I have two problems with opening files using Bio-formats.
If I activate SCIFIO to open files (in Fiji) and want to use drag and drop (on the main Fiji toolbar) then pixel size is not read correctly from tiff and mrc files that are produced by Themo Fisher (former FEI) software. However, if I drag and drop the same files on “Bioformats Shortcut Window” then pixel size is read correctly for both formats. It seams that Bioformats can properly detect pixel size but drag and drop feature using main Fiji toolbar has some problems.
Why mrc files are always vertically flipped in comparison to tiffs despite being converted form the same original file?
I have representative files here:
In that folder you will find:
Test.emd - original data file (by Velox program)
Test.mrc and Test.tif - files converted from the original (Velox)
Test.tif_to_IJ.tif - file was opened with Bioformats and saved with ImageJ tiff option
My system: Windows 10, Fiji 2.1.0/1.53c, Java 1.8.0_172