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Automatically add blank images for missing tiles #4

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sophiamaedler opened this issue Oct 6, 2023 · 2 comments
Open

Automatically add blank images for missing tiles #4

sophiamaedler opened this issue Oct 6, 2023 · 2 comments

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@sophiamaedler
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When imaging on the opera phenix sometimes a tile is missing when the device can't find the focus. This prevents stitching from the rest of the image.

We need to implement a feature which checks if all expected images are present and if not generates a black tiff for the missing files so that the rest of the slide can be stitched.

@sophiamaedler
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first implementation of this in the development branch. Still seems to have some issues which needs to be benchmarked and tested across more datasets.

@sophiamaedler
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implemented in phenix parser automatically. Seems to be functional in all test cases so far.

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