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Did you review the FAQ?
Did you look through previous (open AND closed) issues posted on GH?
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Hi cellpose team,
first of all thank you for this great community tool!
I am processing large 2D H&E stains using the distributed cellpose version and discovered that the masks are hard-cut at every tile boundary. This is easy to miss, because it does not cause an error. It is also specific to 2D images, but should affect any 2D image.
I submitted a PR with minor code corrections to adress this: #1480
As a side note, as the code is now np.load loads the full labelling vector for each worker resulting in OOM errors for large 2D images. I also submitted a tiny PR correcting this: #1481.
Best
Stefan
Before you fill out this form:
Did you review the FAQ?
Did you look through previous (open AND closed) issues posted on GH?
Now fill this form out completely:
Hi cellpose team,
first of all thank you for this great community tool!
I am processing large 2D H&E stains using the distributed cellpose version and discovered that the masks are hard-cut at every tile boundary. This is easy to miss, because it does not cause an error. It is also specific to 2D images, but should affect any 2D image.
I submitted a PR with minor code corrections to adress this: #1480
As a side note, as the code is now np.load loads the full labelling vector for each worker resulting in OOM errors for large 2D images. I also submitted a tiny PR correcting this: #1481.
Best
Stefan