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Started by upstream project "BIOFORMATS-test-repo" build number 398 originally caused by: Started by upstream project "Trigger" build number 484 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@19 [BIOFORMATS-test-folder@19] $ /bin/bash -xe /tmp/jenkins16738677307984345564.sh + '[' slidebook7 = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_62827_merge_ci -v /uod/idr/repos/curated/slidebook7:/data -v /uod/idr-scratch/merge-ci/curated/slidebook7:/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] 01:43:59,987 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 01:43:59,988 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 01:43:59,988 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:43:59,989 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:43:59,989 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:43:59,990 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:43:59,990 |-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] 01:43:59,990 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:43:59,990 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:43:59,991 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:43:59,991 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:43:59,991 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:44:00,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:44:00,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:44:00,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:44:00,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:44:00,182 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:44:00,182 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:44:00,182 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:44:00,183 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:44:00,183 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 01:44:00,184 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 01:44:00,184 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-05-18 01:44:00,192] [main] java.version = 17.0.2 [testng] 01:44:00,195 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:44:00,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:00,235 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-05-18_01-44-00.log] [testng] 01:44:00,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-05-18 01:44:00,239] [main] testng.directory = /data [testng] [2025-05-18 01:44:00,239] [main] testng.configDirectory = /config [testng] [2025-05-18 01:44:00,248] [main] testng.multiplier = 1.0 [testng] [2025-05-18 01:44:00,249] [main] testng.in-memory = false [testng] [2025-05-18 01:44:00,249] [main] testng.allow-missing = false [testng] [2025-05-18 01:44:00,249] [main] user.language = en [testng] [2025-05-18 01:44:00,249] [main] user.country = ${user.country} [testng] [2025-05-18 01:44:00,249] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-05-18 02:01:06,997] [main] ---------------------------------------- [testng] [2025-05-18 02:01:06,997] [main] Total files: 51 [testng] [2025-05-18 02:01:06,997] [main] Scan time: 1026.748 s (20132 ms/file) [testng] [2025-05-18 02:01:06,997] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test /data/QwickTour/QweekTour.sldy [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-05-18 02:24:19,419] [pool-1-thread-1] Initializing /data/QwickTour/QweekTour.sldy: [testng] 02:24:19,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:24:19,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:24:19,420 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-05-18_02-24-19.log] [testng] 02:24:19,421 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4980c721 - End of configuration. [testng] [2025-05-18 02:24:29,097] [pool-1-thread-1] DeltaT: FAILED (missing series 0, plane 150) [testng] [2025-05-18 02:24:29,102] [pool-1-thread-1] ImageDescriptions: FAILED (Series 0 (got 'DAPI: DNA, FITC: Ig, CY3: tubulin,', expected 'DAPI: DNA, FITC: Ig, CY3: tubulin,slice')) [testng] [2025-05-18 02:24:29,103] [pool-1-thread-1] ImageNames: FAILED (Series 0 (got 'Metaphase B-Cell', expected 'Metaphase B-Cell - 1')) [testng] [2025-05-18 02:25:41,173] [pool-1-thread-1] PlanePositions: FAILED (Z position series 0, plane 3 (expected 0.0, actual 0.10000000149011612)) [testng] [2025-05-18 02:26:39,418] [pool-1-thread-1] SizeC: FAILED (Series 0 (expected 6, actual 3)) [testng] [2025-05-18 02:26:59,299] [pool-1-thread-1] testUnflattenedImageNames: FAILED (Series 0 (got 'Metaphase B-Cell', expected 'Metaphase B-Cell - 1' or 'null')) [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 53, Failures: 11, Skips: 0 [testng] =============================================== [testng] [testng] The tests failed. BUILD FAILED /bio-formats-build/bioformats/components/test-suite/build.xml:270: if=failedTest Total time: 43 minutes 52 seconds Build step 'Execute shell' marked build as failure Finished: FAILURE