Started by upstream project "BIOFORMATS-test-repo" build number 394
originally caused by:
Started by upstream project "Trigger" build number 463
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@20
[BIOFORMATS-test-folder@20] $ /bin/bash -xe /tmp/jenkins5422482293842202832.sh
+ '[' scanr = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_62258_merge_ci -v /uod/idr/repos/curated/scanr:/data -v /uod/idr-scratch/merge-ci/curated/scanr:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12
Buildfile: /bio-formats-build/bioformats/components/test-suite/build.xml
[echo] isSnapshot = true
init-title:
[echo] ----------=========== bio-formats-testing-framework ===========----------
init-timestamp:
init:
copy-resources:
compile:
[resolver:resolve] Resolving artifacts
compile-tests:
[resolver:resolve] Resolving artifacts
[javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test
[javac] warning: [options] bootstrap class path not set in conjunction with -source 8
[javac] 1 warning
test-automated:
[testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket
[testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket
[testng] File leak detector installed
[testng] 05:12:05,380 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 05:12:05,381 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service.
[testng] 05:12:05,381 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:12:05,382 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:12:05,383 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:12:05,383 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:12:05,383 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:12:05,383 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:12:05,384 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:12:05,384 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:12:05,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:12:05,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:12:05,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:12:05,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:12:05,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:12:05,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:12:05,580 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:12:05,580 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:12:05,580 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:12:05,580 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:12:05,581 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration.
[testng] 05:12:05,581 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point
[testng] 05:12:05,581 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-05-07 05:12:05,591] [main] java.version = 17.0.2
[testng] 05:12:05,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:12:05,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:12:05,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-05-07_05-12-05.log]
[testng] 05:12:05,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration.
[testng] [2025-05-07 05:12:05,638] [main] testng.directory = /data
[testng] [2025-05-07 05:12:05,638] [main] testng.configDirectory = /config
[testng] [2025-05-07 05:12:05,647] [main] testng.multiplier = 1.0
[testng] [2025-05-07 05:12:05,648] [main] testng.in-memory = false
[testng] [2025-05-07 05:12:05,648] [main] testng.allow-missing = false
[testng] [2025-05-07 05:12:05,648] [main] user.language = en
[testng] [2025-05-07 05:12:05,648] [main] user.country = ${user.country}
[testng] [2025-05-07 05:12:05,648] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-05-07 05:39:31,356] [main] ----------------------------------------
[testng] [2025-05-07 05:39:31,356] [main] Total files: 2169
[testng] [2025-05-07 05:39:31,356] [main] Scan time: 1645.708 s (758 ms/file)
[testng] [2025-05-07 05:39:31,356] [main] ----------------------------------------
[testng] [2025-05-07 06:23:23,865] [main] setId("/data/options/emptywells/0307-10--2007-05-30/data/--W00282--P00001--Z00000--T00000--vsvg-cfp.tif") failed
[testng] java.io.FileNotFoundException: /data/options/emptywells/0307-10--2007-05-30/data/--W00282--P00001--Z00000--T00000--vsvg-cfp.tif (Permission denied)
[testng] at java.base/java.io.RandomAccessFile.open0(Native Method)
[testng] at java.base/java.io.RandomAccessFile.open(RandomAccessFile.java:344)
[testng] at java.base/java.io.RandomAccessFile.<init>(RandomAccessFile.java:259)
[testng] at java.base/java.io.RandomAccessFile.<init>(RandomAccessFile.java:213)
[testng] at loci.common.NIOFileHandle.<init>(NIOFileHandle.java:130)
[testng] at loci.common.NIOFileHandle.<init>(NIOFileHandle.java:151)
[testng] at loci.common.NIOFileHandle.<init>(NIOFileHandle.java:165)
[testng] at loci.common.Location.getHandle(Location.java:522)
[testng] at loci.common.Location.getHandle(Location.java:462)
[testng] at loci.common.Location.getHandle(Location.java:443)
[testng] at loci.common.Location.getHandle(Location.java:426)
[testng] at loci.common.Location.checkValidId(Location.java:551)
[testng] at loci.formats.ImageReader.getReader(ImageReader.java:183)
[testng] at loci.formats.ImageReader.setId(ImageReader.java:859)
[testng] at loci.tests.testng.FormatReaderTestFactory.createInstances(FormatReaderTestFactory.java:251)
[testng] at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
[testng] at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
[testng] at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
[testng] at java.base/java.lang.reflect.Method.invoke(Method.java:568)
[testng] at org.testng.internal.FactoryMethod.invoke(FactoryMethod.java:81)
[testng] at org.testng.internal.TestNGClassFinder.<init>(TestNGClassFinder.java:140)
[testng] at org.testng.TestRunner.initMethods(TestRunner.java:409)
[testng] at org.testng.TestRunner.init(TestRunner.java:235)
[testng] at org.testng.TestRunner.init(TestRunner.java:205)
[testng] at org.testng.TestRunner.<init>(TestRunner.java:153)
[testng] at org.testng.SuiteRunner$DefaultTestRunnerFactory.newTestRunner(SuiteRunner.java:522)
[testng] at org.testng.SuiteRunner.init(SuiteRunner.java:157)
[testng] at org.testng.SuiteRunner.<init>(SuiteRunner.java:111)
[testng] at org.testng.TestNG.createSuiteRunner(TestNG.java:1273)
[testng] at org.testng.TestNG.createSuiteRunners(TestNG.java:1260)
[testng] at org.testng.TestNG.runSuitesLocally(TestNG.java:1114)
[testng] at org.testng.TestNG.run(TestNG.java:1031)
[testng] at org.testng.TestNG.privateMain(TestNG.java:1338)
[testng] at org.testng.TestNG.main(TestNG.java:1307)
[testng] [2025-05-07 07:10:01,114] [main] setId failed on [/data/options/emptywells/0307-10--2007-05-30/data/--W00282--P00001--Z00000--T00000--vsvg-cfp.tif]
[testng] [TestNG] [Error]
[testng] The factory method class loci.tests.testng.FormatReaderTestFactory.createInstances() threw an exception
[testng] The tests failed.
BUILD FAILED
/bio-formats-build/bioformats/components/test-suite/build.xml:270: if=failedTest
Total time: 118 minutes 2 seconds
Build step 'Execute shell' marked build as failure
Finished: FAILURE