Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins16956175212562796897.sh + '[' li-flim = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4113_merge_ci -v /uod/idr/repos/curated/li-flim:/data -v /uod/idr-scratch/merge-ci/curated/li-flim:/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] 07:18:29,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:18:29,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:18:29,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:18:29,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:18:29,790 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:18:29,791 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:18:29,791 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:18:29,791 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:18:29,791 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 07:18:29,792 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 07:18:29,792 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 466 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 07:18:29,803] [main] java.version = 1.8.0_342 [testng] 07:18:29,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:18:29,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:29,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_07-18-29.log] [testng] 07:18:29,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 07:18:29,857] [main] testng.directory = /data [testng] [2024-04-12 07:18:29,857] [main] testng.configDirectory = /config [testng] [2024-04-12 07:18:29,870] [main] testng.multiplier = 1.0 [testng] [2024-04-12 07:18:29,870] [main] testng.in-memory = false [testng] [2024-04-12 07:18:29,870] [main] testng.allow-missing = false [testng] [2024-04-12 07:18:29,870] [main] user.language = en [testng] [2024-04-12 07:18:29,870] [main] user.country = ${user.country} [testng] [2024-04-12 07:18:29,870] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 07:18:30,803] [main] ---------------------------------------- [testng] [2024-04-12 07:18:30,803] [main] Total files: 28 [testng] [2024-04-12 07:18:30,803] [main] Scan time: 0.933 s (33 ms/file) [testng] [2024-04-12 07:18:30,804] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 26 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 07:18:33,500] [pool-1-thread-1] Initializing /data/samples/reference-extended.fli: [testng] 07:18:33,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:18:33,501 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_07-18-33.log] [testng] 07:18:33,502 |-INFO in ch.qos.logback.core.sift.SiftProcessor@459fac25 - End of configuration. [testng] [2024-04-12 07:18:33,581] [pool-1-thread-12] Initializing /data/qian/vxl-mbad-737-1um-01687.fli: [testng] 07:18:33,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:18:33,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,582 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_07-18-33.log] [testng] 07:18:33,582 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55d59b97 - End of configuration. [testng] [2024-04-12 07:18:33,609] [pool-1-thread-11] Initializing /data/qa-17164/ExampleFile - LiFlimReader fix ExposureTime .fli: [testng] 07:18:33,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:18:33,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,609 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_07-18-33.log] [testng] 07:18:33,610 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12bc3cdb - End of configuration. [testng] [2024-04-12 07:18:33,636] [pool-1-thread-10] Initializing /data/jean-marie/Flimdata/A Reference fluorescein4ns-CFPbpFILTER.fli: [testng] 07:18:33,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:18:33,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,637 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_07-18-33.log] [testng] 07:18:33,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@585193bf - End of configuration. [testng] [2024-04-12 07:18:33,664] [pool-1-thread-9] Initializing /data/LambertInstruments/LambertInstruments-fli-2/16-8bit_CameraSimulator_LI-Camera-Simulator.fli: [testng] 07:18:33,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:18:33,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,665 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_07-18-33.log] [testng] 07:18:33,665 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45436012 - End of configuration. [testng] [2024-04-12 07:18:33,687] [pool-1-thread-8] Initializing /data/jean-marie/Flimdata/lif_A Sample CFP-and-CFPYFP-cells-CFPbpFILTER.fli: [testng] 07:18:33,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:18:33,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,688 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_07-18-33.log] [testng] 07:18:33,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29d64c49 - End of configuration. [testng] [2024-04-12 07:18:33,713] [pool-1-thread-7] Initializing /data/samples/lifetime-extended.fli: [testng] 07:18:33,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:18:33,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,714 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_07-18-33.log] [testng] 07:18:33,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d35a669 - End of configuration. [testng] [2024-04-12 07:18:33,734] [pool-1-thread-6] Initializing /data/samples/sample-extended.fli: [testng] 07:18:33,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:18:33,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_07-18-33.log] [testng] 07:18:33,736 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59389b5f - End of configuration. [testng] [2024-04-12 07:18:33,770] [pool-1-thread-5] Initializing /data/jean-marie/Flimdata/lif_D Sample CFPYFP-cells-CFPbpFILTER-multifreq.fli: [testng] 07:18:33,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:18:33,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,771 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_07-18-33.log] [testng] 07:18:33,772 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76304ad5 - End of configuration. [testng] [2024-04-12 07:18:33,816] [pool-1-thread-4] Initializing /data/rharkes/2018-11-28_10.04.10_sample_Rhodamine6G.fli: [testng] 07:18:33,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:18:33,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_07-18-33.log] [testng] 07:18:33,817 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77c3db16 - End of configuration. [testng] [2024-04-12 07:18:33,850] [pool-1-thread-3] Initializing /data/jean-marie/Flimdata/C Sample CFP-and-CFPYFP-cells-CFPbpFILTER-slow timelapse.fli: [testng] 07:18:33,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:18:33,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,850 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_07-18-33.log] [testng] 07:18:33,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b9117c5 - End of configuration. [testng] [2024-04-12 07:18:33,880] [pool-1-thread-2] Initializing /data/LambertInstruments/cp70-euresys_Lambert HS1000_1875-ST-250(msb).fli: [testng] 07:18:33,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:18:33,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:18:33,881 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_07-18-33.log] [testng] 07:18:33,881 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a5e3664 - End of configuration. [testng] [2024-04-12 07:18:35,568] [pool-1-thread-1] Initializing /data/jean-marie/Flimdata/A Sample CFP-and-CFPYFP-cells-CFPbpFILTER.fli: [testng] [2024-04-12 07:18:35,594] [pool-1-thread-6] Initializing /data/LambertInstruments/cp70-siso_Lambert HS1000_1875-ST-250(lsb).fli: [testng] [2024-04-12 07:18:35,716] [pool-1-thread-7] Initializing /data/jean-marie/Flimdata/lif_E Sample Typical-Dicot-Root-Zserie-CSU22.fli: [testng] [2024-04-12 07:18:35,824] [pool-1-thread-2] Initializing /data/jean-marie/Flimdata/lif_C Sample CFP-and-CFPYFP-cells-CFPbpFILTER-slow timelapse.fli: [testng] [2024-04-12 07:18:35,926] [pool-1-thread-11] Initializing /data/samples/reference-simple.fli: [testng] [2024-04-12 07:18:36,236] [pool-1-thread-5] Initializing /data/samples/sample-simple.fli: [testng] [2024-04-12 07:18:36,248] [pool-1-thread-4] Initializing /data/jean-marie/IMG_4935.JPG: [testng] [2024-04-12 07:18:36,588] [pool-1-thread-9] Initializing /data/jean-marie/Flimdata/E Sample Typical-Dicot-Root-Zserie-CSU22.fli: [testng] [2024-04-12 07:18:36,640] [pool-1-thread-8] Initializing /data/jean-marie/Flimdata/D Sample CFPYFP-cells-CFPbpFILTER-multifreq.fli: [testng] [2024-04-12 07:18:36,758] [pool-1-thread-10] Initializing /data/jean-marie/Flimdata/E Reference fluorescein4ns-CSU22.fli: [testng] [2024-04-12 07:18:37,024] [pool-1-thread-12] Initializing /data/LambertInstruments/LambertInstruments-fli-2/15-8bit_CameraSimulator_LI-Camera-Simulator.fli: [testng] [2024-04-12 07:18:37,305] [pool-1-thread-11] Initializing /data/samples/lifetime-simple.fli: [testng] [2024-04-12 07:18:37,336] [pool-1-thread-5] Initializing /data/jean-marie/Flimdata/C Reference fluorescein4ns-CFPbpFILTER.fli: [testng] [2024-04-12 07:18:37,664] [pool-1-thread-11] Initializing /data/jean-marie/IMG_4936.JPG: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1378, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 21 seconds Finished: SUCCESS