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add slide / wsi folder #9

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delta2golf opened this issue Jan 2, 2022 · 3 comments
Open

add slide / wsi folder #9

delta2golf opened this issue Jan 2, 2022 · 3 comments

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@delta2golf
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WSI should be placed in which folders? I have tried different folders. In the frontend, in the add slides form I am getting "Path does not point to a file". Input example /slide/80b306aa-cd5e-7579-f77b-215a80eff300_154138.svs

@smistad
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smistad commented Jan 3, 2022

Hi @delta2golf, the path should be an absolute / full path to your wsi file

@delta2golf
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Thank you. The full path does not work. The computer is a mac.

Request Method: POST
http://127.0.0.1:8000/slide/add/
3.2.10
RuntimeError
Failed to load slide image pyramid from /Users/delta2golf/Downloads/2021-30/15ba3af0-b2f5-8704-6559-bd24cf373fc6_154006.svs

@smistad
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smistad commented Jan 5, 2022

We have not tested the system on Mac yet, we mainly use ubuntu linux.
It is failing here: https:/AICAN-Research/learn-pathology/blob/master/slide/models.py#L41

Perhaps FAST/dependencies is not installed correctly? To install FAST on macOS, make sure you have all the necessary requirements:

  • macOS 10.13 or newer. Only intel (x86_64) architecture is supported atm.
  • Install homebrew if you don't already have it. Install the following packages using homebrew: brew install openslide libomp

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