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Re-enable remote reference lookup for CRAM #137

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tkchafin opened this issue Oct 23, 2024 · 0 comments
Open

Re-enable remote reference lookup for CRAM #137

tkchafin opened this issue Oct 23, 2024 · 0 comments
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@tkchafin @reichan1998
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enhancement Improvement of the existing features

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@tkchafin
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Description of feature

Work in ref_cache which branches dev, but some changed might also need to go into patch (=1.3.2).

  1. Re-enable remote reference lookup as fall-back for SAMtools. This was encountered as an issue in a case that pipeline inputs were pre-aligned.
  2. Whitelist REF_PATH and REF_CACHE for all execution back-ends
  3. Do we need to stage REF_CACHE (e.g., https://github.com/epi2me-labs/wf-basecalling)??
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@tkchafin tkchafin

@reichan1998 reichan1998

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enhancement Improvement of the existing features
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@tkchafin @reichan1998