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CellProfiler / python-bioformats

Read and write life sciences file formats
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OMEXML Disparity between output from `loci_tools.jar` and `showinf`? #110

Open jnj16180340 opened 6 years ago

jnj16180340 commented 6 years ago

I'm using python-bioformats to extract OME XML from pretty old Molecular Devices MetaMorph files.

MetaMorph v5 "stk"-formatted TIFFS with a .tif extension are processed as "MetaMorph TIFF" instead of "MetaMorph STK". Fixed by renaming the file from .tif to .stk, or by following #23 (= force read file to pick a reader)

I've run into the incorrect-file-extension issue pretty often, especially working with temporary files, is there any desire to add a ignore_extension flag to get_omexml_metadata?