Posted by
Sho Fujisawa on
Jun 30, 2016; 3:04pm
URL: http://imagej.273.s1.nabble.com/TrackEM-alignment-of-ims-Imaris-stack-tp5016780.html
Help.
I'm trying to manually align slices of a stack of multi-channel images. The stacks are .ims Imaris files. I can load it onto FIJI/IJ using BioFormat Importer. But when I try to import into TrackEM, I get a lot of questions about the z slice value being different from what it's supposed to be. Then no matter what answer I choose, I eventually get this error.
ERROR:
java.lang.NullPointerException
at ini.trakem2.display.Patch.<init>(Patch.java:195)
at ini.trakem2.persistence.FSLoader.importStackAsPatches(FSLoader.java:1268)
at ini.trakem2.persistence.Loader$9.run(Loader.java:3745)
at java.lang.Thread.run(Thread.java:662)
I get the same issue even when I convert .ims to ome.tif.
What does the error mean, and how can I go around it?
Sho Fujisawa
Molecular Cytology Core Facility
Memorial Sloan-Kettering Cancer Center
415 E. 68th St. Z-1840
New York, NY 10065
(646) 888-2186
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