Closed GenevieveBuckley closed 6 years ago
The error makes it sound a little like the .lif image type is unrecognised, but this works just fine:
dyn-130-194-109-166:~ genevieb$ source activate podo
(podo) dyn-130-194-109-166:~ genevieb$ python
Python 3.6.5 | packaged by conda-forge | (default, Apr 6 2018, 13:44:09)
[GCC 4.2.1 Compatible Apple LLVM 6.1.0 (clang-602.0.53)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import pims
>>> filename = "/Users/genevieb/Documents/ImageAnalysis/kidney_glomeruli/input_data/SP8/Postnatal24week_mice/input_files/51512.lif"
>>> images = pims.open(filename)
>>> images.metadata.ImageCount()
15
>>>
@GenevieveBuckley given this error, perhaps we should keep #8 and bioformats in mind as still an option? Or are you convinced that PIMS is the way of the future?
Cannot reproduce error in virtual test machine.
pims.api.UnknownFormatError: All handlers returned exceptions: Mac High Sierra