lib/server/omero-gateway.jar jar 5.9.4-SNAPSHOT 00:51:11 Jar: lib/server/omero-model.jar jar 5.6.16-SNAPSHOT 00:51:11 Jar: lib/server/omero-renderer.jar jar 5.5.18-SNAPSHOT 00:51:11 Jar: lib/server/omero-romio.jar jar 5.7.8-SNAPSHOT 00:51:11 Jar: lib/server/omero-server.jar jar 5.6.13-SNAPSHOT 00:51:11 + deactivate 00:51:11 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' 00:51:11 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 00:51:11 + export PATH 00:51:11 + unset _OLD_VIRTUAL_PATH 00:51:11 + '[' -n '' ']' 00:51:11 + '[' -n /bin/bash -o -n '' ']' 00:51:11 + hash -r 00:51:11 + '[' -n '' ']' 00:51:11 + unset VIRTUAL_ENV 00:51:11 + '[' '!' '' = nondestructive ']' 00:51:11 + unset -f deactivate 00:51:12 Finished: SUCCESS