11:59:56 Started by user devspace
11:59:56 Running as SYSTEM
11:59:56 Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server
11:59:57 [OMERO-server] $ /bin/bash -xe /tmp/jenkins8007656134897183614.sh
11:59:57 + source /home/settings.env
11:59:57 ++ OMERO_DB_HOST=pg
11:59:57 ++ OMERO_DB_USER=postgres
11:59:57 ++ OMERO_DB_PASS=
11:59:57 ++ OMERO_ROOT_PASS=omero
11:59:57 ++ OMERO_DATA_DIR=/OMERO
11:59:57 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
11:59:57 + OMERO_DB_NAME=OMERO-server
11:59:57 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
11:59:57 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:59:57 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
11:59:57 + OMERO_DATA_DIR=/home/omero/omero-server-data
11:59:57 + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']'
11:59:57 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
11:59:57 ++ deactivate nondestructive
11:59:57 ++ '[' -n '' ']'
11:59:57 ++ '[' -n '' ']'
11:59:57 ++ '[' -n /bin/bash -o -n '' ']'
11:59:57 ++ hash -r
11:59:57 ++ '[' -n '' ']'
11:59:57 ++ unset VIRTUAL_ENV
11:59:57 ++ '[' '!' nondestructive = nondestructive ']'
11:59:57 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
11:59:57 ++ export VIRTUAL_ENV
11:59:57 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
11:59:57 ++ 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
11:59:57 ++ export PATH
11:59:57 ++ '[' -n '' ']'
11:59:57 ++ '[' -z '' ']'
11:59:57 ++ _OLD_VIRTUAL_PS1=
11:59:57 ++ PS1='(.venv3) '
11:59:57 ++ export PS1
11:59:57 ++ '[' -n /bin/bash -o -n '' ']'
11:59:57 ++ hash -r
11:59:57 + omero admin stop
12:00:17 Server not running
12:00:17 + echo not running
12:00:17 not running
12:00:17 + sleep 5
12:00:22 + deactivate
12:00:22 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
12:00:22 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:00:22 + export PATH
12:00:22 + unset _OLD_VIRTUAL_PATH
12:00:22 + '[' -n '' ']'
12:00:22 + '[' -n /bin/bash -o -n '' ']'
12:00:22 + hash -r
12:00:22 + '[' -n '' ']'
12:00:22 + unset VIRTUAL_ENV
12:00:22 + '[' '!' '' = nondestructive ']'
12:00:22 + unset -f deactivate
12:00:22 + rm -rf /home/omero/workspace/OMERO-server/.venv3
12:00:23 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3
12:00:26 + '[' false = true ']'
12:00:26 + echo 'Skipping PURGE_DATA:CleanDbAndRepo'
12:00:26 Skipping PURGE_DATA:CleanDbAndRepo
12:00:26 + rm -rf /home/omero/workspace/OMERO-server/omero-blitz-5.7.3-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero-dropbox-5.6.3.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero-py-5.19.2.dev0.tar.gz /home/omero/workspace/OMERO-server/omero-scripts-5.8.1.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero-web-5.25.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties
12:00:29 Copied 1 artifact from "OMERO-build" build number 12
12:00:29 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 12
12:00:29 Copied 2 artifacts from "OMERO-build-build" build number 12
12:00:29 [OMERO-server] $ /bin/bash -xe /tmp/jenkins7111973254797533920.sh
12:00:29 + source /home/settings.env
12:00:29 ++ OMERO_DB_HOST=pg
12:00:29 ++ OMERO_DB_USER=postgres
12:00:29 ++ OMERO_DB_PASS=
12:00:29 ++ OMERO_ROOT_PASS=omero
12:00:29 ++ OMERO_DATA_DIR=/OMERO
12:00:29 ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR
12:00:29 + OMERO_DB_NAME=OMERO-server
12:00:29 + OMERO_DATA_DIR=/home/omero/omero-server-data
12:00:29 + mkdir -p /home/omero/omero-server-data
12:00:29 + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server
12:00:29 + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:00:29 + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:00:29 + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
12:00:29 + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip
12:00:29 + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
12:00:29 + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties
12:00:29 ++ ls OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
12:00:29 + ZIP=OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
12:00:29 + '[' '!' -z '' ']'
12:00:29 + DIST=OMERO.server-5.6.3-437-ef9fea1806-ice36
12:00:29 + unzip OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
12:00:29 Archive: OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/blitz/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/grid/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/profiles/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/error/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/janelia/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/ncsa_paledit/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/luts/wcif/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/analysis_scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/annotation_scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/export_scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/figure_scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/import_scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/scripts/omero/util_scripts/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/server/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/share/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/share/licenses/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/misc/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__1/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__10/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__11/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__2/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__3/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__4/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__5/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__6/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__7/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__8/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3A__9/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__4/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__5/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__6/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO3__7/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.1__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.2__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.2__0/t/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.3__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4.4__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO4__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.0__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__1/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__2/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__3/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/
12:00:29 creating: OMERO.server-5.6.3-437-ef9fea1806-ice36/var/
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/LICENSE.txt
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/backup.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/blitz/mail-senders.example
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/blitz/mail-server.example
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/build.properties
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/env.bat
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/env.sh
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/hibernate.properties
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/ice.config
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback-cli.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback-indexing-cli.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback-indexing.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/logback.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/mime.types
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/node1.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/node2.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/omero.properties
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/profiles/psql
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/rollover.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/Windows.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/error/maintainance.html
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/README
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/default.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/templates.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/grid/windefault.xml
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/ice.config
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/internal.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/master.cfg
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/templates/robot.template
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/etc/testdropbox.config
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/history.rst
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/OMEZarrReader.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/activation.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aggdesigner-algorithm.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aircompressor.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/annotations.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/antlr.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aopalliance.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/apache-client.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/arns.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/auth.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/avatica-core.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/avatica-metrics.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aws-core.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aws-query-protocol.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/aws-xml-protocol.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/base.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-all.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-anim.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-awt-util.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-bridge.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-codec.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-constants.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-css.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-dom.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-ext.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-extension.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-gui-util.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-gvt.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-i18n.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-parser.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-rasterizer-ext.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-rasterizer.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-script.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-slideshow.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-squiggle-ext.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-squiggle.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svg-dom.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svgbrowser.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svggen.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svgpp.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-svgrasterizer.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-swing.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-transcoder.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-ttf2svg.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-util.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/batik-xml.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/btm.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/bufr.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/c3p0.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/calcite-core.jar
12:00:29 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/lib/client/calcite-linq4j.jar
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12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/psql-footer.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/psql-header.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/schema.sql
12:00:32 inflating: OMERO.server-5.6.3-437-ef9fea1806-ice36/sql/psql/OMERO5.4__0/views.sql
12:00:32 + rm -f OMERO.server-5.6.3-437-ef9fea1806-ice36.zip
12:00:32 + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-437-ef9fea1806-ice36 /home/omero/workspace/OMERO-server/OMERO.server
12:00:32 + source /home/omero/workspace/OMERO-server/.venv3/bin/activate
12:00:32 ++ deactivate nondestructive
12:00:32 ++ '[' -n '' ']'
12:00:32 ++ '[' -n '' ']'
12:00:32 ++ '[' -n /bin/bash -o -n '' ']'
12:00:32 ++ hash -r
12:00:32 ++ '[' -n '' ']'
12:00:32 ++ unset VIRTUAL_ENV
12:00:32 ++ '[' '!' nondestructive = nondestructive ']'
12:00:32 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3
12:00:32 ++ export VIRTUAL_ENV
12:00:32 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:00:32 ++ 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
12:00:32 ++ export PATH
12:00:32 ++ '[' -n '' ']'
12:00:32 ++ '[' -z '' ']'
12:00:32 ++ _OLD_VIRTUAL_PS1=
12:00:32 ++ PS1='(.venv3) '
12:00:32 ++ export PS1
12:00:32 ++ '[' -n /bin/bash -o -n '' ']'
12:00:32 ++ hash -r
12:00:32 + 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
12:00:32 Collecting zeroc-ice==3.6.5
12:00:33 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)
12:00:34 Installing collected packages: zeroc-ice
12:00:35 Successfully installed zeroc-ice-3.6.5
12:00:35 + pip install -U pip future
12:00:35 Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3)
12:00:36 Collecting pip
12:00:37 Using cached pip-24.0-py3-none-any.whl (2.1 MB)
12:00:37 Collecting future
12:00:37 Using cached future-1.0.0-py3-none-any.whl (491 kB)
12:00:37 Installing collected packages: pip, future
12:00:37 Attempting uninstall: pip
12:00:37 Found existing installation: pip 21.2.3
12:00:37 Uninstalling pip-21.2.3:
12:00:37 Successfully uninstalled pip-21.2.3
12:00:38 Successfully installed future-1.0.0 pip-24.0
12:00:38 + pip install markdown
12:00:39 Collecting markdown
12:00:39 Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB)
12:00:39 Collecting importlib-metadata>=4.4 (from markdown)
12:00:39 Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB)
12:00:39 Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown)
12:00:39 Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB)
12:00:39 Using cached Markdown-3.6-py3-none-any.whl (105 kB)
12:00:39 Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB)
12:00:39 Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB)
12:00:40 Installing collected packages: zipp, importlib-metadata, markdown
12:00:40 Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1
12:00:40 + pip install reportlab
12:00:40 Collecting reportlab
12:00:40 Using cached reportlab-4.1.0-py3-none-any.whl.metadata (1.4 kB)
12:00:41 Collecting pillow>=9.0.0 (from reportlab)
12:00:41 Using cached pillow-10.2.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.7 kB)
12:00:41 Collecting chardet (from reportlab)
12:00:41 Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB)
12:00:41 Using cached reportlab-4.1.0-py3-none-any.whl (1.9 MB)
12:00:41 Using cached pillow-10.2.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB)
12:00:41 Using cached chardet-5.2.0-py3-none-any.whl (199 kB)
12:00:41 Installing collected packages: pillow, chardet, reportlab
12:00:43 Successfully installed chardet-5.2.0 pillow-10.2.0 reportlab-4.1.0
12:00:43 + pip install omego
12:00:43 Collecting omego
12:00:43 Using cached omego-0.7.0-py3-none-any.whl
12:00:44 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0)
12:00:44 Collecting yaclifw>=0.1.1 (from omego)
12:00:44 Using cached yaclifw-0.2.0-py3-none-any.whl
12:00:44 Collecting six (from yaclifw>=0.1.1->omego)
12:00:44 Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
12:00:44 Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
12:00:44 Installing collected packages: six, yaclifw, omego
12:00:44 Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0
12:00:44 + pip install tables
12:00:45 Collecting tables
12:00:45 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB)
12:00:45 Collecting numpy>=1.19.0 (from tables)
12:00:45 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB)
12:00:45 Collecting numexpr>=2.6.2 (from tables)
12:00:45 Using cached numexpr-2.9.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB)
12:00:45 Collecting packaging (from tables)
12:00:45 Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB)
12:00:45 Collecting py-cpuinfo (from tables)
12:00:45 Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes)
12:00:45 Collecting blosc2>=2.3.0 (from tables)
12:00:45 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB)
12:00:45 Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables)
12:00:45 Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB)
12:00:45 Collecting msgpack (from blosc2>=2.3.0->tables)
12:00:45 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB)
12:00:45 Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB)
12:00:45 Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB)
12:00:45 Using cached numexpr-2.9.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (374 kB)
12:00:45 Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB)
12:00:46 Using cached packaging-24.0-py3-none-any.whl (53 kB)
12:00:46 Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB)
12:00:46 Using cached ndindex-1.8-py3-none-any.whl (91 kB)
12:00:46 Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB)
12:00:46 Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables
12:00:49 Successfully installed blosc2-2.5.1 msgpack-1.0.8 ndindex-1.8 numexpr-2.9.0 numpy-1.26.4 packaging-24.0 py-cpuinfo-9.0.0 tables-3.9.2
12:00:49 + pip install jinja2
12:00:49 Collecting jinja2
12:00:49 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB)
12:00:50 Collecting MarkupSafe>=2.0 (from jinja2)
12:00:50 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB)
12:00:50 Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB)
12:00:50 Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB)
12:00:50 Installing collected packages: MarkupSafe, jinja2
12:00:50 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3
12:00:50 + pip install omero-py
12:00:50 Collecting omero-py
12:00:50 Using cached omero_py-5.19.1-py3-none-any.whl.metadata (6.6 kB)
12:00:50 Collecting urllib3<2 (from omero-py)
12:00:50 Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
12:00:50 Collecting appdirs (from omero-py)
12:00:50 Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
12:00:50 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0)
12:00:50 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4)
12:00:50 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.2.0)
12:00:51 Collecting PyYAML (from omero-py)
12:00:51 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB)
12:00:51 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5)
12:00:51 Collecting requests (from omero-py)
12:00:51 Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB)
12:00:51 Collecting portalocker (from omero-py)
12:00:51 Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB)
12:00:51 Collecting charset-normalizer<4,>=2 (from requests->omero-py)
12:00:51 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB)
12:00:51 Collecting idna<4,>=2.5 (from requests->omero-py)
12:00:51 Using cached idna-3.6-py3-none-any.whl.metadata (9.9 kB)
12:00:51 Collecting certifi>=2017.4.17 (from requests->omero-py)
12:00:51 Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
12:00:51 Using cached omero_py-5.19.1-py3-none-any.whl (2.8 MB)
12:00:51 Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
12:00:51 Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
12:00:51 Using cached portalocker-2.8.2-py3-none-any.whl (17 kB)
12:00:51 Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB)
12:00:52 Using cached requests-2.31.0-py3-none-any.whl (62 kB)
12:00:52 Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
12:00:52 Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB)
12:00:52 Using cached idna-3.6-py3-none-any.whl (61 kB)
12:00:52 Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py
12:00:54 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.6 omero-py-5.19.1 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18
12:00:54 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata
12:00:55 Collecting omero-metadata
12:00:55 Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-zrnk5cpb/omero-metadata_7d69ccfc59ff452cb3833c57944eb80f
12:00:55 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-zrnk5cpb/omero-metadata_7d69ccfc59ff452cb3833c57944eb80f
12:00:56 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit e618d0642e0162fa87b982fa3e77fd0d3c93cba2
12:00:56 Installing build dependencies: started
12:00:58 Installing build dependencies: finished with status 'done'
12:00:58 Getting requirements to build wheel: started
12:00:58 Getting requirements to build wheel: finished with status 'done'
12:00:58 Installing backend dependencies: started
12:00:59 Installing backend dependencies: finished with status 'done'
12:00:59 Preparing metadata (pyproject.toml): started
12:00:59 Preparing metadata (pyproject.toml): finished with status 'done'
12:00:59 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.1)
12:00:59 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1)
12:00:59 Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3)
12:01:03 Collecting pandas (from omero-metadata)
12:01:03 Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB)
12:01:03 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18)
12:01:03 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4)
12:01:03 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0)
12:01:03 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4)
12:01:03 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (10.2.0)
12:01:03 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)
12:01:03 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0)
12:01:03 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2)
12:01:03 Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5)
12:01:04 Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata)
12:01:04 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
12:01:04 Collecting pytz>=2020.1 (from pandas->omero-metadata)
12:01:04 Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
12:01:05 Collecting tzdata>=2022.7 (from pandas->omero-metadata)
12:01:05 Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB)
12:01:05 Requirement already satisfied: six>=1.5 in ./.venv3/lib/python3.9/site-packages (from python-dateutil>=2.8.2->pandas->omero-metadata) (1.16.0)
12:01:05 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.3.2)
12:01:05 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (3.6)
12:01:05 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.2.2)
12:01:05 Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.0 MB)
12:01:05 Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
12:01:05 Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
12:01:05 Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB)
12:01:05 Building wheels for collected packages: omero-metadata
12:01:05 Building wheel for omero-metadata (pyproject.toml): started
12:01:06 Building wheel for omero-metadata (pyproject.toml): finished with status 'done'
12:01:06 Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=e7dd7ee085551bfdb6330d37f5262808e03feb14c200d691d8e1295d2bae7a70
12:01:06 Stored in directory: /tmp/pip-ephem-wheel-cache-uz4ml3gg/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d
12:01:06 Successfully built omero-metadata
12:01:06 Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata
12:01:11 Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.1 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1
12:01:11 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render
12:01:11 Collecting omero-cli-render
12:01:11 Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-40evyief/omero-cli-render_c797bdbe450447209d1876251953dfd4
12:01:11 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-40evyief/omero-cli-render_c797bdbe450447209d1876251953dfd4
12:01:12 Running command git checkout -b merge_ci --track origin/merge_ci
12:01:13 Switched to a new branch 'merge_ci'
12:01:13 branch 'merge_ci' set up to track 'origin/merge_ci'.
12:01:13 Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit df87d9a78c619e2a60a86ce603456f9656c016bc
12:01:13 Installing build dependencies: started
12:01:15 Installing build dependencies: finished with status 'done'
12:01:15 Getting requirements to build wheel: started
12:01:15 Getting requirements to build wheel: finished with status 'done'
12:01:15 Installing backend dependencies: started
12:01:17 Installing backend dependencies: finished with status 'done'
12:01:17 Preparing metadata (pyproject.toml): started
12:01:17 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:17 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1)
12:01:17 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.1)
12:01:17 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0)
12:01:17 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18)
12:01:17 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4)
12:01:17 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4)
12:01:17 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (10.2.0)
12:01:17 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)
12:01:17 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0)
12:01:17 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2)
12:01:17 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)
12:01:17 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (3.6)
12:01:17 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)
12:01:17 Building wheels for collected packages: omero-cli-render
12:01:17 Building wheel for omero-cli-render (pyproject.toml): started
12:01:17 Building wheel for omero-cli-render (pyproject.toml): finished with status 'done'
12:01:17 Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=008cad13f2ef60437c54486244a3f1feccd7e333febe6a97d0bba562bb59933f
12:01:17 Stored in directory: /tmp/pip-ephem-wheel-cache-glkhnnzd/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994
12:01:17 Successfully built omero-cli-render
12:01:17 Installing collected packages: omero-cli-render
12:01:17 Successfully installed omero-cli-render-0.8.1.dev0
12:01:18 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate
12:01:18 Collecting omero-cli-duplicate
12:01:18 Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-rdymkbaj/omero-cli-duplicate_8f6e055cf49944a78064375c26d6886f
12:01:18 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-rdymkbaj/omero-cli-duplicate_8f6e055cf49944a78064375c26d6886f
12:01:19 Running command git checkout -b merge_ci --track origin/merge_ci
12:01:19 Switched to a new branch 'merge_ci'
12:01:20 branch 'merge_ci' set up to track 'origin/merge_ci'.
12:01:20 Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 51e0fa428acc62a372d0252a74a04765383575c2
12:01:20 Installing build dependencies: started
12:01:21 Installing build dependencies: finished with status 'done'
12:01:21 Getting requirements to build wheel: started
12:01:21 Getting requirements to build wheel: finished with status 'done'
12:01:21 Installing backend dependencies: started
12:01:23 Installing backend dependencies: finished with status 'done'
12:01:23 Preparing metadata (pyproject.toml): started
12:01:23 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:23 Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.1)
12:01:23 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18)
12:01:23 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4)
12:01:23 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0)
12:01:23 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4)
12:01:23 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (10.2.0)
12:01:23 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1)
12:01:23 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)
12:01:23 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0)
12:01:23 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2)
12:01:23 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)
12:01:23 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (3.6)
12:01:23 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)
12:01:23 Building wheels for collected packages: omero-cli-duplicate
12:01:23 Building wheel for omero-cli-duplicate (pyproject.toml): started
12:01:24 Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done'
12:01:24 Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=a24cc2bd3edb6e0320b1115e66880170a6db4f9f0cc93c993c5703152892ab0e
12:01:24 Stored in directory: /tmp/pip-ephem-wheel-cache-2ezaqrxg/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84
12:01:24 Successfully built omero-cli-duplicate
12:01:24 Installing collected packages: omero-cli-duplicate
12:01:24 Successfully installed omero-cli-duplicate-0.4.1.dev0
12:01:24 + pip install omero-certificates
12:01:25 Collecting omero-certificates
12:01:25 Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB)
12:01:25 Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.1)
12:01:25 Collecting distro==1.8.0 (from omero-certificates)
12:01:25 Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB)
12:01:25 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18)
12:01:25 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4)
12:01:25 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0)
12:01:25 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4)
12:01:25 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (10.2.0)
12:01:25 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1)
12:01:25 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)
12:01:25 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0)
12:01:25 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2)
12:01:25 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)
12:01:25 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (3.6)
12:01:25 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)
12:01:25 Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB)
12:01:25 Using cached distro-1.8.0-py3-none-any.whl (20 kB)
12:01:25 Installing collected packages: distro, omero-certificates
12:01:25 Successfully installed distro-1.8.0 omero-certificates-0.3.2
12:01:25 + for x in *.tar.gz
12:01:25 + pip install -U omero-dropbox-5.6.3.dev0.tar.gz
12:01:25 Processing ./omero-dropbox-5.6.3.dev0.tar.gz
12:01:25 Installing build dependencies: started
12:01:27 Installing build dependencies: finished with status 'done'
12:01:27 Getting requirements to build wheel: started
12:01:27 Getting requirements to build wheel: finished with status 'done'
12:01:27 Installing backend dependencies: started
12:01:28 Installing backend dependencies: finished with status 'done'
12:01:28 Preparing metadata (pyproject.toml): started
12:01:29 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:29 Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.1)
12:01:29 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18)
12:01:29 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4)
12:01:29 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0)
12:01:29 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4)
12:01:29 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (10.2.0)
12:01:29 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1)
12:01:29 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)
12:01:29 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0)
12:01:29 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2)
12:01:29 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)
12:01:29 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.6.3.dev0) (3.6)
12:01:29 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)
12:01:29 Building wheels for collected packages: omero-dropbox
12:01:29 Building wheel for omero-dropbox (pyproject.toml): started
12:01:29 Building wheel for omero-dropbox (pyproject.toml): finished with status 'done'
12:01:29 Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=e5a1e00f2e5a9d7459bdf3dec429572999cdeea25edb189b5f070de423e5afa7
12:01:29 Stored in directory: /home/omero/.cache/pip/wheels/a5/63/29/4452e52704e5ad491f397a0013b20ebb9d413ceb110f8101d1
12:01:29 Successfully built omero-dropbox
12:01:29 Installing collected packages: omero-dropbox
12:01:29 Successfully installed omero-dropbox-5.6.3.dev0
12:01:29 + for x in *.tar.gz
12:01:29 + pip install -U omero_marshal-0.9.1.dev0.tar.gz
12:01:30 Processing ./omero_marshal-0.9.1.dev0.tar.gz
12:01:30 Installing build dependencies: started
12:01:31 Installing build dependencies: finished with status 'done'
12:01:31 Getting requirements to build wheel: started
12:01:32 Getting requirements to build wheel: finished with status 'done'
12:01:32 Installing backend dependencies: started
12:01:33 Installing backend dependencies: finished with status 'done'
12:01:33 Preparing metadata (pyproject.toml): started
12:01:33 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:33 Building wheels for collected packages: omero_marshal
12:01:33 Building wheel for omero_marshal (pyproject.toml): started
12:01:33 Building wheel for omero_marshal (pyproject.toml): finished with status 'done'
12:01:33 Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=0926b7923a4d3603b248d741e8cfe9a8f3321bded5d76e4b4cf4b02dcfca8858
12:01:33 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f
12:01:33 Successfully built omero_marshal
12:01:33 Installing collected packages: omero_marshal
12:01:33 Successfully installed omero_marshal-0.9.1.dev0
12:01:33 + for x in *.tar.gz
12:01:33 + pip install -U omero-py-5.19.2.dev0.tar.gz
12:01:34 Processing ./omero-py-5.19.2.dev0.tar.gz
12:01:34 Installing build dependencies: started
12:01:36 Installing build dependencies: finished with status 'done'
12:01:36 Getting requirements to build wheel: started
12:01:36 Getting requirements to build wheel: finished with status 'done'
12:01:36 Installing backend dependencies: started
12:01:37 Installing backend dependencies: finished with status 'done'
12:01:37 Preparing metadata (pyproject.toml): started
12:01:37 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:37 Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.18)
12:01:37 Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.4.4)
12:01:37 Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.0.0)
12:01:37 Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (1.26.4)
12:01:37 Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (10.2.0)
12:01:37 Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (6.0.1)
12:01:37 Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (3.6.5)
12:01:37 Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.31.0)
12:01:37 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.2.dev0) (2.8.2)
12:01:37 Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.3.2)
12:01:37 Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (3.6)
12:01:37 Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.2.dev0) (2024.2.2)
12:01:37 Building wheels for collected packages: omero-py
12:01:37 Building wheel for omero-py (pyproject.toml): started
12:01:38 Building wheel for omero-py (pyproject.toml): finished with status 'done'
12:01:38 Created wheel for omero-py: filename=omero_py-5.19.2.dev0-py3-none-any.whl size=2781853 sha256=2ac6bc1d5e7de71ae1a70631a6b8e03213e05a83298bc16d99691e9fb7b90651
12:01:38 Stored in directory: /home/omero/.cache/pip/wheels/9c/89/be/2493ce5a19b07550997c567708af9d7056cfee1f4f39ac699d
12:01:38 Successfully built omero-py
12:01:39 Installing collected packages: omero-py
12:01:39 Attempting uninstall: omero-py
12:01:39 Found existing installation: omero-py 5.19.1
12:01:39 Uninstalling omero-py-5.19.1:
12:01:39 Successfully uninstalled omero-py-5.19.1
12:01:41 Successfully installed omero-py-5.19.2.dev0
12:01:41 + for x in *.tar.gz
12:01:41 + pip install -U omero-scripts-5.8.1.dev0.tar.gz
12:01:41 Processing ./omero-scripts-5.8.1.dev0.tar.gz
12:01:41 Installing build dependencies: started
12:01:43 Installing build dependencies: finished with status 'done'
12:01:43 Getting requirements to build wheel: started
12:01:43 Getting requirements to build wheel: finished with status 'done'
12:01:43 Installing backend dependencies: started
12:01:44 Installing backend dependencies: finished with status 'done'
12:01:44 Preparing metadata (pyproject.toml): started
12:01:44 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:44 Building wheels for collected packages: omero-scripts
12:01:44 Building wheel for omero-scripts (pyproject.toml): started
12:01:45 Building wheel for omero-scripts (pyproject.toml): finished with status 'done'
12:01:45 Created wheel for omero-scripts: filename=omero_scripts-5.8.1.dev0-py3-none-any.whl size=116570 sha256=b00c99dbb2ffa157022977441575845e4249a7540cd2b608d9b0f23521207586
12:01:45 Stored in directory: /home/omero/.cache/pip/wheels/ef/a0/80/e3393129cedc64a3ad2b8c2fa437d83a3d318cba65d425f5cf
12:01:45 Successfully built omero-scripts
12:01:45 Installing collected packages: omero-scripts
12:01:45 Successfully installed omero-scripts-5.8.1.dev0
12:01:45 + for x in *.tar.gz
12:01:45 + pip install -U omero-web-5.25.1.dev0.tar.gz
12:01:45 Processing ./omero-web-5.25.1.dev0.tar.gz
12:01:46 Installing build dependencies: started
12:01:47 Installing build dependencies: finished with status 'done'
12:01:47 Getting requirements to build wheel: started
12:01:48 Getting requirements to build wheel: finished with status 'done'
12:01:48 Installing backend dependencies: started
12:01:49 Installing backend dependencies: finished with status 'done'
12:01:49 Preparing metadata (pyproject.toml): started
12:01:49 Preparing metadata (pyproject.toml): finished with status 'done'
12:01:49 Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.2.dev0)
12:01:49 Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0)
12:01:49 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB)
12:01:49 Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0)
12:01:49 Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB)
12:01:49 Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0)
12:01:49 Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB)
12:01:49 Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0)
12:01:49 Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB)
12:01:50 Collecting django-csp (from omero-web==5.25.1.dev0)
12:01:50 Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB)
12:01:50 Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0)
12:01:50 Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB)
12:01:50 Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0)
12:01:50 Using cached gunicorn-21.2.0-py3-none-any.whl.metadata (4.1 kB)
12:01:50 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)
12:01:50 Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.2.0)
12:01:50 Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1)
12:01:50 Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2)
12:01:50 Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0)
12:01:50 Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
12:01:50 Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB)
12:01:50 Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
12:01:50 Using cached sqlparse-0.4.4-py3-none-any.whl.metadata (4.0 kB)
12:01:50 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)
12:01:50 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)
12:01:50 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)
12:01:50 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)
12:01:50 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)
12:01:50 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)
12:01:50 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)
12:01:50 Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0)
12:01:50 Using cached typing_extensions-4.10.0-py3-none-any.whl.metadata (3.0 kB)
12:01:50 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)
12:01:50 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) (3.6)
12:01:50 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)
12:01:50 Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB)
12:01:50 Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB)
12:01:50 Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB)
12:01:50 Using cached Django-4.2.11-py3-none-any.whl (8.0 MB)
12:01:51 Using cached gunicorn-21.2.0-py3-none-any.whl (80 kB)
12:01:51 Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB)
12:01:51 Using cached django_csp-3.8-py3-none-any.whl (17 kB)
12:01:51 Using cached asgiref-3.8.1-py3-none-any.whl (23 kB)
12:01:51 Using cached sqlparse-0.4.4-py3-none-any.whl (41 kB)
12:01:51 Using cached typing_extensions-4.10.0-py3-none-any.whl (33 kB)
12:01:51 Building wheels for collected packages: omero-web
12:01:51 Building wheel for omero-web (pyproject.toml): started
12:01:52 Building wheel for omero-web (pyproject.toml): finished with status 'done'
12:01:52 Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2770069 sha256=3511a31db00dcb94f6bbe2c14f4922dfb8d4bfe0c2f17e16bfb9f6904bb476ba
12:01:52 Stored in directory: /home/omero/.cache/pip/wheels/c5/4f/aa/011f4ecfdcda915571d213b068a736fbddf1b36b2e590de11a
12:01:52 Successfully built omero-web
12:01:52 Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web
12:01:55 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-21.2.0 omero-web-5.25.1.dev0 sqlparse-0.4.4 typing-extensions-4.10.0 whitenoise-6.6.0
12:01:55 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
12:01:56 Will not apply HSTS. The HSTS database must be a regular and non-world-writable file.
12:01:56 ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled.
12:01:56 --2024-03-26 12:01:56-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py
12:01:57 Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.110.133, ...
12:01:57 Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected.
12:01:57 HTTP request sent, awaiting response... 200 OK
12:01:57 Length: 94614 (92K) [text/plain]
12:01:57 Saving to: ‘Figure_To_Pdf.py’
12:01:57
12:01:57 0K .......... .......... .......... .......... .......... 54% 3.64M 0s
12:01:57 50K .......... .......... .......... .......... .. 100% 14.0M=0.02s
12:01:57
12:01:57 2024-03-26 12:01:57 (5.51 MB/s) - ‘Figure_To_Pdf.py’ saved [94614/94614]
12:01:57
12:01:57 + chmod 755 Figure_To_Pdf.py
12:01:57 + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts
12:01:57 + omero config set omero.db.name OMERO-server
12:01:58 + omero config set omero.db.host pg
12:02:00 + omero config set omero.db.user postgres
12:02:01 + omero config set omero.data.dir /home/omero/omero-server-data
12:02:02 + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time%
12:02:03 + omero config set omero.db.poolsize 25
12:02:05 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts
12:02:06 + omero config set omero.security.trustStorePassword changeit
12:02:07 + omero config set omero.mail.config true
12:02:08 + omero config set omero.mail.from qa@openmicroscopy.org.uk
12:02:10 + omero config set omero.mail.host smtp.dundee.ac.uk
12:02:11 + omero certificates
12:02:12 OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022)
12:02:12 certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12
12:02:13 + '[' false = true ']'
12:02:13 + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade'
12:02:13 Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade
12:02:13 + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server
12:02:13 2024-03-26 12:02:13,272 [ omego.db] DEBUG dbcommand => upgrade
12:02:13 2024-03-26 12:02:13,272 [ omego.db] DEBUG dbhost => localhost
12:02:13 2024-03-26 12:02:13,272 [ omego.db] DEBUG dbname => OMERO-server
12:02:13 2024-03-26 12:02:13,272 [ omego.db] DEBUG dbpass => omero
12:02:13 2024-03-26 12:02:13,273 [ omego.db] DEBUG dbuser => omero
12:02:13 2024-03-26 12:02:13,273 [ omego.db] DEBUG rootpass => omero
12:02:13 2024-03-26 12:02:13,273 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server
12:02:13 2024-03-26 12:02:13,273 [omego.extern] INFO Executing : omero version
12:02:14 OMERO.py version:
12:02:14 OMERO.server version:
12:02:14 5.6.3-437-ef9fea1806-ice36
12:02:14 5.19.2.dev0
12:02:14 2024-03-26 12:02:14,623 [omego.extern] INFO Completed [1.350 s]
12:02:14 2024-03-26 12:02:14,623 [omego.extern] DEBUG Using omero CLI from omero
12:02:14 2024-03-26 12:02:14,623 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ...
12:02:14 2024-03-26 12:02:14,623 [omego.extern] INFO Running [current environment]: omero config get --show-password
12:02:14 2024-03-26 12:02:14,623 [omego.extern] INFO Executing : omero config get --show-password
12:02:15 2024-03-26 12:02:15,883 [omego.extern] INFO Completed [1.259 s]
12:02:15 2024-03-26 12:02:15,883 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
12:02:15 2024-03-26 12:02:15,883 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version
12:02:16 2024-03-26 12:02:16,220 [omego.extern] INFO Completed [0.337 s]
12:02:16 2024-03-26 12:02:16,220 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n'
12:02:16 2024-03-26 12:02:16,220 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2
12:02:16
12:02:16 2024-03-26 12:02:16,221 [omego.extern] INFO Running [current environment]: omero config get --show-password
12:02:16 2024-03-26 12:02:16,221 [omego.extern] INFO Executing : omero config get --show-password
12:02:17 2024-03-26 12:02:17,481 [omego.extern] INFO Completed [1.260 s]
12:02:17 2024-03-26 12:02:17,481 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
12:02:17 2024-03-26 12:02:17,482 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo
12:02:17 2024-03-26 12:02:17,801 [omego.extern] INFO Completed [0.319 s]
12:02:17 2024-03-26 12:02:17,801 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.10") at port "5432".\n'
12:02:17 2024-03-26 12:02:17,801 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1
12:02:17 2024-03-26 12:02:17,801 [omego.extern] INFO Running [current environment]: omero config get --show-password
12:02:17 2024-03-26 12:02:17,802 [omego.extern] INFO Executing : omero config get --show-password
12:02:19 2024-03-26 12:02:19,056 [omego.extern] INFO Completed [1.255 s]
12:02:19 2024-03-26 12:02:19,057 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero
12:02:19 2024-03-26 12:02:19,057 [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
12:02:19 2024-03-26 12:02:19,985 [omego.extern] INFO Completed [0.928 s]
12:02:19 2024-03-26 12:02:19,986 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n'
12:02:19 2024-03-26 12:02:19,986 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0')
12:02:19 2024-03-26 12:02:19,987 [ omego.db] INFO Database is already at OMERO5.4__0
12:02:20 + export LANG=en_US.UTF-8
12:02:20 + LANG=en_US.UTF-8
12:02:20 + export LANGUAGE=en_US:en
12:02:20 + LANGUAGE=en_US:en
12:02:20 + export LC_ALL=en_US.UTF-8
12:02:20 + LC_ALL=en_US.UTF-8
12:02:20 + BUILD_ID=DONT_KILL_ME
12:02:20 + omero admin start
12:02:30 WARNING: lock files in /home/omero/omero-server-data
12:02:30 ----------------------------------------
12:02:30 /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock
12:02:30 ----------------------------------------
12:02:30
12:02:30 You may want to stop all server processes and remove
12:02:30 these files manually. Lock files can remain after an
12:02:30 abrupt server outage and are especially frequent on
12:02:30 remotely mounted filesystems like NFS.
12:02:30
12:02:30 No descriptor given. Using etc/grid/default.xml
12:02:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master
12:02:39 Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log
12:02:39 Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry
12:02:39 Waiting on startup. Use CTRL-C to exit
12:02:40 + omero admin waitup
12:02:41 Waiting on startup. Use CTRL-C to exit
12:02:41 + omero admin diagnostics
12:02:42
12:02:42 ================================================================================
12:02:42 OMERO Diagnostics (admin)
12:02:42 ================================================================================
12:02:42
12:02:42 Commands: java -version 11.0.22 (/usr/bin/java)
12:02:42 Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python)
12:02:42 Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode)
12:02:42 Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin)
12:02:42 Commands: psql --version 16.2 (/usr/bin/psql)
12:02:42 Commands: openssl version 3.0.71 (/usr/bin/openssl)
12:02:42
12:02:42 Component: OMERO.py 5.19.2.dev0
12:02:42 Component: OMERO.server 5.6.3-437-ef9fea1806-ice36
12:02:42
12:02:42 Server: icegridnode running
12:02:42 Server: Blitz-0 active (pid = 2403, enabled)
12:02:42 Server: DropBox activating (enabled)
12:02:42 Server: FileServer active (pid = 2426, enabled)
12:02:42 Server: Indexer-0 activating (enabled)
12:02:42 Server: MonitorServer active (pid = 2438, enabled)
12:02:42 Server: OMERO.Glacier2 active (pid = 2450, enabled)
12:02:42 Server: OMERO.IceStorm active (pid = 2460, enabled)
12:02:42 Server: PixelData-0 activating (enabled)
12:02:42 Server: Processor-0 activating (enabled)
12:02:43 Server: Tables-0 activating (enabled)
12:02:43 Server: TestDropBox inactive (enabled)
12:02:43
12:02:43 Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists
12:02:43 Log files: Blitz-0.log 14.4 KB errors=0 warnings=1
12:02:43 Log files: DropBox.log 121 B
12:02:43 Log files: FileServer.log 114 B
12:02:43 Log files: Indexer-0.log 358 B
12:02:43 Log files: MonitorServer.log 117 B
12:02:43 Log files: PixelData-0.log 359 B
12:02:43 Log files: Processor-0.log 281 B
12:02:43 Log files: Tables-0.log 281 B
12:02:43 Log files: TestDropBox.log n/a
12:02:43 Log files: master.err 869 B
12:02:43 Log files: master.out 41.5 KB
12:02:43 Log files: Total size 0.06 MB
12:02:43
12:02:43
12:02:43 Environment:OMERO_HOME=(unset)
12:02:43 Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server
12:02:43 Environment:OMERO_NODE=(unset)
12:02:43 Environment:OMERO_MASTER=(unset)
12:02:43 Environment:OMERO_USERDIR=(unset)
12:02:43 Environment:OMERO_TMPDIR=(unset)
12:02:43 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
12:02:43 Environment:PYTHONPATH=(unset)
12:02:43 Environment:ICE_HOME=/opt/ice-3.6.5
12:02:43 Environment:LD_LIBRARY_PATH=(unset)
12:02:43 Environment:DYLD_LIBRARY_PATH=(unset)
12:02:43
12:02:43 OMERO SSL port:4064
12:02:43 OMERO TCP port:4063
12:02:43 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True
12:02:43 OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0)
12:02:43
12:02:43 JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
12:02:43 JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
12:02:43 JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
12:02:43 JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions
12:02:43
12:02:43 Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 26 March 2024 07c328269d8581a69c795d970050bbfa0d250837
12:02:43 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 26 March 2024 07c328269d8581a69c795d970050bbfa0d250837
12:02:43 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 26 March 2024 07c328269d8581a69c795d970050bbfa0d250837
12:02:43 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.2-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
12:02:43 Jar: lib/server/ome-common.jar OME Common Java 6.0.22-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
12:02:43 Jar: lib/server/ome-jai.jar OME JAI 0.1.3-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
12:02:43 Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.3-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
12:02:43 Jar: lib/server/ome-poi.jar OME POI 5.3.9-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
12:02:43 Jar: lib/server/ome-xml.jar OME XML library 6.3.5-SNAPSHOT 26 March 2024 91a64bf111abd41e0e2679b2a94e3df62ec3eef2
12:02:43 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT
12:02:43 Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT
12:02:43 Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT
12:02:43 Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT
12:02:43 Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT
12:02:43 Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT
12:02:43 Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT
12:02:43 + deactivate
12:02:43 + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']'
12:02:43 + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
12:02:43 + export PATH
12:02:43 + unset _OLD_VIRTUAL_PATH
12:02:43 + '[' -n '' ']'
12:02:43 + '[' -n /bin/bash -o -n '' ']'
12:02:43 + hash -r
12:02:43 + '[' -n '' ']'
12:02:43 + unset VIRTUAL_ENV
12:02:43 + '[' '!' '' = nondestructive ']'
12:02:43 + unset -f deactivate
12:02:43 Finished: SUCCESS
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