Error when using transformImage #13
Description
I am having problems using the transformImage command, but can't quite figure out what the error message means. I am trying to apply a transform from a BigWarp landmarks.csv file using the following command, and getting the following error message. On thing I was thinking is perhaps I have missed a step in my set up, but I installed Maven and jgo and have tested both. I would go look in the code myself, but I am not really sure where jgo is linking to...
./transformImage \
-i \
/mnt/c/Users/TracingPC1/Desktop/BIGWARP/VOLUMES/isotropic_stitched_ch01_rotate90_flipZ_flipV.nii \
-o \
/mnt/c/Users/TracingPC1/Desktop/BIGWARP/TRANSFORMS/190529_Transforms/isotropic_stitched_ch01_rotate90_flipZ_flipV_antsTest.nii \
-t \
/mnt/c/Users/TracingPC1/Desktop/BIGWARP/TRANSFORMS/190529_Transforms/landmarks.csv \
-j 4
Exception in thread "main" picocli.CommandLine$ExecutionException: Error while calling command (process.TransformImage@32a068d1): java.lang.NullPointerException at picocli.CommandLine.execute(CommandLine.java:1068) at picocli.CommandLine.access$900(CommandLine.java:142) at picocli.CommandLine$RunLast.handle(CommandLine.java:1255) at picocli.CommandLine$RunLast.handle(CommandLine.java:1223) at picocli.CommandLine$AbstractParseResultHandler.handleParseResult(CommandLine.java:1131) at picocli.CommandLine.parseWithHandlers(CommandLine.java:1414) at picocli.CommandLine.call(CommandLine.java:1690) at picocli.CommandLine.call(CommandLine.java:1614) at process.TransformImage.main(TransformImage.java:89) Caused by: java.lang.NullPointerException at net.imglib2.realtransform.AbstractRealTransformSequence.add(AbstractRealTransformSequence.java:73) at org.janelia.saalfeldlab.transform.io.TransformReader.readTransforms(TransformReader.java:46) at process.TransformImage.setup(TransformImage.java:114) at process.TransformImage.call(TransformImage.java:134) at process.TransformImage.call(TransformImage.java:46) at picocli.CommandLine.execute(CommandLine.java:1061) ... 8 more