Skip to content

Console Output

00:39:23 Started by upstream project "Trigger" build number 235
00:39:23 originally caused by:
00:39:23  Started by timer
00:39:23 Running as SYSTEM
00:39:23 Building remotely on testintegration (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-push
00:39:23 The recommended git tool is: NONE
00:39:23 No credentials specified
00:39:23  > git rev-parse --resolve-git-dir /home/omero/workspace/OMERO-push/src/.git # timeout=10
00:39:24 Fetching changes from the remote Git repository
00:39:24  > git config remote.origin.url https://github.com/ome/openmicroscopy.git # timeout=10
00:39:24 Fetching upstream changes from https://github.com/ome/openmicroscopy.git
00:39:24  > git --version # timeout=10
00:39:24  > git --version # 'git version 2.43.5'
00:39:24  > git fetch --tags --force --progress -- https://github.com/ome/openmicroscopy.git +refs/heads/*:refs/remotes/origin/* # timeout=30
00:39:26  > git rev-parse origin/develop^{commit} # timeout=10
00:39:26 Checking out Revision e9fe27633007773042c840e356c5ff37ec03f550 (origin/develop)
00:39:26  > git config core.sparsecheckout # timeout=10
00:39:26  > git checkout -f e9fe27633007773042c840e356c5ff37ec03f550 # timeout=30
00:39:26 Commit message: "Merge pull request #6407 from will-moore/history_5.6.13"
00:39:26  > git rev-list --no-walk e9fe27633007773042c840e356c5ff37ec03f550 # timeout=10
00:39:26 Cleaning workspace
00:39:26  > git rev-parse --verify HEAD # timeout=10
00:39:26 Resetting working tree
00:39:26  > git reset --hard # timeout=10
00:39:26  > git clean -fdx # timeout=10
00:39:27 Copied 1 artifact from "OMERO-python-superbuild-build" build number 190
00:39:27 [OMERO-push] $ /bin/bash -xe /tmp/jenkins10592163199550073063.sh
00:39:27 + python3 -mvenv venv
00:39:29 + source /home/omero/workspace/OMERO-push/venv/bin/activate
00:39:29 ++ deactivate nondestructive
00:39:29 ++ '[' -n '' ']'
00:39:29 ++ '[' -n '' ']'
00:39:29 ++ '[' -n /bin/bash -o -n '' ']'
00:39:29 ++ hash -r
00:39:29 ++ '[' -n '' ']'
00:39:29 ++ unset VIRTUAL_ENV
00:39:29 ++ '[' '!' nondestructive = nondestructive ']'
00:39:29 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-push/venv
00:39:29 ++ export VIRTUAL_ENV
00:39:29 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:39:29 ++ PATH=/home/omero/workspace/OMERO-push/venv/bin:/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
00:39:29 ++ export PATH
00:39:29 ++ '[' -n '' ']'
00:39:29 ++ '[' -z '' ']'
00:39:29 ++ _OLD_VIRTUAL_PS1=
00:39:29 ++ PS1='(venv) '
00:39:29 ++ export PS1
00:39:29 ++ '[' -n /bin/bash -o -n '' ']'
00:39:29 ++ hash -r
00:39:29 + pip install -U pip
00:39:34 Requirement already satisfied: pip in ./venv/lib/python3.9/site-packages (24.2)
00:39:35 + pip install -U scc
00:39:35 Requirement already satisfied: scc in ./venv/lib/python3.9/site-packages (0.20.0)
00:39:35 Requirement already satisfied: PyGithub>=1.54 in ./venv/lib/python3.9/site-packages (from scc) (2.2.0)
00:39:35 Requirement already satisfied: PyYAML>=5.1 in ./venv/lib/python3.9/site-packages (from scc) (6.0.1)
00:39:35 Requirement already satisfied: future in ./venv/lib/python3.9/site-packages (from scc) (1.0.0)
00:39:35 Requirement already satisfied: ruamel.yaml in ./venv/lib/python3.9/site-packages (from scc) (0.18.6)
00:39:35 Requirement already satisfied: ruamel.yaml.jinja2 in ./venv/lib/python3.9/site-packages (from scc) (0.2.7)
00:39:35 Requirement already satisfied: six in ./venv/lib/python3.9/site-packages (from scc) (1.16.0)
00:39:35 Requirement already satisfied: urllib3<2 in ./venv/lib/python3.9/site-packages (from scc) (1.26.18)
00:39:35 Requirement already satisfied: yaclifw<0.3,>=0.2.0 in ./venv/lib/python3.9/site-packages (from scc) (0.2.0)
00:39:35 Requirement already satisfied: pynacl>=1.4.0 in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (1.5.0)
00:39:35 Requirement already satisfied: requests>=2.14.0 in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (2.31.0)
00:39:35 Requirement already satisfied: pyjwt>=2.4.0 in ./venv/lib/python3.9/site-packages (from pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc) (2.8.0)
00:39:35 Requirement already satisfied: typing-extensions>=4.0.0 in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (4.10.0)
00:39:35 Requirement already satisfied: Deprecated in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (1.2.14)
00:39:35 Requirement already satisfied: ruamel.yaml.clib>=0.2.7 in ./venv/lib/python3.9/site-packages (from ruamel.yaml->scc) (0.2.8)
00:39:35 Requirement already satisfied: cryptography>=3.4.0 in ./venv/lib/python3.9/site-packages (from pyjwt[crypto]>=2.4.0->PyGithub>=1.54->scc) (42.0.5)
00:39:35 Requirement already satisfied: cffi>=1.4.1 in ./venv/lib/python3.9/site-packages (from pynacl>=1.4.0->PyGithub>=1.54->scc) (1.16.0)
00:39:35 Requirement already satisfied: charset-normalizer<4,>=2 in ./venv/lib/python3.9/site-packages (from requests>=2.14.0->PyGithub>=1.54->scc) (3.3.2)
00:39:35 Requirement already satisfied: idna<4,>=2.5 in ./venv/lib/python3.9/site-packages (from requests>=2.14.0->PyGithub>=1.54->scc) (3.6)
00:39:35 Requirement already satisfied: certifi>=2017.4.17 in ./venv/lib/python3.9/site-packages (from requests>=2.14.0->PyGithub>=1.54->scc) (2024.2.2)
00:39:35 Requirement already satisfied: wrapt<2,>=1.10 in ./venv/lib/python3.9/site-packages (from Deprecated->PyGithub>=1.54->scc) (1.16.0)
00:39:35 Requirement already satisfied: pycparser in ./venv/lib/python3.9/site-packages (from cffi>=1.4.1->pynacl>=1.4.0->PyGithub>=1.54->scc) (2.21)
00:39:35 + test -e src
00:39:35 + cd src
00:39:35 ++ git config github.user
00:39:35 + user=snoopycrimecop
00:39:35 + scc merge develop --no-ask --reset --shallow -S success-only
00:39:42 2024-10-04 00:39:42,067 [   scc.merge] INFO  Merging Pull Request(s) based on develop
00:39:42 2024-10-04 00:39:42,067 [   scc.merge] INFO  Including Pull Request(s) opened by any public member of the organization
00:39:42 2024-10-04 00:39:42,067 [   scc.merge] INFO  Including Pull Request(s) labelled as include or dependencies
00:39:42 2024-10-04 00:39:42,067 [   scc.merge] INFO  Excluding Pull Request(s) staged as draft
00:39:42 2024-10-04 00:39:42,068 [   scc.merge] INFO  Excluding Pull Request(s) labelled as exclude or breaking
00:39:42 2024-10-04 00:39:42,068 [   scc.merge] INFO  Excluding Pull Request(s) without successful status
00:40:13 2024-10-04 00:40:13,319 [   scc.merge] INFO  Repository: ome/openmicroscopy
00:40:13 2024-10-04 00:40:13,319 [   scc.merge] INFO  Excluded PRs:
00:40:13 2024-10-04 00:40:13,319 [   scc.merge] INFO    - PR 6398 Tom-TBT 'Perceptibly uniform luts' (user: Tom-TBT)
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6319 dominikl 'Add integration test for joining session' (exclude comment)
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6212 jburel 'add test to import images' (exclude comment)
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude)
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO  Already up to date.
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO  
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO  Merged PRs:
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6309 jburel 'add try block'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6353 jburel 'remove dependencies'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6385 jburel 'remove test using deprecated method'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6409 sbesson 'Bump jul-to-slf4j and jcl-over-slf4j to version 2.0.16'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6410 snoopycrimecop 'update dependencies'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6411 knabar 'Check query without matches'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO    - PR 6412 sbesson 'Extend test coverage for tables slice, read and readCoordinates API'
00:40:13 2024-10-04 00:40:13,320 [   scc.merge] INFO  
00:40:13 + cp etc/omero.properties etc/omero.properties.bak
00:40:13 + rm etc/omero.properties
00:40:13 + touch etc/omero.properties
00:40:13 ++ sed -n '/Internal dependencies/=' etc/omero.properties.bak
00:40:13 + ne=249
00:40:13 ++ sed -n 1,249p etc/omero.properties.bak
00:40:13 + line='##
00:40:13 ## omero.properties
00:40:13 ## ----------------
00:40:13 ##
00:40:13 ## DO NOT EDIT!
00:40:13 ##
00:40:13 ##
00:40:13 ## Any of these properties can be altered by using `omero config`. MODIFYING
00:40:13 ## THIS FILE DOES NOT ALTER SERVER BEHAVIOR. It solely defines the defaults
00:40:13 ## at compile time!
00:40:13 ##
00:40:13 ## For an overview of these properties, see
00:40:13 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/config.html
00:40:13 ##
00:40:13 ## Properties marked with "DEVELOPMENT" should not be used in production.
00:40:13 
00:40:13 # Comma separated list of Ice transports available to clients. The default
00:40:13 # value ("ssl,tcp") instructs Ice to open the ports specified by the
00:40:13 # omero.ports.ssl and omero.ports.tcp properties. Restricting to "ssl"
00:40:13 # will prevent all non-encrypted connections to the OMERO server.
00:40:13 #
00:40:13 # Additionally, there are two experimental values for using websockets:
00:40:13 # "ws" and "wss" for unencrypted and encrypted, respectively. The ports
00:40:13 # that are opened are controlled by the omero.ports.ws and omero.ports.wss
00:40:13 # properties. To enable all possible protocols use: "ssl,tcp,wss,ws".
00:40:13 #
00:40:13 # Note: When using websockets behind a web server like nginx, additional
00:40:13 # configuration may be needed.
00:40:13 omero.client.icetransports=ssl,tcp
00:40:13 
00:40:13 # The prefix to apply to all port numbers (SSL, TCP, registry) used by the
00:40:13 # server
00:40:13 omero.ports.prefix=
00:40:13 
00:40:13 # The Glacier2 SSL port number to use
00:40:13 omero.ports.ssl=4064
00:40:13 
00:40:13 # The Glacier2 TCP port number to use (unencrypted)
00:40:13 omero.ports.tcp=4063
00:40:13 
00:40:13 # The Glacier2 WSS port number to use
00:40:13 omero.ports.wss=4066
00:40:13 
00:40:13 # The Glacier2 WS port number to use (unencrypted)
00:40:13 omero.ports.ws=4065
00:40:13 
00:40:13 # The IceGrid registry port number to use
00:40:13 omero.ports.registry=4061
00:40:13 
00:40:13 #############################################
00:40:13 ## JVM configuration
00:40:13 ##
00:40:13 ## Note: changes to the omero.jvmcfg properties
00:40:13 ## will *not* be reflected in OMERO.server
00:40:13 ## since they are defined in OMERO.py.
00:40:13 #############################################
00:40:13 ## (For documentation only)
00:40:13 # Memory strategy which will be used by default.
00:40:13 # Options include: percent, manual
00:40:13 omero.jvmcfg.strategy=percent
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Explicit value for the `-Xmx` argument, e.g.
00:40:13 # "1g"
00:40:13 omero.jvmcfg.heap_size=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Explicit value for the MaxPermSize argument
00:40:13 # to the JVM, e.g. "500M". Ignored for Java8+
00:40:13 omero.jvmcfg.perm_gen=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Toggles on or off heap dumps on OOMs. Default is "off".
00:40:13 # The special value "tmp" will create the heap dumps in
00:40:13 # your temp directory.
00:40:13 omero.jvmcfg.heap_dump=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Used only by the percent strategy. An integer between 0
00:40:13 # and 100 which is the percent of active memory that will
00:40:13 # be used by the service.
00:40:13 omero.jvmcfg.percent=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Contains other parameters which should be passed to the
00:40:13 # JVM. The value of "append" is treated as if it were on
00:40:13 # the command line so will be separated on whitespace.
00:40:13 # For example, '\''-XX:-PrintGC -XX:+UseCompressedOops'\'' would
00:40:13 # results in two new arguments.
00:40:13 # Note that when using `config set` from the command line
00:40:13 # one may need to give a prior `--` option to prevent a value
00:40:13 # starting with `-` from already being parsed as an option,
00:40:13 # and values may need quoting to prevent whitespace or other
00:40:13 # significant characters from being interpreted prematurely.
00:40:13 
00:40:13 omero.jvmcfg.append=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Manual override of the total system memory that
00:40:13 # OMERO will *think* is present on the local OS (MB).
00:40:13 # If unset, an attempt will be made to detect the actual
00:40:13 # amount: first by using the Python library `psutil` and
00:40:13 # if that is not installed, by running a Java tool. If
00:40:13 # neither works, 4.0GB is assumed.
00:40:13 omero.jvmcfg.system_memory=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Suggestion for strategies as to the minimum memory
00:40:13 # that they will use for calculating JVM settings (MB).
00:40:13 omero.jvmcfg.min_system_memory=3414
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Suggestion for strategies as to the maximum memory
00:40:13 # that they will use for calculating JVM settings (MB).
00:40:13 omero.jvmcfg.max_system_memory=48000
00:40:13 
00:40:13 
00:40:13 #############################################
00:40:13 ## Logging properties
00:40:13 ##
00:40:13 ## Note: changes to the default omero.logging values in
00:40:13 ## this file will *not* be reflected in OMERO.server
00:40:13 ## since they are defined in OMERO.py
00:40:13 #############################################
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Relative server directory where the log files should be stored.
00:40:13 omero.logging.directory=var/log/
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Whether the server log files should be rotated at a certain time
00:40:13 # interval. If true, log files will be rolled over at midnight.
00:40:13 # Otherwise, log files will be rolled over at a predetermined size,
00:40:13 # see omero.logging.logsize for more information.
00:40:13 omero.logging.timedlog=false
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # If omero.logging.timedlog is false or unset, specifies the
00:40:13 # maximum size of the server log files in bytes above which a
00:40:13 # new log file should be created.
00:40:13 omero.logging.logsize=5000000
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # If omero.logging.timedlog is false or unset, specifies the
00:40:13 # number of old server log files that should be kept. Old log
00:40:13 # files will be saved by appending the extensions '\''.1'\'', '\''.2'\'' etc.
00:40:13 omero.logging.lognum=9
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Specifies the threshold for the Python servers log files. Logging messages
00:40:13 # which are less severe than this value will be ignored. For a list of
00:40:13 # available values, see https://docs.python.org/3/library/logging.html#levels.
00:40:13 omero.logging.level=20
00:40:13 
00:40:13 #############################################
00:40:13 ## Ice overrides
00:40:13 ##
00:40:13 ## Though not used directly by OMERO, a number
00:40:13 ## of properties prefixed with "Ice.*" will
00:40:13 ## alter the behavior of the OMERO runtime
00:40:13 ## by configuring the Ice communicators. For a
00:40:13 ## full listing see:
00:40:13 ##
00:40:13 ##   http://doc.zeroc.com/display/Ice/Property+Reference
00:40:13 ## For more information see
00:40:13 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/troubleshooting.html#server-fails-to-start
00:40:13 #############################################
00:40:13 
00:40:13 # Disable IPv6 by setting to 0. Only needed in
00:40:13 # certain situations.
00:40:13 Ice.IPv6=1
00:40:13 
00:40:13 # Glacier2Template IceSSL defaults and overrides,
00:40:13 # see https://doc.zeroc.com/ice/3.6/property-reference/icessl.
00:40:13 # Any property beginning ``omero.glacier2.IceSSL.`` will be used to
00:40:13 # update the corresponding IceSSL. property.
00:40:13 omero.glacier2.IceSSL=
00:40:13 
00:40:13 # Glacier2Template SSL maximum allowed protocol (mac bug)
00:40:13 omero.glacier2.IceSSL.ProtocolVersionMax=tls1_1
00:40:13 # Glacier2Template SSL allowed cipher suites
00:40:13 omero.glacier2.IceSSL.Ciphers=ADH:!LOW:!MD5:!EXP:!3DES:@STRENGTH
00:40:13 # Glacier2Template SSL verification requirements
00:40:13 omero.glacier2.IceSSL.VerifyPeer=0
00:40:13 # Glacier2Template SSL allowed protocols
00:40:13 omero.glacier2.IceSSL.Protocols=tls1
00:40:13 
00:40:13 # Override the default set of OMERO services.
00:40:13 # For example, to run OMERO.server with Blitz and Tables only
00:40:13 # (i.e. disable Processor, DropBox, Indexer, PixelData)
00:40:13 # set this to ``master:Blitz-0,Tables-0``.
00:40:13 # Also use this to distribute OMERO services across multiple nodes,
00:40:13 # for example:
00:40:13 # ``master:Blitz-0,Tables-0 worker1:Processor-0``.
00:40:13 # See
00:40:13 # https://docs.openmicroscopy.org/omero/latest/sysadmins/grid.html#deployment-examples
00:40:13 omero.server.nodedescriptors=
00:40:13 
00:40:13 #############################################
00:40:13 ## Darwin (OS X) specific defaults for templated configuration files only.
00:40:13 ## ``_xxx.yyy.darwin`` properties will override xxx.yyy properties in this
00:40:13 ## file.
00:40:13 ## Do not set these properties in ``omero config``, instead set the original
00:40:13 ## ``xxx.yyy`` property
00:40:13 #############################################
00:40:13 _omero.glacier2.IceSSL.Ciphers.darwin=(AES)
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Name of the Python module to use when starting the Tables service
00:40:13 omero.tables.module=runTables
00:40:13 
00:40:13 #############################################
00:40:13 ## Server product name for release artifacts
00:40:13 #############################################
00:40:13 product.name=OMERO.server
00:40:13 
00:40:13 #############################################
00:40:13 ### Properties below this marker are ignored by
00:40:13 ### omero.install.config_parser.PropertyParser
00:40:13 ### END
00:40:13 
00:40:13 #############################################
00:40:13 ## Library versions
00:40:13 #############################################
00:40:13 ##
00:40:13 versions.findbugs=1.2.1
00:40:13 versions.ice36=3.6.5
00:40:13 versions.ice36_lib=36
00:40:13 ## internal
00:40:13 versions.omeroshares36=3.6.3
00:40:13 versions.omeromock36=3.6.3
00:40:13 versions.icedb36=3.6.3
00:40:13 versions.ipython=1.2.1
00:40:13 
00:40:13 versions.janino=2.5.10
00:40:13 
00:40:13 versions.reportng=1.1.1
00:40:13 
00:40:13 versions.testng=7.5
00:40:13 versions.velocity=1.4
00:40:13 
00:40:13 versions.omero-pypi=https://pypi.io/packages/source/o/PACKAGE
00:40:13 versions.omero-scripts-url=${versions.omero-pypi}
00:40:13 
00:40:13 ###
00:40:13 ### Appended Values
00:40:13 ###
00:40:13 
00:40:13 ## Internal dependencies'
00:40:13 + echo '##
00:40:13 ## omero.properties
00:40:13 ## ----------------
00:40:13 ##
00:40:13 ## DO NOT EDIT!
00:40:13 ##
00:40:13 ##
00:40:13 ## Any of these properties can be altered by using `omero config`. MODIFYING
00:40:13 ## THIS FILE DOES NOT ALTER SERVER BEHAVIOR. It solely defines the defaults
00:40:13 ## at compile time!
00:40:13 ##
00:40:13 ## For an overview of these properties, see
00:40:13 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/config.html
00:40:13 ##
00:40:13 ## Properties marked with "DEVELOPMENT" should not be used in production.
00:40:13 
00:40:13 # Comma separated list of Ice transports available to clients. The default
00:40:13 # value ("ssl,tcp") instructs Ice to open the ports specified by the
00:40:13 # omero.ports.ssl and omero.ports.tcp properties. Restricting to "ssl"
00:40:13 # will prevent all non-encrypted connections to the OMERO server.
00:40:13 #
00:40:13 # Additionally, there are two experimental values for using websockets:
00:40:13 # "ws" and "wss" for unencrypted and encrypted, respectively. The ports
00:40:13 # that are opened are controlled by the omero.ports.ws and omero.ports.wss
00:40:13 # properties. To enable all possible protocols use: "ssl,tcp,wss,ws".
00:40:13 #
00:40:13 # Note: When using websockets behind a web server like nginx, additional
00:40:13 # configuration may be needed.
00:40:13 omero.client.icetransports=ssl,tcp
00:40:13 
00:40:13 # The prefix to apply to all port numbers (SSL, TCP, registry) used by the
00:40:13 # server
00:40:13 omero.ports.prefix=
00:40:13 
00:40:13 # The Glacier2 SSL port number to use
00:40:13 omero.ports.ssl=4064
00:40:13 
00:40:13 # The Glacier2 TCP port number to use (unencrypted)
00:40:13 omero.ports.tcp=4063
00:40:13 
00:40:13 # The Glacier2 WSS port number to use
00:40:13 omero.ports.wss=4066
00:40:13 
00:40:13 # The Glacier2 WS port number to use (unencrypted)
00:40:13 omero.ports.ws=4065
00:40:13 
00:40:13 # The IceGrid registry port number to use
00:40:13 omero.ports.registry=4061
00:40:13 
00:40:13 #############################################
00:40:13 ## JVM configuration
00:40:13 ##
00:40:13 ## Note: changes to the omero.jvmcfg properties
00:40:13 ## will *not* be reflected in OMERO.server
00:40:13 ## since they are defined in OMERO.py.
00:40:13 #############################################
00:40:13 ## (For documentation only)
00:40:13 # Memory strategy which will be used by default.
00:40:13 # Options include: percent, manual
00:40:13 omero.jvmcfg.strategy=percent
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Explicit value for the `-Xmx` argument, e.g.
00:40:13 # "1g"
00:40:13 omero.jvmcfg.heap_size=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Explicit value for the MaxPermSize argument
00:40:13 # to the JVM, e.g. "500M". Ignored for Java8+
00:40:13 omero.jvmcfg.perm_gen=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Toggles on or off heap dumps on OOMs. Default is "off".
00:40:13 # The special value "tmp" will create the heap dumps in
00:40:13 # your temp directory.
00:40:13 omero.jvmcfg.heap_dump=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Used only by the percent strategy. An integer between 0
00:40:13 # and 100 which is the percent of active memory that will
00:40:13 # be used by the service.
00:40:13 omero.jvmcfg.percent=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Contains other parameters which should be passed to the
00:40:13 # JVM. The value of "append" is treated as if it were on
00:40:13 # the command line so will be separated on whitespace.
00:40:13 # For example, '\''-XX:-PrintGC -XX:+UseCompressedOops'\'' would
00:40:13 # results in two new arguments.
00:40:13 # Note that when using `config set` from the command line
00:40:13 # one may need to give a prior `--` option to prevent a value
00:40:13 # starting with `-` from already being parsed as an option,
00:40:13 # and values may need quoting to prevent whitespace or other
00:40:13 # significant characters from being interpreted prematurely.
00:40:13 
00:40:13 omero.jvmcfg.append=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Manual override of the total system memory that
00:40:13 # OMERO will *think* is present on the local OS (MB).
00:40:13 # If unset, an attempt will be made to detect the actual
00:40:13 # amount: first by using the Python library `psutil` and
00:40:13 # if that is not installed, by running a Java tool. If
00:40:13 # neither works, 4.0GB is assumed.
00:40:13 omero.jvmcfg.system_memory=
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Suggestion for strategies as to the minimum memory
00:40:13 # that they will use for calculating JVM settings (MB).
00:40:13 omero.jvmcfg.min_system_memory=3414
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Suggestion for strategies as to the maximum memory
00:40:13 # that they will use for calculating JVM settings (MB).
00:40:13 omero.jvmcfg.max_system_memory=48000
00:40:13 
00:40:13 
00:40:13 #############################################
00:40:13 ## Logging properties
00:40:13 ##
00:40:13 ## Note: changes to the default omero.logging values in
00:40:13 ## this file will *not* be reflected in OMERO.server
00:40:13 ## since they are defined in OMERO.py
00:40:13 #############################################
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Relative server directory where the log files should be stored.
00:40:13 omero.logging.directory=var/log/
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Whether the server log files should be rotated at a certain time
00:40:13 # interval. If true, log files will be rolled over at midnight.
00:40:13 # Otherwise, log files will be rolled over at a predetermined size,
00:40:13 # see omero.logging.logsize for more information.
00:40:13 omero.logging.timedlog=false
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # If omero.logging.timedlog is false or unset, specifies the
00:40:13 # maximum size of the server log files in bytes above which a
00:40:13 # new log file should be created.
00:40:13 omero.logging.logsize=5000000
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # If omero.logging.timedlog is false or unset, specifies the
00:40:13 # number of old server log files that should be kept. Old log
00:40:13 # files will be saved by appending the extensions '\''.1'\'', '\''.2'\'' etc.
00:40:13 omero.logging.lognum=9
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Specifies the threshold for the Python servers log files. Logging messages
00:40:13 # which are less severe than this value will be ignored. For a list of
00:40:13 # available values, see https://docs.python.org/3/library/logging.html#levels.
00:40:13 omero.logging.level=20
00:40:13 
00:40:13 #############################################
00:40:13 ## Ice overrides
00:40:13 ##
00:40:13 ## Though not used directly by OMERO, a number
00:40:13 ## of properties prefixed with "Ice.*" will
00:40:13 ## alter the behavior of the OMERO runtime
00:40:13 ## by configuring the Ice communicators. For a
00:40:13 ## full listing see:
00:40:13 ##
00:40:13 ##   http://doc.zeroc.com/display/Ice/Property+Reference
00:40:13 ## For more information see
00:40:13 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/troubleshooting.html#server-fails-to-start
00:40:13 #############################################
00:40:13 
00:40:13 # Disable IPv6 by setting to 0. Only needed in
00:40:13 # certain situations.
00:40:13 Ice.IPv6=1
00:40:13 
00:40:13 # Glacier2Template IceSSL defaults and overrides,
00:40:13 # see https://doc.zeroc.com/ice/3.6/property-reference/icessl.
00:40:13 # Any property beginning ``omero.glacier2.IceSSL.`` will be used to
00:40:13 # update the corresponding IceSSL. property.
00:40:13 omero.glacier2.IceSSL=
00:40:13 
00:40:13 # Glacier2Template SSL maximum allowed protocol (mac bug)
00:40:13 omero.glacier2.IceSSL.ProtocolVersionMax=tls1_1
00:40:13 # Glacier2Template SSL allowed cipher suites
00:40:13 omero.glacier2.IceSSL.Ciphers=ADH:!LOW:!MD5:!EXP:!3DES:@STRENGTH
00:40:13 # Glacier2Template SSL verification requirements
00:40:13 omero.glacier2.IceSSL.VerifyPeer=0
00:40:13 # Glacier2Template SSL allowed protocols
00:40:13 omero.glacier2.IceSSL.Protocols=tls1
00:40:13 
00:40:13 # Override the default set of OMERO services.
00:40:13 # For example, to run OMERO.server with Blitz and Tables only
00:40:13 # (i.e. disable Processor, DropBox, Indexer, PixelData)
00:40:13 # set this to ``master:Blitz-0,Tables-0``.
00:40:13 # Also use this to distribute OMERO services across multiple nodes,
00:40:13 # for example:
00:40:13 # ``master:Blitz-0,Tables-0 worker1:Processor-0``.
00:40:13 # See
00:40:13 # https://docs.openmicroscopy.org/omero/latest/sysadmins/grid.html#deployment-examples
00:40:13 omero.server.nodedescriptors=
00:40:13 
00:40:13 #############################################
00:40:13 ## Darwin (OS X) specific defaults for templated configuration files only.
00:40:13 ## ``_xxx.yyy.darwin`` properties will override xxx.yyy properties in this
00:40:13 ## file.
00:40:13 ## Do not set these properties in ``omero config``, instead set the original
00:40:13 ## ``xxx.yyy`` property
00:40:13 #############################################
00:40:13 _omero.glacier2.IceSSL.Ciphers.darwin=(AES)
00:40:13 
00:40:13 ## (For documentation only)
00:40:13 # Name of the Python module to use when starting the Tables service
00:40:13 omero.tables.module=runTables
00:40:13 
00:40:13 #############################################
00:40:13 ## Server product name for release artifacts
00:40:13 #############################################
00:40:13 product.name=OMERO.server
00:40:13 
00:40:13 #############################################
00:40:13 ### Properties below this marker are ignored by
00:40:13 ### omero.install.config_parser.PropertyParser
00:40:13 ### END
00:40:13 
00:40:13 #############################################
00:40:13 ## Library versions
00:40:13 #############################################
00:40:13 ##
00:40:13 versions.findbugs=1.2.1
00:40:13 versions.ice36=3.6.5
00:40:13 versions.ice36_lib=36
00:40:13 ## internal
00:40:13 versions.omeroshares36=3.6.3
00:40:13 versions.omeromock36=3.6.3
00:40:13 versions.icedb36=3.6.3
00:40:13 versions.ipython=1.2.1
00:40:13 
00:40:13 versions.janino=2.5.10
00:40:13 
00:40:13 versions.reportng=1.1.1
00:40:13 
00:40:13 versions.testng=7.5
00:40:13 versions.velocity=1.4
00:40:13 
00:40:13 versions.omero-pypi=https://pypi.io/packages/source/o/PACKAGE
00:40:13 versions.omero-scripts-url=${versions.omero-pypi}
00:40:13 
00:40:13 ###
00:40:13 ### Appended Values
00:40:13 ###
00:40:13 
00:40:13 ## Internal dependencies'
00:40:13 + echo versions.omero-pypi=https://merge-ci.openmicroscopy.org/jenkins//job/OMERO-python-superbuild-build/lastSuccessfulBuild/artifact/PACKAGE/dist/
00:40:13 + echo versions.omero-github=https://github.com/snoopycrimecop/PACKAGE/archive
00:40:13 + echo versions.scripts-prefix=
00:40:13 + echo versions.scripts=merge_ci
00:40:13 + cat /home/omero/workspace/OMERO-push/version.properties
00:40:13 + git commit -a -m 'Add version.properties to etc/omero.properties'
00:40:13 [detached HEAD 9ed1598646] Add version.properties to etc/omero.properties
00:40:13  1 file changed, 47 insertions(+), 7 deletions(-)
00:40:13 + git push -f git@github.com:snoopycrimecop/openmicroscopy.git HEAD:refs/heads/merge_ci
00:40:15 To github.com:snoopycrimecop/openmicroscopy.git
00:40:15  + c2479c27a8...9ed1598646 HEAD -> merge_ci (forced update)
00:40:15 Finished: SUCCESS