FFFF add type hints to commands by mashehu · Pull Request #4594 · nf-core/tools · GitHub

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add type hints to commands - #4594

Draft

mashehu wants to merge 12 commits intonf-core:devfrom

mashehu:add-typehints-to-commands

Draft

add type hints to commands#4594
mashehu wants to merge 12 commits into
nf-core:devfrom
mashehu:add-typehints-to-commands

Commits on Nov 3, 2026
- move `Path | str` to just `Path`
  mashehu
  committed
  de6750d
- fix path comparisons with "."
  mashehu
  committed
  c546e20
- add path_type to path options to get correctly typed command inputs
  mashehu
  committed
  e1398a9
- remove unused functions
  mashehu
  committed
  8ad197c
Commits on Nov 4, 2026
- simplify path types in launch.py
  mashehu
  committed
  1cdd886
- more path type simplifcations and downstream effects
  mashehu
  committed
  6f7666c
- more path type streamlining
  mashehu
  committed
  77a49e7
- make the path type in pydantic models stricter
  mashehu
  committed
  d66ab82
- remove unnecessary path castings
  mashehu
  committed
  00cba1f
Commits on Nov 5, 2026
- Update nf_core/utils.py
  
  mashehu
  and
  JulianFlesch
  authored
  2df4b3e
- fix tests
  mashehu
  committed
  98bb7fd
- add type hints to commands
  mashehu
  committed
  b29ea7c

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