I have been using the big stitcher and the multi view reconstruction plugin for processing of multi angle .czi files for a few years now and I noticed lately that with newer Fiji versions it does not take the initial rotation (imaging angles) from the metadata anymore. And now I have to manually rotate each image in big stitcher before aligning them. (I work without beads so I do some manual alignment afterwards anyways, but it takes more time now that I also have to apply the rotations myself.) Is there a workaround for that problem?
I run the following macros for defining and resaving it as h5
Hi,
I have been using the big stitcher and the multi view reconstruction plugin for processing of multi angle .czi files for a few years now and I noticed lately that with newer Fiji versions it does not take the initial rotation (imaging angles) from the metadata anymore. And now I have to manually rotate each image in big stitcher before aligning them. (I work without beads so I do some manual alignment afterwards anyways, but it takes more time now that I also have to apply the rotations myself.) Is there a workaround for that problem?
I run the following macros for defining and resaving it as h5
I would very much appreciate your help with that.
Thanks in advance
Jana