David Gault

Hi @yfukai, thank you for raising this issue and providing a sample file. I was able to test and reproduce the issue with the newest Bio-Formats 6.6.0 release. The incorrect...

Hi @Jcarlosmiguel, Im afraid we do not yet have a fix in the Leica SCN Reader for this issue. Do you have the option to export or convert them to...

Unfortunately this files will still show the same issue in older systems. Do you know of any specific differences for which files show the issue? For example we currently disable...

I have opened a PR to test a potential fix (https://github.com/ome/bioformats/pull/3562). The issue will be if this bug is present in all Leica SCN400 files or if there is a...

Anything in bio-formats-plugins will be exclusively an issue for the ImageJ plugin so it looks likely that it is highlighting an issue with the plugin rather than the OBFReader. It...

Hi @ebremer, I'm afraid not, the list of compression options are limited to the below: ``` * JPEG-2000: JPEG-2000 Lossy, JPEG-2000 * OME-TIFF: Uncompressed, LZW, JPEG-2000, JPEG-2000 Lossy, JPEG, zlib...

A further request for this feature has been received on thread https://forum.image.sc/t/error-converting-large-images-to-ome-tiff-using-the-command-line-bioformats-tool-bfconvert/70243/6

Hi @VasylVaskivskyi, you are correct that the OrientationMatrix is being applied. The logic for this can be found in https://github.com/ome/bioformats/blob/develop/components/formats-gpl/src/loci/formats/in/OperettaReader.java#L880. So I understand you correctly, do you believe this matrix...

Hi @VasylVaskivskyi, we have now tested and merged changes included in https://github.com/ome/bioformats/pull/3734 This will be released in the next month as part of Bio-Formats 6.8.0 and should help with the...

Hi @saramcardle, thank you for opening the Issue and reporting this problem along with the imagesc thread. The CZI reader in Bio-Formats specifically looks for multi filesets to follow a...