07:58:49 Started by upstream project "Trigger" build number 241 07:58:49 originally caused by: 07:58:49 Started by user devspace 07:58:49 Running as SYSTEM 07:58:49 Building remotely on testintegration (swarm rocky9 ice36 java11) in workspace /home/omero/workspace/OMERO-push 07:58:49 The recommended git tool is: NONE 07:58:49 No credentials specified 07:58:49 > git rev-parse --resolve-git-dir /home/omero/workspace/OMERO-push/src/.git # timeout=10 07:58:49 Fetching changes from the remote Git repository 07:58:49 > git config remote.origin.url https://github.com/ome/openmicroscopy.git # timeout=10 07:58:49 Fetching upstream changes from https://github.com/ome/openmicroscopy.git 07:58:49 > git --version # timeout=10 07:58:49 > git --version # 'git version 2.43.5' 07:58:49 > git fetch --tags --force --progress -- https://github.com/ome/openmicroscopy.git +refs/heads/*:refs/remotes/origin/* # timeout=30 07:58:51 > git rev-parse origin/develop^{commit} # timeout=10 07:58:51 Checking out Revision e9fe27633007773042c840e356c5ff37ec03f550 (origin/develop) 07:58:51 > git config core.sparsecheckout # timeout=10 07:58:51 > git checkout -f e9fe27633007773042c840e356c5ff37ec03f550 # timeout=30 07:58:53 Commit message: "Merge pull request #6407 from will-moore/history_5.6.13" 07:58:53 > git rev-list --no-walk e9fe27633007773042c840e356c5ff37ec03f550 # timeout=10 07:58:53 Cleaning workspace 07:58:53 > git rev-parse --verify HEAD # timeout=10 07:58:53 Resetting working tree 07:58:53 > git reset --hard # timeout=10 07:58:53 > git clean -fdx # timeout=10 07:58:53 Copied 1 artifact from "OMERO-python-superbuild-build" build number 195 07:58:53 [OMERO-push] $ /bin/bash -xe /tmp/jenkins9245324171568504521.sh 07:58:53 + python3 -mvenv venv 07:58:55 + source /home/omero/workspace/OMERO-push/venv/bin/activate 07:58:55 ++ deactivate nondestructive 07:58:55 ++ '[' -n '' ']' 07:58:55 ++ '[' -n '' ']' 07:58:55 ++ '[' -n /bin/bash -o -n '' ']' 07:58:55 ++ hash -r 07:58:55 ++ '[' -n '' ']' 07:58:55 ++ unset VIRTUAL_ENV 07:58:55 ++ '[' '!' nondestructive = nondestructive ']' 07:58:55 ++ VIRTUAL_ENV=/home/omero/workspace/OMERO-push/venv 07:58:55 ++ export VIRTUAL_ENV 07:58:55 ++ _OLD_VIRTUAL_PATH=/opt/ice-3.6.5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin 07:58:55 ++ 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 07:58:55 ++ export PATH 07:58:55 ++ '[' -n '' ']' 07:58:55 ++ '[' -z '' ']' 07:58:55 ++ _OLD_VIRTUAL_PS1= 07:58:55 ++ PS1='(venv) ' 07:58:55 ++ export PS1 07:58:55 ++ '[' -n /bin/bash -o -n '' ']' 07:58:55 ++ hash -r 07:58:55 + pip install -U pip 07:58:57 Requirement already satisfied: pip in ./venv/lib/python3.9/site-packages (24.2) 07:58:58 + pip install -U scc 07:58:58 Requirement already satisfied: scc in ./venv/lib/python3.9/site-packages (0.20.0) 07:58:58 Requirement already satisfied: PyGithub>=1.54 in ./venv/lib/python3.9/site-packages (from scc) (2.2.0) 07:58:58 Requirement already satisfied: PyYAML>=5.1 in ./venv/lib/python3.9/site-packages (from scc) (6.0.1) 07:58:58 Requirement already satisfied: future in ./venv/lib/python3.9/site-packages (from scc) (1.0.0) 07:58:58 Requirement already satisfied: ruamel.yaml in ./venv/lib/python3.9/site-packages (from scc) (0.18.6) 07:58:58 Requirement already satisfied: ruamel.yaml.jinja2 in ./venv/lib/python3.9/site-packages (from scc) (0.2.7) 07:58:58 Requirement already satisfied: six in ./venv/lib/python3.9/site-packages (from scc) (1.16.0) 07:58:58 Requirement already satisfied: urllib3<2 in ./venv/lib/python3.9/site-packages (from scc) (1.26.18) 07:58:58 Requirement already satisfied: yaclifw<0.3,>=0.2.0 in ./venv/lib/python3.9/site-packages (from scc) (0.2.0) 07:58:58 Requirement already satisfied: pynacl>=1.4.0 in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (1.5.0) 07:58:58 Requirement already satisfied: requests>=2.14.0 in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (2.31.0) 07:58:58 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) 07:58:58 Requirement already satisfied: typing-extensions>=4.0.0 in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (4.10.0) 07:58:58 Requirement already satisfied: Deprecated in ./venv/lib/python3.9/site-packages (from PyGithub>=1.54->scc) (1.2.14) 07:58:58 Requirement already satisfied: ruamel.yaml.clib>=0.2.7 in ./venv/lib/python3.9/site-packages (from ruamel.yaml->scc) (0.2.8) 07:58:58 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) 07:58:58 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) 07:58:58 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) 07:58:58 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) 07:58:58 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) 07:58:58 Requirement already satisfied: wrapt<2,>=1.10 in ./venv/lib/python3.9/site-packages (from Deprecated->PyGithub>=1.54->scc) (1.16.0) 07:58:58 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) 07:58:58 + test -e src 07:58:58 + cd src 07:58:58 ++ git config github.user 07:58:58 + user=snoopycrimecop 07:58:58 + scc merge develop --no-ask --reset --shallow -S success-only 07:59:03 2024-10-08 07:59:03,661 [ scc.merge] INFO Merging Pull Request(s) based on develop 07:59:03 2024-10-08 07:59:03,661 [ scc.merge] INFO Including Pull Request(s) opened by any public member of the organization 07:59:03 2024-10-08 07:59:03,661 [ scc.merge] INFO Including Pull Request(s) labelled as include or dependencies 07:59:03 2024-10-08 07:59:03,661 [ scc.merge] INFO Excluding Pull Request(s) staged as draft 07:59:03 2024-10-08 07:59:03,661 [ scc.merge] INFO Excluding Pull Request(s) labelled as exclude or breaking 07:59:03 2024-10-08 07:59:03,661 [ scc.merge] INFO Excluding Pull Request(s) without successful status 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO Repository: ome/openmicroscopy 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO Excluded PRs: 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6398 Tom-TBT 'Perceptibly uniform luts' (user: Tom-TBT) 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6319 dominikl 'Add integration test for joining session' (exclude comment) 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6212 jburel 'add test to import images' (exclude comment) 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6086 manics 'Alternative JSON configuration system for OMERO.web' (label: exclude) 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO Already up to date. 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO Merged PRs: 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6309 jburel 'add try block' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6353 jburel 'remove dependencies' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6385 jburel 'remove test using deprecated method' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6409 sbesson 'Bump jul-to-slf4j and jcl-over-slf4j to version 2.0.16' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6410 snoopycrimecop 'update dependencies' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6411 knabar 'Check query without matches' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO - PR 6412 sbesson 'Extend test coverage for tables slice, read and readCoordinates API' 07:59:33 2024-10-08 07:59:33,592 [ scc.merge] INFO 07:59:33 + cp etc/omero.properties etc/omero.properties.bak 07:59:33 + rm etc/omero.properties 07:59:33 + touch etc/omero.properties 07:59:33 ++ sed -n '/Internal dependencies/=' etc/omero.properties.bak 07:59:33 + ne=249 07:59:33 ++ sed -n 1,249p etc/omero.properties.bak 07:59:33 + line='## 07:59:33 ## omero.properties 07:59:33 ## ---------------- 07:59:33 ## 07:59:33 ## DO NOT EDIT! 07:59:33 ## 07:59:33 ## 07:59:33 ## Any of these properties can be altered by using `omero config`. MODIFYING 07:59:33 ## THIS FILE DOES NOT ALTER SERVER BEHAVIOR. It solely defines the defaults 07:59:33 ## at compile time! 07:59:33 ## 07:59:33 ## For an overview of these properties, see 07:59:33 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/config.html 07:59:33 ## 07:59:33 ## Properties marked with "DEVELOPMENT" should not be used in production. 07:59:33 07:59:33 # Comma separated list of Ice transports available to clients. The default 07:59:33 # value ("ssl,tcp") instructs Ice to open the ports specified by the 07:59:33 # omero.ports.ssl and omero.ports.tcp properties. Restricting to "ssl" 07:59:33 # will prevent all non-encrypted connections to the OMERO server. 07:59:33 # 07:59:33 # Additionally, there are two experimental values for using websockets: 07:59:33 # "ws" and "wss" for unencrypted and encrypted, respectively. The ports 07:59:33 # that are opened are controlled by the omero.ports.ws and omero.ports.wss 07:59:33 # properties. To enable all possible protocols use: "ssl,tcp,wss,ws". 07:59:33 # 07:59:33 # Note: When using websockets behind a web server like nginx, additional 07:59:33 # configuration may be needed. 07:59:33 omero.client.icetransports=ssl,tcp 07:59:33 07:59:33 # The prefix to apply to all port numbers (SSL, TCP, registry) used by the 07:59:33 # server 07:59:33 omero.ports.prefix= 07:59:33 07:59:33 # The Glacier2 SSL port number to use 07:59:33 omero.ports.ssl=4064 07:59:33 07:59:33 # The Glacier2 TCP port number to use (unencrypted) 07:59:33 omero.ports.tcp=4063 07:59:33 07:59:33 # The Glacier2 WSS port number to use 07:59:33 omero.ports.wss=4066 07:59:33 07:59:33 # The Glacier2 WS port number to use (unencrypted) 07:59:33 omero.ports.ws=4065 07:59:33 07:59:33 # The IceGrid registry port number to use 07:59:33 omero.ports.registry=4061 07:59:33 07:59:33 ############################################# 07:59:33 ## JVM configuration 07:59:33 ## 07:59:33 ## Note: changes to the omero.jvmcfg properties 07:59:33 ## will *not* be reflected in OMERO.server 07:59:33 ## since they are defined in OMERO.py. 07:59:33 ############################################# 07:59:33 ## (For documentation only) 07:59:33 # Memory strategy which will be used by default. 07:59:33 # Options include: percent, manual 07:59:33 omero.jvmcfg.strategy=percent 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Explicit value for the `-Xmx` argument, e.g. 07:59:33 # "1g" 07:59:33 omero.jvmcfg.heap_size= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Explicit value for the MaxPermSize argument 07:59:33 # to the JVM, e.g. "500M". Ignored for Java8+ 07:59:33 omero.jvmcfg.perm_gen= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Toggles on or off heap dumps on OOMs. Default is "off". 07:59:33 # The special value "tmp" will create the heap dumps in 07:59:33 # your temp directory. 07:59:33 omero.jvmcfg.heap_dump= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Used only by the percent strategy. An integer between 0 07:59:33 # and 100 which is the percent of active memory that will 07:59:33 # be used by the service. 07:59:33 omero.jvmcfg.percent= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Contains other parameters which should be passed to the 07:59:33 # JVM. The value of "append" is treated as if it were on 07:59:33 # the command line so will be separated on whitespace. 07:59:33 # For example, '\''-XX:-PrintGC -XX:+UseCompressedOops'\'' would 07:59:33 # results in two new arguments. 07:59:33 # Note that when using `config set` from the command line 07:59:33 # one may need to give a prior `--` option to prevent a value 07:59:33 # starting with `-` from already being parsed as an option, 07:59:33 # and values may need quoting to prevent whitespace or other 07:59:33 # significant characters from being interpreted prematurely. 07:59:33 07:59:33 omero.jvmcfg.append= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Manual override of the total system memory that 07:59:33 # OMERO will *think* is present on the local OS (MB). 07:59:33 # If unset, an attempt will be made to detect the actual 07:59:33 # amount: first by using the Python library `psutil` and 07:59:33 # if that is not installed, by running a Java tool. If 07:59:33 # neither works, 4.0GB is assumed. 07:59:33 omero.jvmcfg.system_memory= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Suggestion for strategies as to the minimum memory 07:59:33 # that they will use for calculating JVM settings (MB). 07:59:33 omero.jvmcfg.min_system_memory=3414 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Suggestion for strategies as to the maximum memory 07:59:33 # that they will use for calculating JVM settings (MB). 07:59:33 omero.jvmcfg.max_system_memory=48000 07:59:33 07:59:33 07:59:33 ############################################# 07:59:33 ## Logging properties 07:59:33 ## 07:59:33 ## Note: changes to the default omero.logging values in 07:59:33 ## this file will *not* be reflected in OMERO.server 07:59:33 ## since they are defined in OMERO.py 07:59:33 ############################################# 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Relative server directory where the log files should be stored. 07:59:33 omero.logging.directory=var/log/ 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Whether the server log files should be rotated at a certain time 07:59:33 # interval. If true, log files will be rolled over at midnight. 07:59:33 # Otherwise, log files will be rolled over at a predetermined size, 07:59:33 # see omero.logging.logsize for more information. 07:59:33 omero.logging.timedlog=false 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # If omero.logging.timedlog is false or unset, specifies the 07:59:33 # maximum size of the server log files in bytes above which a 07:59:33 # new log file should be created. 07:59:33 omero.logging.logsize=5000000 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # If omero.logging.timedlog is false or unset, specifies the 07:59:33 # number of old server log files that should be kept. Old log 07:59:33 # files will be saved by appending the extensions '\''.1'\'', '\''.2'\'' etc. 07:59:33 omero.logging.lognum=9 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Specifies the threshold for the Python servers log files. Logging messages 07:59:33 # which are less severe than this value will be ignored. For a list of 07:59:33 # available values, see https://docs.python.org/3/library/logging.html#levels. 07:59:33 omero.logging.level=20 07:59:33 07:59:33 ############################################# 07:59:33 ## Ice overrides 07:59:33 ## 07:59:33 ## Though not used directly by OMERO, a number 07:59:33 ## of properties prefixed with "Ice.*" will 07:59:33 ## alter the behavior of the OMERO runtime 07:59:33 ## by configuring the Ice communicators. For a 07:59:33 ## full listing see: 07:59:33 ## 07:59:33 ## http://doc.zeroc.com/display/Ice/Property+Reference 07:59:33 ## For more information see 07:59:33 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/troubleshooting.html#server-fails-to-start 07:59:33 ############################################# 07:59:33 07:59:33 # Disable IPv6 by setting to 0. Only needed in 07:59:33 # certain situations. 07:59:33 Ice.IPv6=1 07:59:33 07:59:33 # Glacier2Template IceSSL defaults and overrides, 07:59:33 # see https://doc.zeroc.com/ice/3.6/property-reference/icessl. 07:59:33 # Any property beginning ``omero.glacier2.IceSSL.`` will be used to 07:59:33 # update the corresponding IceSSL. property. 07:59:33 omero.glacier2.IceSSL= 07:59:33 07:59:33 # Glacier2Template SSL maximum allowed protocol (mac bug) 07:59:33 omero.glacier2.IceSSL.ProtocolVersionMax=tls1_1 07:59:33 # Glacier2Template SSL allowed cipher suites 07:59:33 omero.glacier2.IceSSL.Ciphers=ADH:!LOW:!MD5:!EXP:!3DES:@STRENGTH 07:59:33 # Glacier2Template SSL verification requirements 07:59:33 omero.glacier2.IceSSL.VerifyPeer=0 07:59:33 # Glacier2Template SSL allowed protocols 07:59:33 omero.glacier2.IceSSL.Protocols=tls1 07:59:33 07:59:33 # Override the default set of OMERO services. 07:59:33 # For example, to run OMERO.server with Blitz and Tables only 07:59:33 # (i.e. disable Processor, DropBox, Indexer, PixelData) 07:59:33 # set this to ``master:Blitz-0,Tables-0``. 07:59:33 # Also use this to distribute OMERO services across multiple nodes, 07:59:33 # for example: 07:59:33 # ``master:Blitz-0,Tables-0 worker1:Processor-0``. 07:59:33 # See 07:59:33 # https://docs.openmicroscopy.org/omero/latest/sysadmins/grid.html#deployment-examples 07:59:33 omero.server.nodedescriptors= 07:59:33 07:59:33 ############################################# 07:59:33 ## Darwin (OS X) specific defaults for templated configuration files only. 07:59:33 ## ``_xxx.yyy.darwin`` properties will override xxx.yyy properties in this 07:59:33 ## file. 07:59:33 ## Do not set these properties in ``omero config``, instead set the original 07:59:33 ## ``xxx.yyy`` property 07:59:33 ############################################# 07:59:33 _omero.glacier2.IceSSL.Ciphers.darwin=(AES) 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Name of the Python module to use when starting the Tables service 07:59:33 omero.tables.module=runTables 07:59:33 07:59:33 ############################################# 07:59:33 ## Server product name for release artifacts 07:59:33 ############################################# 07:59:33 product.name=OMERO.server 07:59:33 07:59:33 ############################################# 07:59:33 ### Properties below this marker are ignored by 07:59:33 ### omero.install.config_parser.PropertyParser 07:59:33 ### END 07:59:33 07:59:33 ############################################# 07:59:33 ## Library versions 07:59:33 ############################################# 07:59:33 ## 07:59:33 versions.findbugs=1.2.1 07:59:33 versions.ice36=3.6.5 07:59:33 versions.ice36_lib=36 07:59:33 ## internal 07:59:33 versions.omeroshares36=3.6.3 07:59:33 versions.omeromock36=3.6.3 07:59:33 versions.icedb36=3.6.3 07:59:33 versions.ipython=1.2.1 07:59:33 07:59:33 versions.janino=2.5.10 07:59:33 07:59:33 versions.reportng=1.1.1 07:59:33 07:59:33 versions.testng=7.5 07:59:33 versions.velocity=1.4 07:59:33 07:59:33 versions.omero-pypi=https://pypi.io/packages/source/o/PACKAGE 07:59:33 versions.omero-scripts-url=${versions.omero-pypi} 07:59:33 07:59:33 ### 07:59:33 ### Appended Values 07:59:33 ### 07:59:33 07:59:33 ## Internal dependencies' 07:59:33 + echo '## 07:59:33 ## omero.properties 07:59:33 ## ---------------- 07:59:33 ## 07:59:33 ## DO NOT EDIT! 07:59:33 ## 07:59:33 ## 07:59:33 ## Any of these properties can be altered by using `omero config`. MODIFYING 07:59:33 ## THIS FILE DOES NOT ALTER SERVER BEHAVIOR. It solely defines the defaults 07:59:33 ## at compile time! 07:59:33 ## 07:59:33 ## For an overview of these properties, see 07:59:33 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/config.html 07:59:33 ## 07:59:33 ## Properties marked with "DEVELOPMENT" should not be used in production. 07:59:33 07:59:33 # Comma separated list of Ice transports available to clients. The default 07:59:33 # value ("ssl,tcp") instructs Ice to open the ports specified by the 07:59:33 # omero.ports.ssl and omero.ports.tcp properties. Restricting to "ssl" 07:59:33 # will prevent all non-encrypted connections to the OMERO server. 07:59:33 # 07:59:33 # Additionally, there are two experimental values for using websockets: 07:59:33 # "ws" and "wss" for unencrypted and encrypted, respectively. The ports 07:59:33 # that are opened are controlled by the omero.ports.ws and omero.ports.wss 07:59:33 # properties. To enable all possible protocols use: "ssl,tcp,wss,ws". 07:59:33 # 07:59:33 # Note: When using websockets behind a web server like nginx, additional 07:59:33 # configuration may be needed. 07:59:33 omero.client.icetransports=ssl,tcp 07:59:33 07:59:33 # The prefix to apply to all port numbers (SSL, TCP, registry) used by the 07:59:33 # server 07:59:33 omero.ports.prefix= 07:59:33 07:59:33 # The Glacier2 SSL port number to use 07:59:33 omero.ports.ssl=4064 07:59:33 07:59:33 # The Glacier2 TCP port number to use (unencrypted) 07:59:33 omero.ports.tcp=4063 07:59:33 07:59:33 # The Glacier2 WSS port number to use 07:59:33 omero.ports.wss=4066 07:59:33 07:59:33 # The Glacier2 WS port number to use (unencrypted) 07:59:33 omero.ports.ws=4065 07:59:33 07:59:33 # The IceGrid registry port number to use 07:59:33 omero.ports.registry=4061 07:59:33 07:59:33 ############################################# 07:59:33 ## JVM configuration 07:59:33 ## 07:59:33 ## Note: changes to the omero.jvmcfg properties 07:59:33 ## will *not* be reflected in OMERO.server 07:59:33 ## since they are defined in OMERO.py. 07:59:33 ############################################# 07:59:33 ## (For documentation only) 07:59:33 # Memory strategy which will be used by default. 07:59:33 # Options include: percent, manual 07:59:33 omero.jvmcfg.strategy=percent 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Explicit value for the `-Xmx` argument, e.g. 07:59:33 # "1g" 07:59:33 omero.jvmcfg.heap_size= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Explicit value for the MaxPermSize argument 07:59:33 # to the JVM, e.g. "500M". Ignored for Java8+ 07:59:33 omero.jvmcfg.perm_gen= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Toggles on or off heap dumps on OOMs. Default is "off". 07:59:33 # The special value "tmp" will create the heap dumps in 07:59:33 # your temp directory. 07:59:33 omero.jvmcfg.heap_dump= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Used only by the percent strategy. An integer between 0 07:59:33 # and 100 which is the percent of active memory that will 07:59:33 # be used by the service. 07:59:33 omero.jvmcfg.percent= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Contains other parameters which should be passed to the 07:59:33 # JVM. The value of "append" is treated as if it were on 07:59:33 # the command line so will be separated on whitespace. 07:59:33 # For example, '\''-XX:-PrintGC -XX:+UseCompressedOops'\'' would 07:59:33 # results in two new arguments. 07:59:33 # Note that when using `config set` from the command line 07:59:33 # one may need to give a prior `--` option to prevent a value 07:59:33 # starting with `-` from already being parsed as an option, 07:59:33 # and values may need quoting to prevent whitespace or other 07:59:33 # significant characters from being interpreted prematurely. 07:59:33 07:59:33 omero.jvmcfg.append= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Manual override of the total system memory that 07:59:33 # OMERO will *think* is present on the local OS (MB). 07:59:33 # If unset, an attempt will be made to detect the actual 07:59:33 # amount: first by using the Python library `psutil` and 07:59:33 # if that is not installed, by running a Java tool. If 07:59:33 # neither works, 4.0GB is assumed. 07:59:33 omero.jvmcfg.system_memory= 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Suggestion for strategies as to the minimum memory 07:59:33 # that they will use for calculating JVM settings (MB). 07:59:33 omero.jvmcfg.min_system_memory=3414 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Suggestion for strategies as to the maximum memory 07:59:33 # that they will use for calculating JVM settings (MB). 07:59:33 omero.jvmcfg.max_system_memory=48000 07:59:33 07:59:33 07:59:33 ############################################# 07:59:33 ## Logging properties 07:59:33 ## 07:59:33 ## Note: changes to the default omero.logging values in 07:59:33 ## this file will *not* be reflected in OMERO.server 07:59:33 ## since they are defined in OMERO.py 07:59:33 ############################################# 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Relative server directory where the log files should be stored. 07:59:33 omero.logging.directory=var/log/ 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Whether the server log files should be rotated at a certain time 07:59:33 # interval. If true, log files will be rolled over at midnight. 07:59:33 # Otherwise, log files will be rolled over at a predetermined size, 07:59:33 # see omero.logging.logsize for more information. 07:59:33 omero.logging.timedlog=false 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # If omero.logging.timedlog is false or unset, specifies the 07:59:33 # maximum size of the server log files in bytes above which a 07:59:33 # new log file should be created. 07:59:33 omero.logging.logsize=5000000 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # If omero.logging.timedlog is false or unset, specifies the 07:59:33 # number of old server log files that should be kept. Old log 07:59:33 # files will be saved by appending the extensions '\''.1'\'', '\''.2'\'' etc. 07:59:33 omero.logging.lognum=9 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Specifies the threshold for the Python servers log files. Logging messages 07:59:33 # which are less severe than this value will be ignored. For a list of 07:59:33 # available values, see https://docs.python.org/3/library/logging.html#levels. 07:59:33 omero.logging.level=20 07:59:33 07:59:33 ############################################# 07:59:33 ## Ice overrides 07:59:33 ## 07:59:33 ## Though not used directly by OMERO, a number 07:59:33 ## of properties prefixed with "Ice.*" will 07:59:33 ## alter the behavior of the OMERO runtime 07:59:33 ## by configuring the Ice communicators. For a 07:59:33 ## full listing see: 07:59:33 ## 07:59:33 ## http://doc.zeroc.com/display/Ice/Property+Reference 07:59:33 ## For more information see 07:59:33 ## https://docs.openmicroscopy.org/latest/omero/sysadmins/troubleshooting.html#server-fails-to-start 07:59:33 ############################################# 07:59:33 07:59:33 # Disable IPv6 by setting to 0. Only needed in 07:59:33 # certain situations. 07:59:33 Ice.IPv6=1 07:59:33 07:59:33 # Glacier2Template IceSSL defaults and overrides, 07:59:33 # see https://doc.zeroc.com/ice/3.6/property-reference/icessl. 07:59:33 # Any property beginning ``omero.glacier2.IceSSL.`` will be used to 07:59:33 # update the corresponding IceSSL. property. 07:59:33 omero.glacier2.IceSSL= 07:59:33 07:59:33 # Glacier2Template SSL maximum allowed protocol (mac bug) 07:59:33 omero.glacier2.IceSSL.ProtocolVersionMax=tls1_1 07:59:33 # Glacier2Template SSL allowed cipher suites 07:59:33 omero.glacier2.IceSSL.Ciphers=ADH:!LOW:!MD5:!EXP:!3DES:@STRENGTH 07:59:33 # Glacier2Template SSL verification requirements 07:59:33 omero.glacier2.IceSSL.VerifyPeer=0 07:59:33 # Glacier2Template SSL allowed protocols 07:59:33 omero.glacier2.IceSSL.Protocols=tls1 07:59:33 07:59:33 # Override the default set of OMERO services. 07:59:33 # For example, to run OMERO.server with Blitz and Tables only 07:59:33 # (i.e. disable Processor, DropBox, Indexer, PixelData) 07:59:33 # set this to ``master:Blitz-0,Tables-0``. 07:59:33 # Also use this to distribute OMERO services across multiple nodes, 07:59:33 # for example: 07:59:33 # ``master:Blitz-0,Tables-0 worker1:Processor-0``. 07:59:33 # See 07:59:33 # https://docs.openmicroscopy.org/omero/latest/sysadmins/grid.html#deployment-examples 07:59:33 omero.server.nodedescriptors= 07:59:33 07:59:33 ############################################# 07:59:33 ## Darwin (OS X) specific defaults for templated configuration files only. 07:59:33 ## ``_xxx.yyy.darwin`` properties will override xxx.yyy properties in this 07:59:33 ## file. 07:59:33 ## Do not set these properties in ``omero config``, instead set the original 07:59:33 ## ``xxx.yyy`` property 07:59:33 ############################################# 07:59:33 _omero.glacier2.IceSSL.Ciphers.darwin=(AES) 07:59:33 07:59:33 ## (For documentation only) 07:59:33 # Name of the Python module to use when starting the Tables service 07:59:33 omero.tables.module=runTables 07:59:33 07:59:33 ############################################# 07:59:33 ## Server product name for release artifacts 07:59:33 ############################################# 07:59:33 product.name=OMERO.server 07:59:33 07:59:33 ############################################# 07:59:33 ### Properties below this marker are ignored by 07:59:33 ### omero.install.config_parser.PropertyParser 07:59:33 ### END 07:59:33 07:59:33 ############################################# 07:59:33 ## Library versions 07:59:33 ############################################# 07:59:33 ## 07:59:33 versions.findbugs=1.2.1 07:59:33 versions.ice36=3.6.5 07:59:33 versions.ice36_lib=36 07:59:33 ## internal 07:59:33 versions.omeroshares36=3.6.3 07:59:33 versions.omeromock36=3.6.3 07:59:33 versions.icedb36=3.6.3 07:59:33 versions.ipython=1.2.1 07:59:33 07:59:33 versions.janino=2.5.10 07:59:33 07:59:33 versions.reportng=1.1.1 07:59:33 07:59:33 versions.testng=7.5 07:59:33 versions.velocity=1.4 07:59:33 07:59:33 versions.omero-pypi=https://pypi.io/packages/source/o/PACKAGE 07:59:33 versions.omero-scripts-url=${versions.omero-pypi} 07:59:33 07:59:33 ### 07:59:33 ### Appended Values 07:59:33 ### 07:59:33 07:59:33 ## Internal dependencies' 07:59:33 + echo versions.omero-pypi=https://merge-ci.openmicroscopy.org/jenkins//job/OMERO-python-superbuild-build/lastSuccessfulBuild/artifact/PACKAGE/dist/ 07:59:33 + echo versions.omero-github=https://github.com/snoopycrimecop/PACKAGE/archive 07:59:33 + echo versions.scripts-prefix= 07:59:33 + echo versions.scripts=merge_ci 07:59:33 + cat /home/omero/workspace/OMERO-push/version.properties 07:59:33 + git commit -a -m 'Add version.properties to etc/omero.properties' 07:59:33 [detached HEAD 77dcd6034a] Add version.properties to etc/omero.properties 07:59:33 1 file changed, 47 insertions(+), 7 deletions(-) 07:59:33 + git push -f git@github.com:snoopycrimecop/openmicroscopy.git HEAD:refs/heads/merge_ci 07:59:35 To github.com:snoopycrimecop/openmicroscopy.git 07:59:35 + 28b8569e14...77dcd6034a HEAD -> merge_ci (forced update) 07:59:35 Finished: SUCCESS