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Started by upstream project "BIOFORMATS-test-repo" build number 392 originally caused by: Started by upstream project "Trigger" build number 416 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins4203116851578866972.sh + '[' micromanager = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_61963_merge_ci -v /uod/idr/repos/curated/micromanager:/data -v /uod/idr-scratch/merge-ci/curated/micromanager:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 14:15:17,669 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 14:15:17,671 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 14:15:17,671 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:15:17,672 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:15:17,672 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 14:15:17,672 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 14:15:17,673 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 14:15:17,673 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:15:17,673 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:15:17,674 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 14:15:17,674 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 14:15:17,674 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 14:15:17,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 14:15:17,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 14:15:17,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 14:15:17,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 14:15:17,853 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 14:15:17,853 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 14:15:17,854 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 14:15:17,854 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 14:15:17,854 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 14:15:17,855 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 14:15:17,855 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 182 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-27 14:15:17,863] [main] java.version = 21 [testng] 14:15:17,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 14:15:17,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:15:17,907 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-27_14-15-17.log] [testng] 14:15:17,908 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-27 14:15:17,910] [main] testng.directory = /data [testng] [2025-03-27 14:15:17,910] [main] testng.configDirectory = /config [testng] [2025-03-27 14:15:17,919] [main] testng.multiplier = 1.0 [testng] [2025-03-27 14:15:17,920] [main] testng.in-memory = false [testng] [2025-03-27 14:15:17,920] [main] testng.allow-missing = false [testng] [2025-03-27 14:15:17,920] [main] user.language = en [testng] [2025-03-27 14:15:17,920] [main] user.country = ${user.country} [testng] [2025-03-27 14:15:17,920] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-27 14:38:58,368] [main] ---------------------------------------- [testng] [2025-03-27 14:38:58,369] [main] Total files: 1686 [testng] [2025-03-27 14:38:58,369] [main] Scan time: 1420.448 s (842 ms/file) [testng] [2025-03-27 14:38:58,370] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 49 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-27 15:40:19,006] [pool-1-thread-1] Initializing /data/nico/MM_test_0/img_0_Cy5_0.tif: [testng] 15:40:19,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 15:40:19,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:40:19,008 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-27_15-40-19.log] [testng] 15:40:19,008 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bc90b9e - End of configuration. [testng] [2025-03-27 15:40:52,931] [pool-1-thread-12] Initializing /data/public/1.4.16/serge/Pos2/img_000000000_00-BF0_000.tif: [testng] 15:40:52,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 15:40:52,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:40:52,931 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-27_15-40-52.log] [testng] 15:40:52,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e7f6f4e - End of configuration. [testng] [2025-03-27 15:41:28,470] [pool-1-thread-11] Initializing /data/pr-3253/img_000000000__000.tif: [testng] 15:41:28,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 15:41:28,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:41:28,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-27_15-41-28.log] [testng] 15:41:28,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25d5bb61 - End of configuration. [testng] [2025-03-27 15:41:54,343] [pool-1-thread-10] Initializing /data/qa-4984/img_000000000__000.tif: [testng] 15:41:54,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 15:41:54,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:41:54,344 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-27_15-41-54.log] [testng] 15:41:54,344 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c6403b6 - End of configuration. [testng] [2025-03-27 15:42:16,388] [pool-1-thread-9] Initializing /data/public/1.4.16/serge/Pos1/img_000000000_00-BF0_000.tif: [testng] 15:42:16,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 15:42:16,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:42:16,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-27_15-42-16.log] [testng] 15:42:16,389 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10285779 - End of configuration. [testng] [2025-03-27 15:42:49,414] [pool-1-thread-8] Initializing /data/eric/GFP-Aladin mCh-Tub_1/Acqusition.xml: [testng] 15:42:49,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 15:42:49,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:42:49,415 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-27_15-42-49.log] [testng] 15:42:49,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4232376f - End of configuration. [testng] [2025-03-27 15:43:29,764] [pool-1-thread-7] Initializing /data/scott/EMonslicefurst2Time_0/img_000000000_491_000.tif: [testng] 15:43:29,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 15:43:29,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:43:29,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-27_15-43-29.log] [testng] 15:43:29,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dcee0a8 - End of configuration. [testng] [2025-03-27 15:43:57,309] [pool-1-thread-6] Initializing /data/scott/EMoffchanfurst2Time_0/img_000000000_491_000.tif: [testng] 15:43:57,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 15:43:57,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:43:57,310 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-27_15-43-57.log] [testng] 15:43:57,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59ee1a69 - End of configuration. [testng] [2025-03-27 15:44:28,171] [pool-1-thread-5] Initializing /data/public/1.4.22/thomas/test/test2_sep/Pos0/metadata.txt: [testng] 15:44:28,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 15:44:28,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:44:28,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-27_15-44-28.log] [testng] 15:44:28,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19a64fcb - End of configuration. [testng] [2025-03-27 15:44:47,564] [pool-1-thread-4] Initializing /data/qa-17040/hyper2.0_1_MMStack_1-Pos_000_001_metadata.txt: [testng] 15:44:47,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 15:44:47,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:44:47,565 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-27_15-44-47.log] [testng] 15:44:47,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71d759e4 - End of configuration. [testng] [2025-03-27 15:45:06,900] [pool-1-thread-3] Initializing /data/public/1.4.23/jens/fucci_GFP-geminin_RFP-cdt1_2_MMStack_Pos0_metadata.txt: [testng] 15:45:06,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 15:45:06,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:45:06,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-27_15-45-06.log] [testng] 15:45:06,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38503342 - End of configuration. [testng] [2025-03-27 15:45:22,258] [pool-1-thread-2] Initializing /data/eric/GFP-Aladin mCh-Tub_3/Acqusition.xml: [testng] 15:45:22,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 15:45:22,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:45:22,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-27_15-45-22.log] [testng] 15:45:22,260 |-INFO in ch.qos.logback.core.sift.SiftProcessor@151a59 - End of configuration. [testng] [2025-03-27 15:50:01,973] [pool-1-thread-4] Initializing /data/kally/img_000000000_Brightfield_000.tif: [testng] [2025-03-27 15:50:41,628] [pool-1-thread-3] Initializing /data/public/1.4.16/serge/Pos0/img_000000000_00-BF0_000.tif: [testng] [2025-03-27 15:51:27,179] [pool-1-thread-10] Initializing /data/public/1.4.22/sebastien/Test_Dataset_MultiPosition_Stack_1_MMStack_Pos0_metadata.txt: [testng] [2025-03-27 15:52:10,252] [pool-1-thread-11] Initializing /data/david/trial 2 part 3 40x_0/Acqusition.xml: [testng] [2025-03-27 15:55:45,036] [pool-1-thread-5] Initializing /data/public/1.4.22/thomas/test/test_sep/Pos0/img_000000000_FITC_000.tif: Build was aborted Calling Pipeline was cancelled Finished: ABORTED