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Started by upstream project "BIOFORMATS-test-repo" build number 384 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/jenkins3001925124118512053.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60749_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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] 13:24:32,067 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 13:24:32,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 13:24:32,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:24:32,069 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:24:32,070 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:24:32,070 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:24:32,070 |-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] 13:24:32,070 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:24:32,071 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:24:32,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:24:32,072 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:24:32,072 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:24:32,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:24:32,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:24:32,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:24:32,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:24:32,252 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:24:32,252 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:24:32,252 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:24:32,252 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:24:32,253 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 13:24:32,253 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 13:24:32,253 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 182 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-19 13:24:32,262] [main] java.version = 17.0.2 [testng] 13:24:32,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:24:32,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:32,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-19_13-24-32.log] [testng] 13:24:32,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-19 13:24:32,310] [main] testng.directory = /data [testng] [2025-03-19 13:24:32,311] [main] testng.configDirectory = /config [testng] [2025-03-19 13:24:32,319] [main] testng.multiplier = 1.0 [testng] [2025-03-19 13:24:32,320] [main] testng.in-memory = false [testng] [2025-03-19 13:24:32,320] [main] testng.allow-missing = false [testng] [2025-03-19 13:24:32,320] [main] user.language = en [testng] [2025-03-19 13:24:32,320] [main] user.country = ${user.country} [testng] [2025-03-19 13:24:32,320] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-19 13:25:02,683] [main] ---------------------------------------- [testng] [2025-03-19 13:25:02,684] [main] Total files: 25 [testng] [2025-03-19 13:25:02,684] [main] Scan time: 30.362 s (1214 ms/file) [testng] [2025-03-19 13:25:02,684] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-19 13:25:37,458] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 13:25:37,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:25:37,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:37,460 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-19_13-25-37.log] [testng] 13:25:37,460 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40321646 - End of configuration. [testng] [2025-03-19 13:25:37,580] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 13:25:37,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:25:37,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:37,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-19_13-25-37.log] [testng] 13:25:37,582 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dc10141 - End of configuration. [testng] [2025-03-19 13:25:37,700] [pool-1-thread-11] Initializing /data/imagic/1-1.dm2: [testng] 13:25:37,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:25:37,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:37,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-19_13-25-37.log] [testng] 13:25:37,704 |-INFO in ch.qos.logback.core.sift.SiftProcessor@709556e1 - End of configuration. [testng] [2025-03-19 13:25:38,303] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 13:25:38,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:25:38,304 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:38,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-19_13-25-38.log] [testng] 13:25:38,305 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e5b4840 - End of configuration. [testng] [2025-03-19 13:25:38,447] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 13:25:38,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:25:38,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:38,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-19_13-25-38.log] [testng] 13:25:38,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9b599d8 - End of configuration. [testng] [2025-03-19 13:25:39,059] [pool-1-thread-8] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 13:25:39,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:25:39,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:39,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-19_13-25-39.log] [testng] 13:25:39,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9827241 - End of configuration. [testng] [2025-03-19 13:25:39,155] [pool-1-thread-7] Initializing /data/imagic/13008.dm2: [testng] 13:25:39,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:25:39,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:39,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-19_13-25-39.log] [testng] 13:25:39,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@303ad8a6 - End of configuration. [testng] [2025-03-19 13:25:39,778] [pool-1-thread-6] Initializing /data/pang/grating025k.dm2: [testng] 13:25:39,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:25:39,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:39,779 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-19_13-25-39.log] [testng] 13:25:39,780 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2355373 - End of configuration. [testng] [2025-03-19 13:25:40,103] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 13:25:40,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:25:40,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:40,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-19_13-25-40.log] [testng] 13:25:40,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@562447f0 - End of configuration. [testng] [2025-03-19 13:25:40,199] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 13:25:40,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:25:40,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:40,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-19_13-25-40.log] [testng] 13:25:40,200 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b2cb0c6 - End of configuration. [testng] [2025-03-19 13:25:40,312] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 13:25:40,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:25:40,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:40,313 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-19_13-25-40.log] [testng] 13:25:40,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e1d3580 - End of configuration. [testng] [2025-03-19 13:25:40,980] [pool-1-thread-2] Initializing /data/imagic/TEM 10118.dm2: [testng] 13:25:40,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:25:40,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:25:40,981 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-19_13-25-40.log] [testng] 13:25:40,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d6d4151 - End of configuration. [testng] [2025-03-19 13:25:46,455] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [2025-03-19 13:25:47,077] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2025-03-19 13:25:47,197] [pool-1-thread-4] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [2025-03-19 13:25:47,848] [pool-1-thread-12] Initializing /data/pang/signed: [testng] [2025-03-19 13:25:48,553] [pool-1-thread-10] Initializing /data/pang/10500x-o4: [testng] [2025-03-19 13:25:49,196] [pool-1-thread-1] Initializing /data/pang/unproc-auto: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 28 seconds Finished: SUCCESS