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Started by upstream project "BIOFORMATS-test-repo" build number 38 originally caused by: Started by upstream project "Trigger" build number 44 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins13352919960130470554.sh + '[' tillvision = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5294_merge_ci -v /uod/idr/repos/curated/tillvision:/data -v /uod/idr-scratch/merge-ci/curated/tillvision:/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 test-automated: [testng] File leak detector installed [testng] 09:30:52,139 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 09:30:52,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 09:30:52,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 09:30:52,198 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 09:30:52,206 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 09:30:52,206 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 09:30:52,206 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 09:30:52,207 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 09:30:52,207 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 09:30:52,207 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 09:30:52,208 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 525 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-19 09:30:52,219] [main] java.version = 1.8.0_342 [testng] 09:30:52,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 09:30:52,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:30:52,297 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-19_09-30-52.log] [testng] 09:30:52,300 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-19 09:30:52,303] [main] testng.directory = /data [testng] [2024-04-19 09:30:52,303] [main] testng.configDirectory = /config [testng] [2024-04-19 09:30:52,322] [main] testng.multiplier = 1.0 [testng] [2024-04-19 09:30:52,323] [main] testng.in-memory = false [testng] [2024-04-19 09:30:52,323] [main] testng.allow-missing = false [testng] [2024-04-19 09:30:52,323] [main] user.language = en [testng] [2024-04-19 09:30:52,323] [main] user.country = ${user.country} [testng] [2024-04-19 09:30:52,323] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-19 09:30:54,101] [main] ---------------------------------------- [testng] [2024-04-19 09:30:54,101] [main] Total files: 46 [testng] [2024-04-19 09:30:54,101] [main] Scan time: 1.778 s (38 ms/file) [testng] [2024-04-19 09:30:54,101] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 25 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-19 09:31:12,795] [pool-1-thread-1] Initializing /data/venu/060310/drug addition _BAM.vws: [testng] 09:31:12,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 09:31:12,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:12,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-19_09-31-12.log] [testng] 09:31:12,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ce9305a - End of configuration. [testng] [2024-04-19 09:31:12,922] [pool-1-thread-12] Initializing /data/ian/non_working_tillvision_vws/20120404.vws: [testng] 09:31:12,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 09:31:12,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:12,923 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-19_09-31-12.log] [testng] 09:31:12,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23f73786 - End of configuration. [testng] [2024-04-19 09:31:16,546] [pool-1-thread-11] Initializing /data/venu/060310/1_glass bottom dish_fluorescence snapshot.tif: [testng] 09:31:16,547 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 09:31:16,547 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,548 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-19_09-31-16.log] [testng] 09:31:16,548 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a6247d3 - End of configuration. [testng] [2024-04-19 09:31:16,578] [pool-1-thread-10] Initializing /data/venu/060310/1_ drug addition actual test_ glass_Wrkspc6.vws: [testng] 09:31:16,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 09:31:16,579 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-19_09-31-16.log] [testng] 09:31:16,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a3b5a1c - End of configuration. [testng] [2024-04-19 09:31:16,592] [pool-1-thread-9] Initializing /data/stephan/two sequences.vws: [testng] 09:31:16,592 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 09:31:16,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,593 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-19_09-31-16.log] [testng] 09:31:16,593 |-INFO in ch.qos.logback.core.sift.SiftProcessor@284a4f24 - End of configuration. [testng] [2024-04-19 09:31:16,605] [pool-1-thread-8] Initializing /data/samples/fibre.vws: [testng] 09:31:16,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 09:31:16,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,606 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-19_09-31-16.log] [testng] 09:31:16,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50f0d5ba - End of configuration. [testng] [2024-04-19 09:31:16,626] [pool-1-thread-7] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc2.vws: [testng] 09:31:16,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 09:31:16,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-19_09-31-16.log] [testng] 09:31:16,627 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33815518 - End of configuration. [testng] [2024-04-19 09:31:16,676] [pool-1-thread-6] Initializing /data/imagesc-84715/not working.vws: [testng] 09:31:16,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 09:31:16,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,677 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-19_09-31-16.log] [testng] 09:31:16,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7157f89f - End of configuration. [testng] [2024-04-19 09:31:16,895] [pool-1-thread-5] Initializing /data/andreas/090811E1.vws: [testng] 09:31:16,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 09:31:16,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:16,896 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-19_09-31-16.log] [testng] 09:31:16,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@915953b - End of configuration. [testng] [2024-04-19 09:31:20,159] [pool-1-thread-4] Initializing /data/christian/080807epi/080807epi2.vws: [testng] 09:31:20,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 09:31:20,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:20,161 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-19_09-31-20.log] [testng] 09:31:20,161 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fc3a721 - End of configuration. [testng] [2024-04-19 09:31:20,257] [pool-1-thread-3] Initializing /data/imagesc-84715/working.vws: [testng] 09:31:20,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 09:31:20,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:20,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-19_09-31-20.log] [testng] 09:31:20,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61e2e53f - End of configuration. [testng] [2024-04-19 09:31:20,667] [pool-1-thread-2] Initializing /data/venu/060310/Visible parts of Fluorescence 380nm1_test1.tif: [testng] 09:31:20,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 09:31:20,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:31:20,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-19_09-31-20.log] [testng] 09:31:20,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@632154e8 - End of configuration. [testng] [2024-04-19 09:31:22,193] [pool-1-thread-8] Initializing /data/ian/working_tillvision_vws/20120322.vws: [testng] [2024-04-19 09:31:25,793] [pool-1-thread-11] Initializing /data/venu/060310/1_glass bottom dish snapshot.tif: [testng] [2024-04-19 09:31:25,816] [pool-1-thread-2] Initializing /data/andreas/090812E4.vws: [testng] [2024-04-19 09:31:26,765] [pool-1-thread-10] Initializing /data/oliver/TillVision-Data-2-from-Oliver-Mueller-Homburg-Germany/2006 DG2 V1 Indo-1 Ratte.vws: [testng] [2024-04-19 09:31:27,402] [pool-1-thread-9] Initializing /data/venu/060310/drug addition protocol testing_Wrkspc3.vws: [testng] [2024-04-19 09:31:27,631] [pool-1-thread-4] Initializing /data/gerhard/test.vws: [testng] [2024-04-19 09:31:27,904] [pool-1-thread-11] Initializing /data/venu/060310/Fluorescence 340nm1_test 1.tif: [testng] [2024-04-19 09:31:28,155] [pool-1-thread-7] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc1.vws: [testng] [2024-04-19 09:31:28,172] [pool-1-thread-1] Initializing /data/venu/060310/060310_glass_Wrkspc1.vws: [testng] [2024-04-19 09:31:29,948] [pool-1-thread-6] Initializing /data/christian/080807ionophore/080807ionophore3.vws: [testng] [2024-04-19 09:31:30,094] [pool-1-thread-11] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated BAM_Wrkspc1.vws: [testng] [2024-04-19 09:31:30,370] [pool-1-thread-4] Initializing /data/qinghai/TillvisIOn Sample Dataset/Bgr.vws: [testng] [2024-04-19 09:31:30,641] [pool-1-thread-9] Initializing /data/venu/061410/Rat LD muscle fibers Wrkspc3.vws: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1325, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 59 seconds Finished: SUCCESS