PreibischLab / BigStitcher

ImgLib2/BDV implementation of Stitching for large datasets
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Error loading tiffs #135

Closed smith6jt-cop closed 10 months ago

smith6jt-cop commented 10 months ago

Hello,

Using most recent FIJI, Bioformats, BigStitcher, on Windows10. Tried both automatic and manual loader to load multiplex tiffs with format \Z={tt}C={c}\00{xx}.tif (tried experimental z-stack loading with auto loader and z as timepoints with manual). Manual loader error:

(Fiji Is Just) ImageJ 2.14.0/1.54f; Java 1.8.0_322 [64-bit]; Windows 10 10.0; 359MB of 48726MB (<1%)

java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Module threw exception at net.imagej.legacy.LegacyService.runLegacyCompatibleCommand(LegacyService.java:308) at net.imagej.legacy.DefaultLegacyHooks.interceptRunPlugIn(DefaultLegacyHooks.java:166) at ij.IJ.runPlugIn(IJ.java) at ij.Executer.runCommand(Executer.java:152) at ij.Executer.run(Executer.java:70) at java.lang.Thread.run(Thread.java:750) Caused by: java.util.concurrent.ExecutionException: java.lang.RuntimeException: Module threw exception at java.util.concurrent.FutureTask.report(FutureTask.java:122) at java.util.concurrent.FutureTask.get(FutureTask.java:192) at net.imagej.legacy.LegacyService.runLegacyCompatibleCommand(LegacyService.java:304) ... 5 more Caused by: java.lang.RuntimeException: Module threw exception at org.scijava.module.ModuleRunner.call(ModuleRunner.java:128) at org.scijava.module.ModuleRunner.call(ModuleRunner.java:64) at org.scijava.thread.DefaultThreadService.lambda$wrap$2(DefaultThreadService.java:247) at java.util.concurrent.FutureTask.run(FutureTask.java:266) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) ... 1 more Caused by: java.lang.NullPointerException at net.preibisch.mvrecon.fiji.spimdata.imgloaders.LegacyStackImgLoaderIJ.open(LegacyStackImgLoaderIJ.java:70) at net.preibisch.mvrecon.fiji.spimdata.imgloaders.LegacyStackImgLoaderIJ.loadMetaData(LegacyStackImgLoaderIJ.java:230) at net.preibisch.mvrecon.fiji.spimdata.imgloaders.AbstractImgLoader.getImageSize(AbstractImgLoader.java:80) at mpicbg.spim.data.legacy.LegacyImgLoaderWrapper$SetupImgLoaderWrapper.getImageSize(LegacyImgLoaderWrapper.java:97) at net.preibisch.mvrecon.fiji.datasetmanager.StackList.createDataset(StackList.java:314) at net.preibisch.mvrecon.fiji.plugin.Define_Multi_View_Dataset.defineDataset(Define_Multi_View_Dataset.java:142) at net.preibisch.mvrecon.fiji.plugin.queryXML.LoadParseQueryXML.queryXML(LoadParseQueryXML.java:122) at net.preibisch.mvrecon.fiji.plugin.queryXML.LoadParseQueryXML.queryXML(LoadParseQueryXML.java:109) at net.preibisch.stitcher.plugin.BigStitcher.run(BigStitcher.java:73) at org.scijava.command.CommandModule.run(CommandModule.java:196) at org.scijava.module.ModuleRunner.run(ModuleRunner.java:165) at org.scijava.module.ModuleRunner.call(ModuleRunner.java:125) ... 6 more

smith6jt-cop commented 10 months ago

Fresh install of FIJI fixed issue