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.(RandomAccessFile.java:259) [testng] at java.base/java.io.RandomAccessFile.(RandomAccessFile.java:213) [testng] at loci.common.NIOFileHandle.(NIOFileHandle.java:130) [testng] at loci.common.NIOFileHandle.(NIOFileHandle.java:151) [testng] at loci.common.NIOFileHandle.(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.(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.(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.(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