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refactor: hpc.env_vars() is now a function; skip exporting sing cache - #222

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kelly-sovacool wants to merge 7 commits into
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sing-cache-dir
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refactor: hpc.env_vars() is now a function; skip exporting sing cache#222
kelly-sovacool wants to merge 7 commits into
mainfrom
sing-cache-dir

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@kelly-sovacool

@kelly-sovacool kelly-sovacool commented Aug 18, 2026

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Changes

do not export a singularity cachedir by default. it gets overridden by the nextflow config anyway, making troubleshooting more confusing than it needs to be.

Issues

resolves #212

PR Checklist

(Strikethrough any points that are not applicable.)

  • This comment contains a description of changes with justifications, with any relevant issues linked.
  • Write unit tests for any new features, bug fixes, or other code changes.
  • Update docs if there are any API changes.
  • Update CHANGELOG.md with a short description of any user-facing changes and reference the PR number. Guidelines: https://keepachangelog.com/en/1.1.0/

@codecov

codecov Bot commented Aug 19, 2026

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Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 73.51%. Comparing base (eedf42a) to head (3b8e8e1).
⚠️ Report is 1 commits behind head on main.

Additional details and impacted files
@@            Coverage Diff             @@
##             main     #222      +/-   ##
==========================================
+ Coverage   73.42%   73.51%   +0.08%     
==========================================
  Files          28       28              
  Lines        1938     1948      +10     
==========================================
+ Hits         1423     1432       +9     
- Misses        515      516       +1     

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support setting nxf env vars on the fly

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