13 Aug 2024 04:09:28,270 DEBUG: Resetting Job ID: 05a42588-3b92-103d-9292-dc22ffcd208d 13 Aug 2024 04:09:28,288 INFO : Starting to run task 'org.labkey.targetedms.pipeline.TargetedMSImportTask' at location 'webserver-high-priority' 13 Aug 2024 04:09:28,289 INFO : Starting to import Skyline document from Rep1_4mikroM_Apr.sky.zip 13 Aug 2024 04:09:28,290 ERROR: Import failed java.lang.IllegalArgumentException: malformed input off : 6, length : 3 at java.base/java.lang.String.throwMalformed(String.java:1242) at java.base/java.lang.String.decodeUTF8_UTF16(String.java:1129) at java.base/java.lang.String.newStringUTF8NoRepl(String.java:732) at java.base/java.lang.System$2.newStringUTF8NoRepl(System.java:2398) at java.base/java.util.zip.ZipCoder$UTF8ZipCoder.toString(ZipCoder.java:199) at java.base/java.util.zip.ZipCoder.toString(ZipCoder.java:66) at java.base/java.util.zip.ZipInputStream.readLOC(ZipInputStream.java:302) at java.base/java.util.zip.ZipInputStream.getNextEntry(ZipInputStream.java:124) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:106) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:82) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:69) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:64) at org.labkey.targetedms.SkylineDocImporter.extractIfZip(SkylineDocImporter.java:1005) at org.labkey.targetedms.SkylineDocImporter.importSkylineDoc(SkylineDocImporter.java:317) at org.labkey.targetedms.SkylineDocImporter.importRun(SkylineDocImporter.java:249) at org.labkey.targetedms.pipeline.TargetedMSImportTask.run(TargetedMSImportTask.java:63) at org.labkey.api.pipeline.PipelineJob.runActiveTask(PipelineJob.java:833) at org.labkey.api.pipeline.PipelineJob.run(PipelineJob.java:1075) at org.labkey.pipeline.mule.PipelineJobRunner.run(PipelineJobRunner.java:40) at jdk.internal.reflect.GeneratedMethodAccessor1156.invoke(Unknown Source) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.mule.impl.model.resolvers.DynamicEntryPoint.invokeMethod(DynamicEntryPoint.java:312) at org.mule.impl.model.resolvers.DynamicEntryPoint.invoke(DynamicEntryPoint.java:259) at org.mule.impl.DefaultLifecycleAdapter.intercept(DefaultLifecycleAdapter.java:193) at org.mule.impl.InterceptorsInvoker.execute(InterceptorsInvoker.java:47) at org.mule.impl.model.DefaultMuleProxy.run(DefaultMuleProxy.java:470) at org.mule.impl.work.WorkerContext.run(WorkerContext.java:310) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$CallerRunsPolicy.rejectedExecution(ThreadPoolExecutor.java:1486) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor.reject(ThreadPoolExecutor.java:391) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor.execute(ThreadPoolExecutor.java:865) at org.mule.impl.work.ScheduleWorkExecutor.doExecute(ScheduleWorkExecutor.java:39) at org.mule.impl.work.MuleWorkManager.executeWork(MuleWorkManager.java:277) at org.mule.impl.work.MuleWorkManager.scheduleWork(MuleWorkManager.java:244) at org.mule.impl.model.seda.SedaComponent.run(SedaComponent.java:483) at org.mule.impl.work.WorkerContext.run(WorkerContext.java:310) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:650) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:675) at java.base/java.lang.Thread.run(Thread.java:833) Caused by: java.nio.charset.MalformedInputException: Input length = 3 ... 39 more 13 Aug 2024 04:09:28,296 INFO : Failed to complete task 'org.labkey.targetedms.pipeline.TargetedMSImportTask' 13 Aug 2024 04:09:28,297 ERROR: malformed input off : 6, length : 3 org.labkey.api.pipeline.PipelineJobException: malformed input off : 6, length : 3 at org.labkey.targetedms.SkylineDocImporter.importRun(SkylineDocImporter.java:276) at org.labkey.targetedms.pipeline.TargetedMSImportTask.run(TargetedMSImportTask.java:63) at org.labkey.api.pipeline.PipelineJob.runActiveTask(PipelineJob.java:833) at org.labkey.api.pipeline.PipelineJob.run(PipelineJob.java:1075) at org.labkey.pipeline.mule.PipelineJobRunner.run(PipelineJobRunner.java:40) at jdk.internal.reflect.GeneratedMethodAccessor1156.invoke(Unknown Source) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:568) at org.mule.impl.model.resolvers.DynamicEntryPoint.invokeMethod(DynamicEntryPoint.java:312) at org.mule.impl.model.resolvers.DynamicEntryPoint.invoke(DynamicEntryPoint.java:259) at org.mule.impl.DefaultLifecycleAdapter.intercept(DefaultLifecycleAdapter.java:193) at org.mule.impl.InterceptorsInvoker.execute(InterceptorsInvoker.java:47) at org.mule.impl.model.DefaultMuleProxy.run(DefaultMuleProxy.java:470) at org.mule.impl.work.WorkerContext.run(WorkerContext.java:310) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$CallerRunsPolicy.rejectedExecution(ThreadPoolExecutor.java:1486) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor.reject(ThreadPoolExecutor.java:391) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor.execute(ThreadPoolExecutor.java:865) at org.mule.impl.work.ScheduleWorkExecutor.doExecute(ScheduleWorkExecutor.java:39) at org.mule.impl.work.MuleWorkManager.executeWork(MuleWorkManager.java:277) at org.mule.impl.work.MuleWorkManager.scheduleWork(MuleWorkManager.java:244) at org.mule.impl.model.seda.SedaComponent.run(SedaComponent.java:483) at org.mule.impl.work.WorkerContext.run(WorkerContext.java:310) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:650) at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:675) at java.base/java.lang.Thread.run(Thread.java:833) Caused by: java.lang.IllegalArgumentException: malformed input off : 6, length : 3 at java.base/java.lang.String.throwMalformed(String.java:1242) at java.base/java.lang.String.decodeUTF8_UTF16(String.java:1129) at java.base/java.lang.String.newStringUTF8NoRepl(String.java:732) at java.base/java.lang.System$2.newStringUTF8NoRepl(System.java:2398) at java.base/java.util.zip.ZipCoder$UTF8ZipCoder.toString(ZipCoder.java:199) at java.base/java.util.zip.ZipCoder.toString(ZipCoder.java:66) at java.base/java.util.zip.ZipInputStream.readLOC(ZipInputStream.java:302) at java.base/java.util.zip.ZipInputStream.getNextEntry(ZipInputStream.java:124) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:106) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:82) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:69) at org.labkey.api.writer.ZipUtil.unzipToDirectory(ZipUtil.java:64) at org.labkey.targetedms.SkylineDocImporter.extractIfZip(SkylineDocImporter.java:1005) at org.labkey.targetedms.SkylineDocImporter.importSkylineDoc(SkylineDocImporter.java:317) at org.labkey.targetedms.SkylineDocImporter.importRun(SkylineDocImporter.java:249) ... 24 more Caused by: java.nio.charset.MalformedInputException: Input length = 3 ... 39 more