Started by upstream project "Trigger" build number 138 originally caused by: Started by timer Running as SYSTEM Building remotely on omero (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-server [OMERO-server] $ /bin/bash -xe /tmp/jenkins9357221173019355448.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 Waiting on shutdown. Use CTRL-C to exit .+ 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/omero-blitz-5.7.4-SNAPSHOT-python.zip /home/omero/workspace/OMERO-server/omero_dropbox-5.7.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_marshal-0.9.1.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_py-5.19.4.dev0.tar.gz /home/omero/workspace/OMERO-server/omero_scripts-5.8.3.dev0.tar.gz /home/omero/workspace/OMERO-server/OMERO.server /home/omero/workspace/OMERO-server/omero_web-5.26.1.dev0.tar.gz /home/omero/workspace/OMERO-server/version.properties Copied 1 artifact from "OMERO-build" build number 117 Copied 5 artifacts from "OMERO-python-superbuild-build" build number 116 Copied 2 artifacts from "OMERO-build-build" build number 119 [OMERO-server] $ /bin/bash -xe /tmp/jenkins2673420989280554935.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-5.6.3-481-2ed8e3a9e0-ice36.zip + ZIP=OMERO.server-5.6.3-481-2ed8e3a9e0-ice36.zip + '[' '!' -z '' ']' + DIST=OMERO.server-5.6.3-481-2ed8e3a9e0-ice36 + unzip OMERO.server-5.6.3-481-2ed8e3a9e0-ice36.zip Archive: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36.zip creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/blitz/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/grid/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/profiles/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/error/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/grid/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/luts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/luts/janelia/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/luts/ncsa_paledit/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/luts/wcif/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/analysis_scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/annotation_scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/export_scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/figure_scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/import_scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/scripts/omero/util_scripts/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/misc/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__1/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__10/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__11/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__2/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__3/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__4/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__5/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__6/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__7/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__8/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__9/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__4/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__5/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__6/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__7/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.1__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.2__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.2__0/t/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.3__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.4__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.0__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.1__1/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.2__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4DEV__1/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4DEV__2/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4DEV__3/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/ creating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/var/ inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/LICENSE.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/backup.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/blitz/mail-senders.example inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/blitz/mail-server.example inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/build.properties inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/env.bat inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/env.sh inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/hibernate.properties inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/ice.config inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/logback-cli.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/logback-indexing-cli.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/logback-indexing.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/logback.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/mime.types inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/node1.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/node2.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/omero.properties inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/profiles/psql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/rollover.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/Windows.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/error/maintainance.html inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/grid/README inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/grid/default.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/grid/templates.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/grid/windefault.xml inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/ice.config inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/internal.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/master.cfg inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/templates/robot.template inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/etc/testdropbox.config inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/history.rst inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/OMEZarrReader.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/activation.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/aggdesigner-algorithm.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/aircompressor.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/annotations.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/antlr.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/aopalliance.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/avatica-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/avatica-metrics.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/aws-java-sdk-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/aws-java-sdk-kms.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/aws-java-sdk-s3.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/base.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-all.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-anim.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-awt-util.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-bridge.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-codec.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-constants.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-css.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-dom.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-ext.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-extension.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-gui-util.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-gvt.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-i18n.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-parser.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-rasterizer-ext.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-rasterizer.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-script.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-slideshow.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-squiggle-ext.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-squiggle.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-svg-dom.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-svgbrowser.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-svggen.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-svgpp.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-svgrasterizer.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-swing.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-transcoder.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-ttf2svg.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-util.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/batik-xml.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/btm.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/bufr.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/byte-buddy-agent.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/byte-buddy.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/c3p0.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/calcite-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/calcite-linq4j.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/cdm-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/checker-qual.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/client/commons-beanutils.jar 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OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/omero-model.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/omero-renderer.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/omero-romio.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/omero-server.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/pdfbox.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/perf4j.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/postgresql.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/protobuf-java.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/quartz.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/re2j.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/reflectasm.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/rhino.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/serializer.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/sketches-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/slf4j-api.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/snakeyaml.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/solr-analysis-extras.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/solr-commons-csv.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/solr-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/solr-solrj.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/specification.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-aop.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-beans.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-context-support.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-context.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-expression.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-jdbc.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-jms.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-ldap-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-messaging.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-orm.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-security-core.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-security-ldap.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/spring-tx.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/sqlite-jdbc.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/subethasmtp.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/testng.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/turbojpeg.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/udunits.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xalan.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xercesImpl.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xml-apis-ext.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xml-apis.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xmlgraphics-commons.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xmpcore.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/lib/server/xpp3.jar inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/README inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/agpl.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/antlr.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/apache-v1.1.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/apache-v2.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/asm.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/bouncy_castle_license.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/bsd.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/cddl-v1.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/cpl-v10.html inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/crystalclear.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/django.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/dom4j.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/epl-v1.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/fbsd.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/freemarker.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/gpl-v2.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/gpl.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/gtest.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/iconsweets_license.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/jamon.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/jmock.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/jquery.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/jtidy.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/lgpl-3.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/lgpl-v2.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/lgpl-v2.1.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/lgpl-v3.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/lgpl.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/matplotlib.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/mit.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/mpl-v1_0.htm inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/npl-1_1.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/path.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/pil.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/postgresql.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/psf-v2.0.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/psf-v2.5.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/scons.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/slf4j.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/tablelayout.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/which.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/zlib-libpng.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/share/licenses/zpl-v2.1.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/README.txt inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/misc/Makefile inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/misc/current.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/misc/enums.py inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__1/OMERO3__7.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__10/OMERO3A__9.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__11/OMERO3A__10.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__11/OMERO3A__5.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__2/OMERO3A__1.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__3/OMERO3A__2.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__3/OMERO3__5.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__4/OMERO3A__3.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__4/OMERO3__5.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__5/OMERO3A__4.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__6/OMERO3A__5.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__7/OMERO3A__6.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__8/OMERO3A__6.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3A__9/OMERO3A__8.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__4/OMERO3__1.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__5/OMERO3__4.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__6/OMERO3__5.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO3__7/OMERO3__6.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.1__0/OMERO4__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.2__0/OMERO4.1__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.py inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.2__0/t/OMERO4.1__0.test inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.3__0/OMERO4.2__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.3__0/omero-4.2-data-fix.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.4__0/OMERO4.1__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4.4__0/OMERO4.3__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO4__0/OMERO3A__11.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-fix.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.0__0/2014-SV2-empty-passwords-list.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.0__0/OMERO4.4__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.1__1/OMERO5.0__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.1__1/OMERO5.1-delete-and-disable-shares.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.1__1/OMERO5.1-enable-shares.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.1__1/OMERO5.1__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.2__0/OMERO5.1__1.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.2__0/OMERO5.2-delete-and-disable-shares.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.2__0/OMERO5.2-enable-shares.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0-precheck.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/OMERO5.2__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/OMERO5.3-index-files.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/delete-ns-orphans.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/reverse_shape_color_argb_to_rgba.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.3__0/shape_color_argb_to_rgba.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4DEV__1/OMERO5.4DEV__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4DEV__2/OMERO5.4DEV__1.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4DEV__3/OMERO5.4DEV__2.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0-precheck.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/OMERO5.3__0.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1-precheck.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/OMERO5.3__1.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/OMERO5.4DEV__3.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/allow-guest-user-without-password.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/psql-footer.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/psql-header.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/schema.sql inflating: OMERO.server-5.6.3-481-2ed8e3a9e0-ice36/sql/psql/OMERO5.4__0/views.sql + rm -f OMERO.server-5.6.3-481-2ed8e3a9e0-ice36.zip + mv /home/omero/workspace/OMERO-server/OMERO.server-5.6.3-481-2ed8e3a9e0-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 + pip install -U pip future Requirement already satisfied: pip in ./.venv3/lib/python3.9/site-packages (21.2.3) Collecting pip Using cached pip-24.1.2-py3-none-any.whl (1.8 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-24.1.2 + 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-8.0.0-py3-none-any.whl.metadata (4.6 kB) Collecting zipp>=0.5 (from importlib-metadata>=4.4->markdown) Using cached zipp-3.19.2-py3-none-any.whl.metadata (3.6 kB) Using cached Markdown-3.6-py3-none-any.whl (105 kB) Using cached importlib_metadata-8.0.0-py3-none-any.whl (24 kB) Using cached zipp-3.19.2-py3-none-any.whl (9.0 kB) Installing collected packages: zipp, importlib-metadata, markdown Successfully installed importlib-metadata-8.0.0 markdown-3.6 zipp-3.19.2 + pip install reportlab Collecting reportlab Using cached reportlab-4.2.2-py3-none-any.whl.metadata (1.4 kB) Collecting pillow>=9.0.0 (from reportlab) Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB) Collecting chardet (from reportlab) Using cached chardet-5.2.0-py3-none-any.whl.metadata (3.4 kB) Using cached reportlab-4.2.2-py3-none-any.whl (1.9 MB) Using cached pillow-10.4.0-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-10.4.0 reportlab-4.2.2 + 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-2.0.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (60 kB) Collecting numexpr>=2.6.2 (from tables) Using cached numexpr-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (1.2 kB) Collecting packaging (from tables) Using cached packaging-24.1-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-2.10.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (404 kB) Using cached numpy-2.0.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.3 MB) Using cached packaging-24.1-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-2.10.1 numpy-2.0.0 packaging-24.1 py-cpuinfo-9.0.0 tables-3.9.2 + pip install jinja2 Collecting jinja2 Using cached jinja2-3.1.4-py3-none-any.whl.metadata (2.6 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 jinja2-3.1.4-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 jinja2-3.1.4 + pip install omero-py Collecting omero-py Using cached omero_py-5.19.3-py3-none-any.whl.metadata (6.3 kB) Collecting urllib3<2 (from omero-py) Using cached urllib3-1.26.19-py2.py3-none-any.whl.metadata (49 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) Collecting numpy<2 (from omero-py) Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (61 kB) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py) (10.4.0) 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-2.32.3-py3-none-any.whl.metadata (4.6 kB) Collecting portalocker (from omero-py) Using cached portalocker-2.10.1-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-3.7-py3-none-any.whl.metadata (9.9 kB) Collecting certifi>=2017.4.17 (from requests->omero-py) Using cached certifi-2024.7.4-py3-none-any.whl.metadata (2.2 kB) Using cached omero_py-5.19.3-py3-none-any.whl (2.8 MB) Using cached numpy-1.26.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (18.2 MB) Using cached urllib3-1.26.19-py2.py3-none-any.whl (143 kB) Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB) Using cached portalocker-2.10.1-py3-none-any.whl (18 kB) Using cached PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (738 kB) Using cached requests-2.32.3-py3-none-any.whl (64 kB) Using cached certifi-2024.7.4-py3-none-any.whl (162 kB) Using cached charset_normalizer-3.3.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (142 kB) Using cached idna-3.7-py3-none-any.whl (66 kB) Installing collected packages: appdirs, urllib3, PyYAML, portalocker, numpy, idna, charset-normalizer, certifi, requests, omero-py Attempting uninstall: numpy Found existing installation: numpy 2.0.0 Uninstalling numpy-2.0.0: Successfully uninstalled numpy-2.0.0 Successfully installed PyYAML-6.0.1 appdirs-1.4.4 certifi-2024.7.4 charset-normalizer-3.3.2 idna-3.7 numpy-1.26.4 omero-py-5.19.3 portalocker-2.10.1 requests-2.32.3 urllib3-1.26.19 + 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-fxbj1ikw/omero-metadata_1a05d70a77974fadbf0d0bd2f22c1068 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-metadata.git /tmp/pip-install-fxbj1ikw/omero-metadata_1a05d70a77974fadbf0d0bd2f22c1068 Resolved https://github.com/snoopycrimecop/omero-metadata.git to commit 4e85d61a994c3f52c4b79a8684d78980fa824179 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' 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) (5.19.3) 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) (3.1.4) Collecting pandas (from omero-metadata) Using cached pandas-2.2.2-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) (1.26.19) 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<2 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) (10.4.0) 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) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-metadata) (2.10.1) 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) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-metadata) (2024.7.4) Using cached pandas-2.2.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 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=39110 sha256=e4161847e58cd20639697a7aad8408a5fc53ac3b742d914b6aa3ffc8e6a0d736 Stored in directory: /tmp/pip-ephem-wheel-cache-12dq7opi/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-2.2.2 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-cc4vnmf8/omero-cli-render_60b71096c25e487fb8d4a2f1620b0ab3 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-render.git /tmp/pip-install-cc4vnmf8/omero-cli-render_60b71096c25e487fb8d4a2f1620b0ab3 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 bbeebb87cd4d5c5e877a5860edb3cc5d49f00a45 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' 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) (5.19.3) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.26.19) 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: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (1.0.0) Requirement already satisfied: numpy<2 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) (10.4.0) 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) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-cli-render) (2.10.1) 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) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-cli-render) (2024.7.4) 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=18031 sha256=c46490a144de8a7952ae8da3a7c0198a9d009a568fa0957d369580aad8847385 Stored in directory: /tmp/pip-ephem-wheel-cache-tj4uceye/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-cnls096a/omero-cli-duplicate_02f6bcc77a8b47de902d7ad2c42bc783 Running command git clone --filter=blob:none --quiet https://github.com/snoopycrimecop/omero-cli-duplicate.git /tmp/pip-install-cnls096a/omero-cli-duplicate_02f6bcc77a8b47de902d7ad2c42bc783 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 e6a1fa06de5261f923df621e0e797976a12eeff8 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' 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) (5.19.3) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (1.26.19) 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<2 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) (10.4.0) 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) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.8->omero-cli-duplicate) (2.10.1) 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) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.8->omero-cli-duplicate) (2024.7.4) 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=11442 sha256=9967f9070b3ef92397f0997870f76889572d36641047ee1d6f6d4fe39dcd773b Stored in directory: /tmp/pip-ephem-wheel-cache-nsicrr8i/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) (5.19.3) 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) (1.26.19) 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<2 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) (10.4.0) 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) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.6.0->omero-certificates) (2.10.1) 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) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.6.0->omero-certificates) (2024.7.4) 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-5.7.1.dev0.tar.gz Processing ./omero_dropbox-5.7.1.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' 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==5.7.1.dev0) (5.19.3) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.19) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.0.0) Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (1.26.4) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (10.4.0) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (6.0.1) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py->omero-dropbox==5.7.1.dev0) (2.10.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.3.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py->omero-dropbox==5.7.1.dev0) (2024.7.4) 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-5.7.1.dev0-py3-none-any.whl size=49055 sha256=890732d169a8b07bb7f546ef85de2ad018fc0a204b7ff051a0229b9164564d56 Stored in directory: /home/omero/.cache/pip/wheels/eb/76/85/58476368b176f793423899407c96293c22f9c9edc28cf54079 Successfully built omero-dropbox Installing collected packages: omero-dropbox Successfully installed omero-dropbox-5.7.1.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' 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=6593e59f3231e5eaf75ab670d08e03aa0192d276833cb4873e8b5960d2081254 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-5.19.4.dev0.tar.gz Processing ./omero_py-5.19.4.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' 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==5.19.4.dev0) (1.26.19) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (1.0.0) Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (1.26.4) Requirement already satisfied: Pillow>=10.0.0 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (10.4.0) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (6.0.1) Requirement already satisfied: zeroc-ice<3.7,>=3.6.5 in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (2.32.3) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-py==5.19.4.dev0) (2.10.1) Requirement already satisfied: charset-normalizer<4,>=2 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.4.dev0) (3.3.2) Requirement already satisfied: idna<4,>=2.5 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.4.dev0) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py==5.19.4.dev0) (2024.7.4) 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-5.19.4.dev0-py3-none-any.whl size=2782904 sha256=dece5fb88a4d8890158c56c3f494f6f06d573fd87806ce760a8802855338ba50 Stored in directory: /home/omero/.cache/pip/wheels/f4/9e/a5/caf57b3ab5be95b791b32331e833a135756ff787a5d5189ab9 Successfully built omero-py Installing collected packages: omero-py Attempting uninstall: omero-py Found existing installation: omero-py 5.19.3 Uninstalling omero-py-5.19.3: Successfully uninstalled omero-py-5.19.3 Successfully installed omero-py-5.19.4.dev0 + for x in *.tar.gz + pip install -U omero_scripts-5.8.3.dev0.tar.gz Processing ./omero_scripts-5.8.3.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' 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-5.8.3.dev0-py3-none-any.whl size=116554 sha256=4b37a0ce081ac98d7227424704834fa14c79f178ba1106f579a3f3a0cfd0a896 Stored in directory: /home/omero/.cache/pip/wheels/73/b0/4e/389698a580647ec1c43b5854d9aab45dff88e4662759ee2446 Successfully built omero-scripts Installing collected packages: omero-scripts Successfully installed omero-scripts-5.8.3.dev0 + for x in *.tar.gz + pip install -U omero_web-5.26.1.dev0.tar.gz Processing ./omero_web-5.26.1.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' 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==5.26.1.dev0) (5.19.4.dev0) Collecting concurrent-log-handler>=0.9.20 (from omero-web==5.26.1.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==5.26.1.dev0) Using cached Django-4.2.14-py3-none-any.whl.metadata (4.1 kB) Collecting django-pipeline==2.1.0 (from omero-web==5.26.1.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==5.26.1.dev0) Using cached django_cors_headers-3.7.0-py3-none-any.whl.metadata (15 kB) Collecting django-csp (from omero-web==5.26.1.dev0) Using cached django_csp-3.8-py3-none-any.whl.metadata (2.7 kB) Collecting whitenoise>=5.3.0 (from omero-web==5.26.1.dev0) Using cached whitenoise-6.7.0-py3-none-any.whl.metadata (3.7 kB) Collecting gunicorn>=19.3 (from omero-web==5.26.1.dev0) Using cached gunicorn-22.0.0-py3-none-any.whl.metadata (4.4 kB) Requirement already satisfied: omero-marshal>=0.7.0 in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (0.9.1.dev0) Requirement already satisfied: Pillow in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (10.4.0) Requirement already satisfied: pytz in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2024.1) Requirement already satisfied: portalocker in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (2.10.1) Requirement already satisfied: packaging in ./.venv3/lib/python3.9/site-packages (from omero-web==5.26.1.dev0) (24.1) Collecting asgiref<4,>=3.6.0 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0) Using cached asgiref-3.8.1-py3-none-any.whl.metadata (9.3 kB) Collecting sqlparse>=0.3.1 (from Django<4.3,>=4.2.3->omero-web==5.26.1.dev0) Using cached sqlparse-0.5.0-py3-none-any.whl.metadata (3.9 kB) Requirement already satisfied: urllib3<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.19) Requirement already satisfied: appdirs in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.4.4) Requirement already satisfied: future in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.0.0) Requirement already satisfied: numpy<2 in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (1.26.4) Requirement already satisfied: PyYAML in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.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==5.26.1.dev0) (3.6.5) Requirement already satisfied: requests in ./.venv3/lib/python3.9/site-packages (from omero-py>=5.19.0->omero-web==5.26.1.dev0) (2.32.3) Collecting typing-extensions>=4 (from asgiref<4,>=3.6.0->Django<4.3,>=4.2.3->omero-web==5.26.1.dev0) Using cached typing_extensions-4.12.2-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==5.26.1.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==5.26.1.dev0) (3.7) Requirement already satisfied: certifi>=2017.4.17 in ./.venv3/lib/python3.9/site-packages (from requests->omero-py>=5.19.0->omero-web==5.26.1.dev0) (2024.7.4) 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-4.2.14-py3-none-any.whl (8.0 MB) Using cached gunicorn-22.0.0-py3-none-any.whl (84 kB) Using cached whitenoise-6.7.0-py3-none-any.whl (19 kB) Using cached django_csp-3.8-py3-none-any.whl (17 kB) Using cached asgiref-3.8.1-py3-none-any.whl (23 kB) Using cached sqlparse-0.5.0-py3-none-any.whl (43 kB) Using cached typing_extensions-4.12.2-py3-none-any.whl (37 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-5.26.1.dev0-py3-none-any.whl size=2765252 sha256=3e2f9fcb063f59c03702ee96c45d375a306e62ca2aa2a47dd858c9f5ef49394c Stored in directory: /home/omero/.cache/pip/wheels/39/0a/67/1d8a66c1c2b5dc08464077685312666fac69440af8767d0453 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-4.2.14 asgiref-3.8.1 concurrent-log-handler-0.9.25 django-cors-headers-3.7.0 django-csp-3.8 django-pipeline-2.1.0 gunicorn-22.0.0 omero-web-5.26.1.dev0 sqlparse-0.5.0 typing-extensions-4.12.2 whitenoise-6.7.0 + wget https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py Will not apply HSTS. The HSTS database must be a regular and non-world-writable file. ERROR: could not open HSTS store at '/home/omero/.wget-hsts'. HSTS will be disabled. --2024-07-15 00:50:12-- https://raw.githubusercontent.com/snoopycrimecop/omero-figure/merge_ci/omero_figure/scripts/omero/figure_scripts/Figure_To_Pdf.py Resolving raw.githubusercontent.com (raw.githubusercontent.com)... 185.199.108.133, 185.199.109.133, 185.199.111.133, ... Connecting to raw.githubusercontent.com (raw.githubusercontent.com)|185.199.108.133|:443... connected. HTTP request sent, awaiting response... 200 OK Length: 95703 (93K) [text/plain] Saving to: ‘Figure_To_Pdf.py’ 0K .......... .......... .......... .......... .......... 53% 2.60M 0s 50K .......... .......... .......... .......... ... 100% 4.14M=0.03s 2024-07-15 00:50:13 (3.14 MB/s) - ‘Figure_To_Pdf.py’ saved [95703/95703] + chmod 755 Figure_To_Pdf.py + mv Figure_To_Pdf.py /home/omero/workspace/OMERO-server/OMERO.server/lib/scripts/omero/figure_scripts + 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 config set omero.server.nodedescriptors master:Blitz-0,Indexer-0,Processor-0,Storm,Tables-0 + omero config set omero.jvmcfg.append '--add-opens java.base/java.lang=ALL-UNNAMED --add-exports java.naming/com.sun.jndi.ldap=ALL-UNNAMED' + 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 2024-07-15 00:50:44,761 [ omego.db] DEBUG dbcommand => upgrade 2024-07-15 00:50:44,762 [ omego.db] DEBUG dbhost => localhost 2024-07-15 00:50:44,762 [ omego.db] DEBUG dbname => OMERO-server 2024-07-15 00:50:44,762 [ omego.db] DEBUG dbpass => omero 2024-07-15 00:50:44,762 [ omego.db] DEBUG dbuser => omero 2024-07-15 00:50:44,762 [ omego.db] DEBUG rootpass => omero 2024-07-15 00:50:44,762 [ omego.db] DEBUG serverdir => /home/omero/workspace/OMERO-server/OMERO.server 2024-07-15 00:50:44,762 [omego.extern] INFO Executing : omero version OMERO.py version: OMERO.server version: 5.6.3-481-2ed8e3a9e0-ice36 5.19.4.dev0 2024-07-15 00:50:46,669 [omego.extern] INFO Completed [1.907 s] 2024-07-15 00:50:46,670 [omego.extern] DEBUG Using omero CLI from omero 2024-07-15 00:50:46,670 [ omego.db] INFO DbAdmin: DbAdmin /home/omero/workspace/OMERO-server/OMERO.server ... 2024-07-15 00:50:46,670 [omego.extern] INFO Running [current environment]: omero config get --show-password 2024-07-15 00:50:46,670 [omego.extern] INFO Executing : omero config get --show-password 2024-07-15 00:50:48,458 [omego.extern] INFO Completed [1.788 s] 2024-07-15 00:50:48,459 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2024-07-15 00:50:48,459 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t --version 2024-07-15 00:50:48,626 [omego.extern] INFO Completed [0.168 s] 2024-07-15 00:50:48,627 [ omego.db] DEBUG stdout: b'psql (PostgreSQL) 16.2\n' 2024-07-15 00:50:48,627 [ omego.db] INFO psql version: psql (PostgreSQL) 16.2 2024-07-15 00:50:48,627 [omego.extern] INFO Running [current environment]: omero config get --show-password 2024-07-15 00:50:48,627 [omego.extern] INFO Executing : omero config get --show-password 2024-07-15 00:50:50,348 [omego.extern] INFO Completed [1.721 s] 2024-07-15 00:50:50,349 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2024-07-15 00:50:50,349 [omego.extern] INFO Executing [custom environment]: psql -v ON_ERROR_STOP=on -d OMERO-server -h pg -U postgres -w -A -t -c \conninfo 2024-07-15 00:50:50,443 [omego.extern] INFO Completed [0.094 s] 2024-07-15 00:50:50,444 [ omego.db] DEBUG stdout: b'You are connected to database "OMERO-server" as user "postgres" on host "pg" (address "172.19.0.9") at port "5432".\n' 2024-07-15 00:50:50,444 [ omego.db] DEBUG Executing query: SELECT currentversion, currentpatch FROM dbpatch ORDER BY id DESC LIMIT 1 2024-07-15 00:50:50,444 [omego.extern] INFO Running [current environment]: omero config get --show-password 2024-07-15 00:50:50,444 [omego.extern] INFO Executing : omero config get --show-password 2024-07-15 00:50:52,575 [omego.extern] INFO Completed [2.131 s] 2024-07-15 00:50:52,575 [ omego.db] INFO Failed to lookup parameter omero.db.pass, using omero 2024-07-15 00:50:52,576 [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 2024-07-15 00:50:52,656 [omego.extern] INFO Completed [0.080 s] 2024-07-15 00:50:52,656 [ omego.db] DEBUG stdout: b'OMERO5.4|0\n' 2024-07-15 00:50:52,656 [ omego.db] INFO Current omero db version: ('OMERO5.4', '0') 2024-07-15 00:50:52,659 [ 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 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 5.19.4.dev0 Component: OMERO.server 5.6.3-481-2ed8e3a9e0-ice36 Server: icegridnode running Server: Blitz-0 active (pid = 72135, enabled) Server: Indexer-0 active (pid = 72159, enabled) Server: OMERO.Glacier2 active (pid = 72162, enabled) Server: OMERO.IceStorm active (pid = 72169, enabled) Server: Processor-0 activating (enabled) Server: Tables-0 activating (enabled) Log dir: /home/omero/workspace/OMERO-server/OMERO.server/var/log exists Log files: Blitz-0.log 21.7 KB errors=0 warnings=1 Log files: DropBox.log n/a Log files: FileServer.log n/a Log files: Indexer-0.log 2.6 KB Log files: MonitorServer.log n/a Log files: Processor-0.log 592 B Log files: Tables-0.log 841 B Log files: TestDropBox.log n/a Log files: master.err 180 B Log files: master.out 30.1 KB Log files: Total size 0.06 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 15 July 2024 6447b154b90fafd9494336caddcf3c77dab3eb0b Jar: lib/server/formats-bsd.jar BSD Bio-Formats readers and writers 8.0.0-SNAPSHOT 15 July 2024 6447b154b90fafd9494336caddcf3c77dab3eb0b Jar: lib/server/formats-gpl.jar Bio-Formats library 8.0.0-SNAPSHOT 15 July 2024 6447b154b90fafd9494336caddcf3c77dab3eb0b Jar: lib/server/ome-codecs.jar OME Codecs 1.0.4-SNAPSHOT 15 July 2024 52468878b306c8890ce4ae0903a9b40f1232da3e Jar: lib/server/ome-common.jar OME Common Java 6.0.23-SNAPSHOT 15 July 2024 52468878b306c8890ce4ae0903a9b40f1232da3e Jar: lib/server/ome-jai.jar OME JAI 0.1.5-SNAPSHOT 15 July 2024 52468878b306c8890ce4ae0903a9b40f1232da3e Jar: lib/server/ome-mdbtools.jar MDB Tools (Java port) 5.3.4-SNAPSHOT 15 July 2024 52468878b306c8890ce4ae0903a9b40f1232da3e Jar: lib/server/ome-poi.jar OME POI 5.3.10-SNAPSHOT 15 July 2024 52468878b306c8890ce4ae0903a9b40f1232da3e Jar: lib/server/ome-xml.jar OME XML library 6.3.7-SNAPSHOT 15 July 2024 52468878b306c8890ce4ae0903a9b40f1232da3e Jar: lib/server/omero-blitz.jar jar 5.7.4-SNAPSHOT Jar: lib/server/omero-common.jar jar 5.6.7-SNAPSHOT Jar: lib/server/omero-gateway.jar jar 5.9.2-SNAPSHOT Jar: lib/server/omero-model.jar jar 5.6.15-SNAPSHOT Jar: lib/server/omero-renderer.jar jar 5.5.17-SNAPSHOT Jar: lib/server/omero-romio.jar jar 5.7.7-SNAPSHOT Jar: lib/server/omero-server.jar jar 5.6.12-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