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Pass runner's environment variables to tox test environment#77

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lauraporta merged 1 commit intomainfrom
avoid-pwd-on-win
Mar 11, 2026
Merged

Pass runner's environment variables to tox test environment#77
lauraporta merged 1 commit intomainfrom
avoid-pwd-on-win

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@alessandrofelder
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@alessandrofelder alessandrofelder commented Mar 11, 2026

Based on MouseLand/cellpose#1411:

It looks like

  • we import suite2p
  • suite2p imports cellpose
  • cellpose imports pytorch
  • pytorch falls back on pwd if the environment variable USERNAME is not present

We had a similar problem in cellfinder.

This PR fixes the problem by ensuring the Github runner passes its USERNAME environmental variable to the tox testing environment.

@alessandrofelder alessandrofelder changed the title Add USERNAME to pass environment variables in tests Pass runner's environment variables to tox test environment Mar 11, 2026
@alessandrofelder alessandrofelder marked this pull request as ready for review March 11, 2026 10:57
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LGTM

@lauraporta lauraporta merged commit fa574ca into main Mar 11, 2026
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2 participants