-
Notifications
You must be signed in to change notification settings - Fork 13
Open
Description
Dear authors,
thanks for your excellent work!
The batch function (xb.formatting.batch_prep_xenium_data_for_baysor(files, outpath, CROP=True, COORDS=[1000, 5000, 1000, 5000])) is not working correctly, since in uses as an argument "outpath" instead of output_path as in the prep_xenium_data_for_baysor(f, output_path,CROP=False) function.
One is getting therefore the following error:
---------------------------------------------------------------------------
NameError Traceback (most recent call last)
Cell In[23], line 1
----> 1 batch_prep_xenium_data_for_baysor(files=files, outpath=output_path)
File [~/git_repos/Xenium_benchmarking/xb/formatting.py:775](http://localhost:8888/lab/tree/~/git_repos/Xenium_benchmarking/xb/formatting.py#line=774), in batch_prep_xenium_data_for_baysor(files, outpath, CROP, COORDS)
773 def batch_prep_xenium_data_for_baysor(files,outpath,CROP=True, COORDS=[1000, 5000, 1000, 5000]):
774 for f in files:
--> 775 prep_xenium_data_for_baysor(f, output_path,CROP=False)
NameError: name 'output_path' is not defined
Reactions are currently unavailable
Metadata
Metadata
Assignees
Labels
No labels