Started by user devspace Running as SYSTEM Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server [OMERO-server] $ /bin/bash -xe /tmp/jenkins6822745944937635139.sh + source /home/settings.env ++ OMERO_DB_HOST=pg ++ OMERO_DB_USER=postgres ++ OMERO_DB_PASS= ++ OMERO_ROOT_PASS=omero ++ OMERO_DATA_DIR=/OMERO ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR + OMERO_DB_NAME=OMERO-server + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + OMERO_DATA_DIR=/home/omero/omero-server-data + '[' -e /home/omero/workspace/OMERO-server/OMERO.server ']' + source /home/omero/workspace/OMERO-server/.venv3/bin/activate ++ deactivate nondestructive ++ '[' -n '' ']' ++ '[' -n '' ']' ++ '[' -n /bin/bash -o -n '' ']' ++ hash -r ++ '[' -n '' ']' ++ unset VIRTUAL_ENV ++ '[' '!' nondestructive = nondestructive ']' ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 ++ export VIRTUAL_ENV ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ++ 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 ++ export PATH ++ '[' -n '' ']' ++ '[' -z '' ']' ++ _OLD_VIRTUAL_PS1= ++ PS1='(.venv3) ' ++ export PS1 ++ '[' -n /bin/bash -o -n '' ']' ++ hash -r + omero admin stop Server not running + echo not running not running + sleep 5 + deactivate + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin + export PATH + unset _OLD_VIRTUAL_PATH + '[' -n '' ']' + '[' -n /bin/bash -o -n '' ']' + hash -r + '[' -n '' ']' + unset VIRTUAL_ENV + '[' '!' '' = nondestructive ']' + unset -f deactivate + rm -rf /home/omero/workspace/OMERO-server/.venv3 + python3 -m venv /home/omero/workspace/OMERO-server/.venv3 + '[' false = true ']' + echo 'Skipping PURGE_DATA:CleanDbAndRepo' Skipping PURGE_DATA:CleanDbAndRepo + rm -rf /home/omero/workspace/OMERO-server/a.fake /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-5.19.1.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 Copied 1 artifact from "OMERO-build" build number 7 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 7 Copied 2 artifacts from "OMERO-build-build" build number 7 [OMERO-server] $ /bin/bash -xe /tmp/jenkins9596272663132140216.sh + source /home/settings.env ++ OMERO_DB_HOST=pg ++ OMERO_DB_USER=postgres ++ OMERO_DB_PASS= ++ OMERO_ROOT_PASS=omero ++ OMERO_DATA_DIR=/OMERO ++ export OMERO_DB_USER OMERO_DB_PASS OMERO_ROOT_PASS OMERO_DATA_DIR + OMERO_DB_NAME=OMERO-server + OMERO_DATA_DIR=/home/omero/omero-server-data + mkdir -p /home/omero/omero-server-data + OMERO_DIST=/home/omero/workspace/OMERO-server/OMERO.server + export OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server + export ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip + ZIP_FILE=/home/omero/workspace/OMERO-server/omero-blitz-VERSION-python.zip + export VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties + VERSION_PROPERTIES=/home/omero/workspace/OMERO-server/version.properties ++ ls OMERO.server-5.6.3-437-854b934e23-ice36.zip + ZIP=OMERO.server-5.6.3-437-854b934e23-ice36.zip + '[' '!' -z '' ']' + DIST=OMERO.server-5.6.3-437-854b934e23-ice36 + unzip OMERO.server-5.6.3-437-854b934e23-ice36.zip Archive: OMERO.server-5.6.3-437-854b934e23-ice36.zip creating: OMERO.server-5.6.3-437-854b934e23-ice36/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/blitz/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/grid/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/profiles/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/error/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/grid/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/luts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/luts/janelia/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/luts/ncsa_paledit/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/luts/wcif/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/analysis_scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/annotation_scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/export_scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/figure_scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/import_scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/scripts/omero/util_scripts/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/share/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/misc/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__1/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__10/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__11/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__2/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__3/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__4/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__5/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__6/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__7/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__8/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__9/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__4/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__5/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__6/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__7/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.1__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.2__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.2__0/t/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.3__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.4__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.0__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.1__1/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.2__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4DEV__1/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4DEV__2/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4DEV__3/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/ creating: OMERO.server-5.6.3-437-854b934e23-ice36/var/ inflating: OMERO.server-5.6.3-437-854b934e23-ice36/LICENSE.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/backup.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/blitz/mail-senders.example inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/blitz/mail-server.example inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/build.properties inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/env.bat inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/env.sh inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/hibernate.properties inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/ice.config inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/logback-cli.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/logback-indexing-cli.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/logback-indexing.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/logback.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/mime.types inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/node1.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/node2.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/omero.properties inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/profiles/psql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/rollover.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/Windows.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/error/maintainance.html inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/grid/README inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/grid/default.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/grid/templates.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/grid/windefault.xml inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/ice.config inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/internal.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/master.cfg inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/templates/robot.template inflating: OMERO.server-5.6.3-437-854b934e23-ice36/etc/testdropbox.config inflating: OMERO.server-5.6.3-437-854b934e23-ice36/history.rst inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/OMEZarrReader.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/activation.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/aggdesigner-algorithm.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/aircompressor.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/annotations.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/antlr.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/aopalliance.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/apache-client.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/arns.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/auth.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/avatica-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/avatica-metrics.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/aws-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/aws-query-protocol.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/aws-xml-protocol.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/base.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-all.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-anim.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-awt-util.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-bridge.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-codec.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-constants.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-css.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-dom.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-ext.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-extension.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-gui-util.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-gvt.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-i18n.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-parser.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-rasterizer-ext.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-rasterizer.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-script.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-slideshow.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-squiggle-ext.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-squiggle.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-svg-dom.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-svgbrowser.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-svggen.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-svgpp.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-svgrasterizer.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-swing.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-transcoder.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-ttf2svg.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-util.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/batik-xml.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/btm.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/bufr.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/c3p0.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/calcite-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/calcite-linq4j.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/cdm-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/checker-qual.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-beanutils.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-codec.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-collections.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-collections4.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-compiler.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-dbcp2.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-io.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-lang.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-lang3.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-logging.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/commons-pool2.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/dom4j.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/client/ehcache.jar inflating: 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OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/postgresql.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/profiles.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/protobuf-java.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/protocol-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/quartz.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/re2j.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/reactive-streams.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/reflectasm.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/regions.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/rhino.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/s3.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/sdk-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/serializer.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/sketches-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/slf4j-api.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/snakeyaml.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/solr-analysis-extras.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/solr-commons-csv.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/solr-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/solr-solrj.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/specification.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-aop.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-beans.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-context-support.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-context.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-expression.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-jdbc.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-jms.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-ldap-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-messaging.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-orm.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-security-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-security-ldap.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/spring-tx.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/sqlite-jdbc.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/subethasmtp.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/third-party-jackson-core.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/turbojpeg.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/udunits.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/utils.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xalan.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xercesImpl.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xml-apis-ext.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xml-apis.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xmlgraphics-commons.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xmpcore.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/lib/server/xpp3.jar inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/README inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/agpl.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/antlr.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/apache-v1.1.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/apache-v2.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/asm.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/bouncy_castle_license.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/bsd.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/cddl-v1.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/cpl-v10.html inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/crystalclear.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/django.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/dom4j.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/epl-v1.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/fbsd.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/freemarker.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/gpl-v2.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/gpl.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/gtest.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/iconsweets_license.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/jamon.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/jmock.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/jquery.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/jtidy.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/lgpl-3.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/lgpl-v2.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/lgpl-v2.1.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/lgpl-v3.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/lgpl.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/matplotlib.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/mit.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/mpl-v1_0.htm inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/npl-1_1.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/path.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/pil.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/postgresql.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/psf-v2.0.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/psf-v2.5.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/scons.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/slf4j.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/tablelayout.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/which.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/zlib-libpng.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/share/licenses/zpl-v2.1.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/README.txt inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/misc/Makefile inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/misc/current.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/misc/enums.py inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__4/OMERO3__1.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__5/OMERO3__4.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__6/OMERO3__5.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO3__7/OMERO3__6.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/psql-footer.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/psql-header.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/schema.sql inflating: OMERO.server-5.6.3-437-854b934e23-ice36/sql/psql/OMERO5.4__0/views.sql + rm -f OMERO.server-5.6.3-437-854b934e23-ice36.zip + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-437-854b934e23-ice36 /home/omero/workspace/OMERO-server/OMERO.server + source /home/omero/workspace/OMERO-server/.venv3/bin/activate ++ deactivate nondestructive ++ '[' -n '' ']' ++ '[' -n '' ']' ++ '[' -n /bin/bash -o -n '' ']' ++ hash -r ++ '[' -n '' ']' ++ unset VIRTUAL_ENV ++ '[' '!' nondestructive = nondestructive ']' ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-server/.venv3 ++ export VIRTUAL_ENV ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ++ 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 ++ export PATH ++ '[' -n '' ']' ++ '[' -z '' ']' ++ _OLD_VIRTUAL_PS1= ++ PS1='(.venv3) ' ++ export PS1 ++ '[' -n /bin/bash -o -n '' ']' ++ hash -r + 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 Collecting zeroc-ice==3.6.5 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) Installing collected packages: zeroc-ice Successfully installed zeroc-ice-3.6.5 WARNING: You are using pip version 21.2.3; however, version 24.0 is available. You should consider upgrading via the '/home/omero/workspace/OMERO-server/.venv3/bin/python3 -m pip install --upgrade pip' command. + pip install -U pip future Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3) Collecting pip Using cached pip-24.0-py3-none-any.whl (2.1 MB) Collecting future Using cached future-1.0.0-py3-none-any.whl (491 kB) Installing collected packages: pip, future Attempting uninstall: pip Found existing installation: pip 21.2.3 Uninstalling pip-21.2.3: Successfully uninstalled pip-21.2.3 Successfully installed future-1.0.0 pip-24.0 + pip install markdown Collecting markdown Using cached Markdown-3.6-py3-none-any.whl.metadata (7.0 kB) Collecting importlib-metadata>=4.4 (from markdown) Using cached importlib_metadata-7.1.0-py3-none-any.whl.metadata (4.7 kB) Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown) Using cached zipp-3.18.1-py3-none-any.whl.metadata (3.5 kB) Using cached Markdown-3.6-py3-none-any.whl (105 kB) Using cached importlib_metadata-7.1.0-py3-none-any.whl (24 kB) Using cached zipp-3.18.1-py3-none-any.whl (8.2 kB) Installing collected packages: zipp, importlib-metadata, markdown Successfully installed importlib-metadata-7.1.0 markdown-3.6 zipp-3.18.1 + pip install reportlab Collecting reportlab Using cached reportlab-4.1.0-py3-none-any.whl.metadata (1.4 kB) Collecting pillow>=9.0.0 (from reportlab) Using cached pillow-10.2.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.7 kB) Collecting chardet (from reportlab) Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB) Using cached reportlab-4.1.0-py3-none-any.whl (1.9 MB) Using cached pillow-10.2.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB) Using cached chardet-5.2.0-py3-none-any.whl (199 kB) Installing collected packages: pillow, chardet, reportlab Successfully installed chardet-5.2.0 pillow-10.2.0 reportlab-4.1.0 + pip install omego Collecting omego Using cached omego-0.7.0-py3-none-any.whl Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omego) (1.0.0) Collecting yaclifw>=0.1.1 (from omego) Using cached yaclifw-0.2.0-py3-none-any.whl Collecting six (from yaclifw>=0.1.1->omego) Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB) Using cached six-1.16.0-py2.py3-none-any.whl (11 kB) Installing collected packages: six, yaclifw, omego Successfully installed omego-0.7.0 six-1.16.0 yaclifw-0.2.0 + pip install tables Collecting tables Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.3 kB) Collecting numpy>=1.19.0 (from tables) Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB) Collecting numexpr>=2.6.2 (from tables) Using cached numexpr-2.9.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (7.9 kB) Collecting packaging (from tables) Using cached packaging-24.0-py3-none-any.whl.metadata (3.2 kB) Collecting py-cpuinfo (from tables) Using cached py_cpuinfo-9.0.0-py3-none-any.whl.metadata (794 bytes) Collecting blosc2>=2.3.0 (from tables) Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.2 kB) Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables) Using cached ndindex-1.8-py3-none-any.whl.metadata (3.4 kB) Collecting msgpack (from blosc2>=2.3.0->tables) Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (9.1 kB) Using cached tables-3.9.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (7.5 MB) Using cached blosc2-2.5.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.4 MB) Using cached numexpr-2.9.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (374 kB) Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB) Using cached packaging-24.0-py3-none-any.whl (53 kB) Using cached py_cpuinfo-9.0.0-py3-none-any.whl (22 kB) Using cached ndindex-1.8-py3-none-any.whl (91 kB) Using cached msgpack-1.0.8-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (385 kB) Installing collected packages: py-cpuinfo, packaging, numpy, ndindex, msgpack, numexpr, blosc2, tables 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 + pip install jinja2 Collecting jinja2 Using cached Jinja2-3.1.3-py3-none-any.whl.metadata (3.3 kB) Collecting MarkupSafe>=2.0 (from jinja2) Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.0 kB) Using cached Jinja2-3.1.3-py3-none-any.whl (133 kB) Using cached MarkupSafe-2.1.5-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (25 kB) Installing collected packages: MarkupSafe, jinja2 Successfully installed MarkupSafe-2.1.5 jinja2-3.1.3 + pip install omero-py Collecting omero-py Using cached omero_py-5.19.0-py3-none-any.whl.metadata (6.6 kB) Collecting urllib3<2 (from omero-py) Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB) Collecting appdirs (from omero-py) Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.0.0) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py) (1.26.4) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.2.0) Collecting PyYAML (from omero-py) Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (2.1 kB) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py) (3.6.5) Collecting requests (from omero-py) Using cached requests-2.31.0-py3-none-any.whl.metadata (4.6 kB) Collecting portalocker (from omero-py) Using cached portalocker-2.8.2-py3-none-any.whl.metadata (8.5 kB) Collecting charset-normalizer<4,>=2 (from requests->omero-py) Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (33 kB) Collecting idna<4,>=2.5 (from requests->omero-py) Using cached idna-3.6-py3-none-any.whl.metadata (9.9 kB) Collecting certifi>=2017.4.17 (from requests->omero-py) Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB) Using cached omero_py-5.19.0-py3-none-any.whl (2.8 MB) Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB) Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB) Using cached portalocker-2.8.2-py3-none-any.whl (17 kB) Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB) Using cached requests-2.31.0-py3-none-any.whl (62 kB) Using cached certifi-2024.2.2-py3-none-any.whl (163 kB) Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB) Using cached idna-3.6-py3-none-any.whl (61 kB) Installing collected packages: appdirs, urllib3, PyYAML, portalocker, idna, charset-normalizer, certifi, requests, omero-py Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.2.2 charset-normalizer-3.3.2 idna-3.6 omero-py-5.19.0 portalocker-2.8.2 requests-2.31.0 urllib3-1.26.18 + pip install git+https://github.com/snoopycrimecop/omero-metadata.git@merge_ci#egg=omero-metadata Collecting omero-metadata Cloning https://github.com/snoopycrimecop/omero-metadata.git (to revision merge_ci) to /tmp/pip-install-c82w05zg/omero-metadata_29efaa95f6ec4c89992a0c2532a298c8 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-c82w05zg/omero-metadata_29efaa95f6ec4c89992a0c2532a298c8 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 1d3d76cb73401efbb04e5efafc7c7e04aa91a5bc Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (5.19.0) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (6.0.1) Requirement already satisfied: jinja2 in ./.venv3/lib/python3.9/site-packages (from omero-metadata) (3.1.3) Collecting pandas (from omero-metadata) Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (19 kB) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.18) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.0.0) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (1.26.4) 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) 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) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.31.0) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.8.2) Requirement already satisfied: MarkupSafe>=2.0 in ./.venv3/lib/python3.9/site-packages (from jinja2->omero-metadata) (2.1.5) Collecting python-dateutil>=2.8.2 (from pandas->omero-metadata) Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB) Collecting pytz>=2020.1 (from pandas->omero-metadata) Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB) Collecting tzdata>=2022.7 (from pandas->omero-metadata) Using cached tzdata-2024.1-py2.py3-none-any.whl.metadata (1.4 kB) 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) 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) 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) 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) Using cached pandas-2.2.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.0 MB) Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB) Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB) Using cached tzdata-2024.1-py2.py3-none-any.whl (345 kB) Building wheels for collected packages: omero-metadata Building wheel for omero-metadata (pyproject.toml): started Building wheel for omero-metadata (pyproject.toml): finished with status 'done' Created wheel for omero-metadata: filename=omero_metadata-0.12.1.dev0-py3-none-any.whl size=39111 sha256=a315f8a59c00cc54136bd50627e54c800d32a905182e81817c0f5407fdda8f0c Stored in directory: /tmp/pip-ephem-wheel-cache-6o3owei6/wheels/64/09/47/3b86b706f8f6f4bec1b7fd6641d2e4a09814e754fa4c85c82d Successfully built omero-metadata Installing collected packages: pytz, tzdata, python-dateutil, pandas, omero-metadata Successfully installed omero-metadata-0.12.1.dev0 pandas-2.2.1 python-dateutil-2.9.0.post0 pytz-2024.1 tzdata-2024.1 + pip install git+https://github.com/snoopycrimecop/omero-cli-render.git@merge_ci#egg=omero-cli-render Collecting omero-cli-render Cloning https://github.com/snoopycrimecop/omero-cli-render.git (to revision merge_ci) to /tmp/pip-install-2_yx5xwu/omero-cli-render_78884e957b9c43b0b0017693e3ab8cfe Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-2_yx5xwu/omero-cli-render_78884e957b9c43b0b0017693e3ab8cfe Running command git checkout -b merge_ci --track origin/merge_ci Switched to a new branch 'merge_ci' branch 'merge_ci' set up to track 'origin/merge_ci'. Resolved https://github.com/snoopycrimecop/omero-cli-render.git to commit c9d362b6f278aecfcdf112f038624c6b0dae202d Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (6.0.1) Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (5.19.0) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-cli-render) (1.0.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.18) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.4.4) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.4) 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) 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) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.31.0) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.8.2) 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) 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) 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) Building wheels for collected packages: omero-cli-render Building wheel for omero-cli-render (pyproject.toml): started Building wheel for omero-cli-render (pyproject.toml): finished with status 'done' Created wheel for omero-cli-render: filename=omero_cli_render-0.8.1.dev0-py3-none-any.whl size=18018 sha256=bc01312f839abc44705871158a1c5fa4ae6150e71d8b359f19842c76a8ccde3b Stored in directory: /tmp/pip-ephem-wheel-cache-0yraz1si/wheels/58/32/1b/746489b3c7c17a98c6cd7195bdd3b426dd4137caeb1045a994 Successfully built omero-cli-render Installing collected packages: omero-cli-render Successfully installed omero-cli-render-0.8.1.dev0 + pip install git+https://github.com/snoopycrimecop/omero-cli-duplicate.git@merge_ci#egg=omero-cli-duplicate Collecting omero-cli-duplicate Cloning https://github.com/snoopycrimecop/omero-cli-duplicate.git (to revision merge_ci) to /tmp/pip-install-zn8h6w3x/omero-cli-duplicate_62a851751c3a4ff99a2d3287b4202e07 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-zn8h6w3x/omero-cli-duplicate_62a851751c3a4ff99a2d3287b4202e07 Running command git checkout -b merge_ci --track origin/merge_ci Switched to a new branch 'merge_ci' branch 'merge_ci' set up to track 'origin/merge_ci'. Resolved https://github.com/snoopycrimecop/omero-cli-duplicate.git to commit 6a0c1d0cb6c23071709dfe245393cb37747601b9 Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.8 in ./.venv3/lib/python3.9/site-packages (from omero-cli-duplicate) (5.19.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.18) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.0.0) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.4) 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) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (6.0.1) 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) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.31.0) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.8.2) 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) 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) 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) Building wheels for collected packages: omero-cli-duplicate Building wheel for omero-cli-duplicate (pyproject.toml): started Building wheel for omero-cli-duplicate (pyproject.toml): finished with status 'done' Created wheel for omero-cli-duplicate: filename=omero_cli_duplicate-0.4.1.dev0-py3-none-any.whl size=11443 sha256=8ac3116a6a2f5e4ccbc701de0420d4104e10946fd720ff31f3db2697d1908a81 Stored in directory: /tmp/pip-ephem-wheel-cache-pmmbjf8h/wheels/f1/55/ac/0cb8b093a4c417e5157143839711e7613efa64eaa21c29ef84 Successfully built omero-cli-duplicate Installing collected packages: omero-cli-duplicate Successfully installed omero-cli-duplicate-0.4.1.dev0 + pip install omero-certificates Collecting omero-certificates Using cached omero_certificates-0.3.2-py3-none-any.whl.metadata (3.7 kB) Requirement already satisfied: omero-py>=5.6.0 in ./.venv3/lib/python3.9/site-packages (from omero-certificates) (5.19.0) Collecting distro==1.8.0 (from omero-certificates) Using cached distro-1.8.0-py3-none-any.whl.metadata (6.9 kB) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.18) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.0.0) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (1.26.4) 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) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (6.0.1) 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) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.31.0) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.8.2) 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) 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) 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) Using cached omero_certificates-0.3.2-py3-none-any.whl (13 kB) Using cached distro-1.8.0-py3-none-any.whl (20 kB) Installing collected packages: distro, omero-certificates Successfully installed distro-1.8.0 omero-certificates-0.3.2 + for x in *.tar.gz + pip install -U omero-dropbox-5.6.3.dev0.tar.gz Processing ./omero-dropbox-5.6.3.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py in ./.venv3/lib/python3.9/site-packages (from omero-dropbox==5.6.3.dev0) (5.19.0) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.18) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.0.0) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (1.26.4) 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) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (6.0.1) 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) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.31.0) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.6.3.dev0) (2.8.2) 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) 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) 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) Building wheels for collected packages: omero-dropbox Building wheel for omero-dropbox (pyproject.toml): started Building wheel for omero-dropbox (pyproject.toml): finished with status 'done' Created wheel for omero-dropbox: filename=omero_dropbox-5.6.3.dev0-py3-none-any.whl size=49057 sha256=222ffa1e8019cf23e920d7c48af4d4f41eff444c3a7fdd5342de94b79b6c6c03 Stored in directory: /home/omero/.cache/pip/wheels/a5/63/29/4452e52704e5ad491f397a0013b20ebb9d413ceb110f8101d1 Successfully built omero-dropbox Installing collected packages: omero-dropbox Successfully installed omero-dropbox-5.6.3.dev0 + for x in *.tar.gz + pip install -U omero_marshal-0.9.1.dev0.tar.gz Processing ./omero_marshal-0.9.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: omero_marshal Building wheel for omero_marshal (pyproject.toml): started Building wheel for omero_marshal (pyproject.toml): finished with status 'done' Created wheel for omero_marshal: filename=omero_marshal-0.9.1.dev0-py3-none-any.whl size=88031 sha256=05d8321d0c0903dd6a826471d0501ed6180fcacc4f83537734b52ed7f437f5c9 Stored in directory: /home/omero/.cache/pip/wheels/8b/40/f1/dbed071eff57c96e0824ead2a420a7a1a080f7fbdfe0431d7f Successfully built omero_marshal Installing collected packages: omero_marshal Successfully installed omero_marshal-0.9.1.dev0 + for x in *.tar.gz + pip install -U omero-py-5.19.1.dev0.tar.gz Processing ./omero-py-5.19.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (1.26.18) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (1.0.0) Requirement already satisfied: numpy in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (1.26.4) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (10.2.0) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (6.0.1) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (2.31.0) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.1.dev0) (2.8.2) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.1.dev0) (3.3.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.1.dev0) (3.6) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.1.dev0) (2024.2.2) Building wheels for collected packages: omero-py Building wheel for omero-py (pyproject.toml): started Building wheel for omero-py (pyproject.toml): finished with status 'done' Created wheel for omero-py: filename=omero_py-5.19.1.dev0-py3-none-any.whl size=2781680 sha256=0e26d8cc198669d0d3661825b7d7bf31fecedb75cec47f68ff68d2fa3c8d11ac Stored in directory: /home/omero/.cache/pip/wheels/52/ce/ea/f5d1427ab67c2783e3f124f0ebf8311109c5ac331893a591ad Successfully built omero-py Installing collected packages: omero-py Attempting uninstall: omero-py Found existing installation: omero-py 5.19.0 Uninstalling omero-py-5.19.0: Successfully uninstalled omero-py-5.19.0 Successfully installed omero-py-5.19.1.dev0 + for x in *.tar.gz + pip install -U omero-scripts-5.8.1.dev0.tar.gz Processing ./omero-scripts-5.8.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: omero-scripts Building wheel for omero-scripts (pyproject.toml): started Building wheel for omero-scripts (pyproject.toml): finished with status 'done' Created wheel for omero-scripts: filename=omero_scripts-5.8.1.dev0-py3-none-any.whl size=116570 sha256=326f4887a69ca7f932a0069e670a8e39f5e3be80d81c740ac99e2ba21279ba4b Stored in directory: /home/omero/.cache/pip/wheels/ef/a0/80/e3393129cedc64a3ad2b8c2fa437d83a3d318cba65d425f5cf Successfully built omero-scripts Installing collected packages: omero-scripts Successfully installed omero-scripts-5.8.1.dev0 + for x in *.tar.gz + pip install -U omero-web-5.25.1.dev0.tar.gz Processing ./omero-web-5.25.1.dev0.tar.gz Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Installing backend dependencies: started Installing backend dependencies: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Requirement already satisfied: omero-py>=5.19.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (5.19.1.dev0) Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.25.1.dev0) Using cached concurrent_log_handler-0.9.25-py3-none-any.whl.metadata (17 kB) Collecting Django<4.3,>=4.2.3 (from omero-web==5.25.1.dev0) Using cached Django-4.2.11-py3-none-any.whl.metadata (4.2 kB) Collecting django-pipeline==2.1.0 (from omero-web==5.25.1.dev0) Using cached django_pipeline-2.1.0-py3-none-any.whl.metadata (12 kB) Collecting django-cors-headers==3.7.0 (from omero-web==5.25.1.dev0) Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB) Collecting django-csp (from omero-web==5.25.1.dev0) Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB) Collecting whitenoise>=5.3.0 (from omero-web==5.25.1.dev0) Using cached whitenoise-6.6.0-py3-none-any.whl.metadata (3.7 kB) Collecting gunicorn>=19.3 (from omero-web==5.25.1.dev0) Using cached gunicorn-21.2.0-py3-none-any.whl.metadata (4.1 kB) 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) Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (10.2.0) Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2024.1) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (2.8.2) Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.25.1.dev0) (24.0) Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0) Using cached asgiref-3.8.0-py3-none-any.whl.metadata (9.3 kB) Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.25.1.dev0) Using cached sqlparse-0.4.4-py3-none-any.whl.metadata (4.0 kB) 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) 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) 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) 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) 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) 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) 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) Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.25.1.dev0) Using cached typing_extensions-4.10.0-py3-none-any.whl.metadata (3.0 kB) 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) 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) 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) Using cached django_cors_headers-3.7.0-py3-none-any.whl (12 kB) Using cached django_pipeline-2.1.0-py3-none-any.whl (38 kB) Using cached concurrent_log_handler-0.9.25-py3-none-any.whl (25 kB) Using cached Django-4.2.11-py3-none-any.whl (8.0 MB) Using cached gunicorn-21.2.0-py3-none-any.whl (80 kB) Using cached whitenoise-6.6.0-py3-none-any.whl (19 kB) Using cached django_csp-3.8-py3-none-any.whl (17 kB) Using cached asgiref-3.8.0-py3-none-any.whl (23 kB) Using cached sqlparse-0.4.4-py3-none-any.whl (41 kB) Using cached typing_extensions-4.10.0-py3-none-any.whl (33 kB) Building wheels for collected packages: omero-web Building wheel for omero-web (pyproject.toml): started Building wheel for omero-web (pyproject.toml): finished with status 'done' Created wheel for omero-web: filename=omero_web-5.25.1.dev0-py3-none-any.whl size=2769903 sha256=3ac7394579fb3a3557b3648943bef33b113233bcf5f1098f79fe63dfef7fc919 Stored in directory: /home/omero/.cache/pip/wheels/c5/4f/aa/011f4ecfdcda915571d213b068a736fbddf1b36b2e590de11a Successfully built omero-web Installing collected packages: django-pipeline, whitenoise, typing-extensions, sqlparse, gunicorn, concurrent-log-handler, asgiref, Django, django-csp, django-cors-headers, omero-web Successfully installed Django-4.2.11 asgiref-3.8.0 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 + omero config set omero.db.name OMERO-server + omero config set omero.db.host pg + omero config set omero.db.user postgres + omero config set omero.data.dir /home/omero/omero-server-data + omero config set omero.fs.repo.path %user%_%userId%/%thread%//%year%-%month%/%day%/%time% + omero config set omero.db.poolsize 25 + omero config set omero.security.trustStore /etc/pki/ca-trust/extracted/java/cacerts + omero config set omero.security.trustStorePassword changeit + omero config set omero.mail.config true + omero config set omero.mail.from qa@openmicroscopy.org.uk + omero config set omero.mail.host smtp.dundee.ac.uk + omero certificates OpenSSL 3.0.7 1 Nov 2022 (Library: OpenSSL 3.0.7 1 Nov 2022) certificates created: /home/omero/omero-server-data/certs/server.pem /home/omero/omero-server-data/certs/server.p12 + '[' false = true ']' + echo 'Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade' Skipping PURGE_DATA:CleanDbAndRepo. Check for DB upgrade + omego db -vvv upgrade --serverdir /home/omero/workspace/OMERO-server/OMERO.server --dbname OMERO-server 2024-03-21 13:50:19,785 [ omego.db] DEBUG dbcommand => upgrade 2024-03-21 13:50:19,785 [ omego.db] DEBUG dbhost => localhost 2024-03-21 13:50:19,785 [ omego.db] DEBUG dbname => OMERO-server 2024-03-21 13:50:19,785 [ omego.db] DEBUG dbpass => omero 2024-03-21 13:50:19,785 [ omego.db] DEBUG dbuser => omero 2024-03-21 13:50:19,785 [ omego.db] DEBUG rootpass => omero 2024-03-21 13:50:19,785 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server 2024-03-21 13:50:19,785 [omego.extern] INFO Executing : omero version OMERO.py version: OMERO.server version: 5.6.3-437-854b934e23-ice36 5.19.1.dev0 2024-03-21 13:50:21,192 [omego.extern] INFO Completed [1.407 s] 2024-03-21 13:50:21,192 [omego.extern] DEBUG Using omero CLI from omero 2024-03-21 13:50:21,192 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ... 2024-03-21 13:50:21,192 [omego.extern] INFO Running [current environment]: omero config get --show-password 2024-03-21 13:50:21,192 [omego.extern] INFO Executing : omero config get --show-password 2024-03-21 13:50:22,537 [omego.extern] INFO Completed [1.345 s] 2024-03-21 13:50:22,538 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2024-03-21 13:50:22,538 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version 2024-03-21 13:50:22,544 [omego.extern] INFO Completed [0.006 s] 2024-03-21 13:50:22,544 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n' 2024-03-21 13:50:22,544 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2 2024-03-21 13:50:22,544 [omego.extern] INFO Running [current environment]: omero config get --show-password 2024-03-21 13:50:22,544 [omego.extern] INFO Executing : omero config get --show-password 2024-03-21 13:50:23,850 [omego.extern] INFO Completed [1.306 s] 2024-03-21 13:50:23,851 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2024-03-21 13:50:23,851 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo 2024-03-21 13:50:24,010 [omego.extern] INFO Completed [0.159 s] 2024-03-21 13:50:24,010 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.18.0.4") at port "5432".\n' 2024-03-21 13:50:24,010 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 2024-03-21 13:50:24,010 [omego.extern] INFO Running [current environment]: omero config get --show-password 2024-03-21 13:50:24,010 [omego.extern] INFO Executing : omero config get --show-password 2024-03-21 13:50:25,273 [omego.extern] INFO Completed [1.263 s] 2024-03-21 13:50:25,273 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2024-03-21 13:50:25,273 [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 2024-03-21 13:50:25,423 [omego.extern] INFO Completed [0.150 s] 2024-03-21 13:50:25,423 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n' 2024-03-21 13:50:25,423 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0') 2024-03-21 13:50:25,425 [ omego.db] INFO Database is already at OMERO5.4__0 + export LANG=en_US.UTF-8 + LANG=en_US.UTF-8 + export LANGUAGE=en_US:en + LANGUAGE=en_US:en + export LC_ALL=en_US.UTF-8 + LC_ALL=en_US.UTF-8 + BUILD_ID=DONT_KILL_ME + omero admin start WARNING: lock files in /home/omero/omero-server-data ---------------------------------------- /home/omero/omero-server-data/.omero/repository/7097ab62-1c9f-4ba2-a5e5-d5b1f868081e/.lock ---------------------------------------- You may want to stop all server processes and remove these files manually. Lock files can remain after an abrupt server outage and are especially frequent on remotely mounted filesystems like NFS. No descriptor given. Using etc/grid/default.xml Creating /home/omero/workspace/OMERO-server/OMERO.server/var/master Initializing /home/omero/workspace/OMERO-server/OMERO.server/var/log Creating /home/omero/workspace/OMERO-server/OMERO.server/var/registry Waiting on startup. Use CTRL-C to exit + omero admin waitup Waiting on startup. Use CTRL-C to exit + omero admin diagnostics ================================================================================ OMERO Diagnostics (admin) ================================================================================ Commands: java -version 11.0.22 (/usr/bin/java) Commands: python -V 3.9.18 (/home/omero/workspace/OMERO-server/.venv3/bin/python) Commands: icegridnode --version 3.6.5 (/opt/ice-3.6.5/bin/icegridnode) Commands: icegridadmin --version 3.6.5 (/opt/ice-3.6.5/bin/icegridadmin) Commands: psql --version 16.2 (/usr/bin/psql) Commands: openssl version 3.0.71 (/usr/bin/openssl) Component: OMERO.py 5.19.1.dev0 Component: OMERO.server 5.6.3-437-854b934e23-ice36 Server: icegridnode running Server: Blitz-0 active (pid = 2325, enabled) Server: DropBox activating (enabled) Server: FileServer active (pid = 2388, enabled) Server: Indexer-0 activating (enabled) Server: MonitorServer active (pid = 2360, enabled) Server: OMERO.Glacier2 active (pid = 2372, enabled) Server: OMERO.IceStorm active (pid = 2391, enabled) Server: PixelData-0 activating (enabled) Server: Processor-0 activating (enabled) Server: Tables-0 activating (enabled) Server: TestDropBox inactive (enabled) Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists Log files: Blitz-0.log 21.9 KB errors=0 warnings=1 Log files: DropBox.log 121 B Log files: FileServer.log 114 B Log files: Indexer-0.log 114 B Log files: MonitorServer.log 117 B Log files: PixelData-0.log 114 B Log files: Processor-0.log 281 B Log files: Tables-0.log 281 B Log files: TestDropBox.log n/a Log files: master.err 869 B Log files: master.out 41.5 KB Log files: Total size 0.07 MB Environment:OMERO_HOME=(unset) Environment:OMERODIR=/home/omero/workspace/OMERO-server/OMERO.server Environment:OMERO_NODE=(unset) Environment:OMERO_MASTER=(unset) Environment:OMERO_USERDIR=(unset) Environment:OMERO_TMPDIR=(unset) 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 Environment:PYTHONPATH=(unset) Environment:ICE_HOME=/opt/ice-3.6.5 Environment:LD_LIBRARY_PATH=(unset) Environment:DYLD_LIBRARY_PATH=(unset) OMERO SSL port:4064 OMERO TCP port:4063 OMERO data dir:'/home/omero/omero-server-data' Exists? True Is writable? True OMERO temp dir:'/home/omero/omero/tmp' Exists? True Is writable? True (Size: 0) JVM settings: Blitz-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions JVM settings: Indexer-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions JVM settings: PixelData-${index} -Xmx7200m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions JVM settings: Repository-${index} -Xmx4800m -XX:MaxPermSize=1g -XX:+IgnoreUnrecognizedVMOptions Jar: lib/server/formats-api.jar Bio-Formats API 8.0.0-SNAPSHOT 21 March 2024 5c6c3e1ca3aac5f8e55dd5c5693604d128be5965 Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 21 March 2024 5c6c3e1ca3aac5f8e55dd5c5693604d128be5965 Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 21 March 2024 5c6c3e1ca3aac5f8e55dd5c5693604d128be5965 Jar: lib/server/ome-codecs.jar OME Codecs 1.0.1 8 December 2023 4f6bf7551ed2d1dfe8e74c857f6a694da40d1d97 Jar: lib/server/ome-common.jar OME Common Java 6.0.21 7 December 2023 fdace3279d4f6b682c5ba47ae4c49daac687459b Jar: lib/server/ome-jai.jar OME JAI 0.1.3 3 August 2018 489959cb7d24c279249bc08181aa9f734158ca4e Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.2 7 August 2018 68ffca2a95750cbb96f0d11785851aa4a554c0a4 Jar: lib/server/ome-poi.jar OME POI 5.3.7 5 July 2022 79a44040fa896a7c78b4e25da6ba7f4dda204c8e Jar: lib/server/ome-xml.jar OME XML library 6.3.4 7 December 2023 b4c6f4490d762138453225e0499346a6334f00e5 Jar: lib/server/omero-blitz.jar jar 5.7.3-SNAPSHOT Jar: lib/server/omero-common.jar jar 5.6.5-SNAPSHOT Jar: lib/server/omero-gateway.jar jar 5.9.1-SNAPSHOT Jar: lib/server/omero-model.jar jar 5.6.14-SNAPSHOT Jar: lib/server/omero-renderer.jar jar 5.5.16-SNAPSHOT Jar: lib/server/omero-romio.jar jar 5.7.6-SNAPSHOT Jar: lib/server/omero-server.jar jar 5.6.11-SNAPSHOT + deactivate + '[' -n /opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin ']' + PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin + export PATH + unset _OLD_VIRTUAL_PATH + '[' -n '' ']' + '[' -n /bin/bash -o -n '' ']' + hash -r + '[' -n '' ']' + unset VIRTUAL_ENV + '[' '!' '' = nondestructive ']' + unset -f deactivate Finished: SUCCESS