Erro when trying to run Bigwarp from Plugins > BigDataViewer > Bigwarp XML/HDF5

[bpavie]

Dear,

I tried to open BigWarp from HDF5 files generated using Plugins > BigDataViewer > Export Current Image as XML/HDF5 The conversion worked fine and I can open and see the 2 images with the BigDataViewer.

I then next tried to open BigWarp using Plugins > BigDataViewer > Bigwarp XML/HDF5 and point to the XML files but encounter this error:

(Fiji Is Just) ImageJ 2.1.0/1.53c; Java 1.8.0_172 [64-bit]; Windows 10 10.0; 9174MB of 24353MB (37%)

java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.NullPointerException
    at net.imagej.legacy.LegacyService.runLegacyCompatibleCommand(LegacyService.java:307)
    at net.imagej.legacy.DefaultLegacyHooks.interceptRunPlugIn(DefaultLegacyHooks.java:166)
    at ij.IJ.runPlugIn(IJ.java)
    at ij.Executer.runCommand(Executer.java:150)
    at ij.Executer.run(Executer.java:65)
    at java.lang.Thread.run(Thread.java:748)
Caused by: java.util.concurrent.ExecutionException: java.lang.NullPointerException
    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:303)
    ... 5 more
Caused by: java.lang.NullPointerException
    at bigwarp.BigWarp$BigWarpData.transferChannelSettings(BigWarp.java:2813)
    at bigwarp.BigWarp.<init>(BigWarp.java:544)
    at bigwarp.BigWarp.<init>(BigWarp.java:317)
    at bdv.ij.BigWarpBdvCommand.run(BigWarpBdvCommand.java:44)
    at org.scijava.command.CommandModule.run(CommandModule.java:196)
    at org.scijava.module.ModuleRunner.run(ModuleRunner.java:165)
    at org.scijava.module.ModuleRunner.call(ModuleRunner.java:124)
    at org.scijava.module.ModuleRunner.call(ModuleRunner.java:63)
    at org.scijava.thread.DefaultThreadService.lambda$wrap$2(DefaultThreadService.java:225)
    at java.util.concurrent.FutureTask.run(FutureTask.java:266)
    at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
    ... 1 more

If I point to the h5 files instead of the XML files, I don't have the error but nothing show up (and nothing happends I think). The generated macro is : IJ.run("Big Warp XML/HDF5", "fixedimagexml=C:\\test\\export_01.h5 movingimagexml=C:\\test\\export_02.h5");

Version: bigdataviewer_fiji-6.2.0.jar bigwarp_fiji-6.0.0.jar ImageJ:1.53c OS: Windows 10

The dataset is 2 multichannels images with only one plane (2D)

Would you have any tips?

Benjamin

[bogovicj]

Thanks for reporting.

[bpavie]

Actually, it works with the bigwarp_fiji-6.0.2.jar that I found in https://biop.epfl.ch/Fiji-Bdv-Playground/plugins/ so we just need to have the update from Fiji update I guess (or compile it)

[bogovicj]

Good to hear. Since the issue isn't present in new code, I'm closing this issue.