8000 Refactor path handling to use pathlib in generate_model_info.py by AntonPetrov · Pull Request #191 · r2dt-bio/R2DT · GitHub
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Refactor path handling to use pathlib in generate_model_info.py #191

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Refactor path handling to use pathlib in generate_model_info.py #191

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This pull request updates the generate_model_info.py file to replace the use of the os module with pathlib for path manipulations. The changes include:

  • Replaced os.path.join with the / operator from pathlib for constructing paths.
  • Used Path.glob for pattern matching instead of glob.glob.
  • Updated file opening methods to use Path.open() instead of the built-in open() function.

These changes improve the readability and maintainability of the code by utilizing the more modern pathlib library for path operations.

This pull request was co-created with Cosine Genie

Original Task: R2DT/vyy62m895ohk
Author: Anton Petrov

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github-actions bot commented May 1, 2025 •
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Docker image tag(s) pushed:

rnacentral/r2dt:pr-191

Labels added to images:

org.opencontainers.image.created=2025-05-01T18:07:15.580Z
org.opencontainers.image.description=Visualise RNA secondary structure in consistent, reproducible and recognisable layouts
org.opencontainers.image.licenses=Apache-2.0
org.opencontainers.image.revision=e1856ba6b6bf9676e4781e4d5122a918b9ba2f54
org.opencontainers.image.source=https://github.com/r2dt-bio/R2DT
org.opencontainers.image.title=R2DT
org.opencontainers.image.url=https://github.com/r2dt-bio/R2DT
org.opencontainers.image.version=pr-191

AntonPetrov and others added 4 commits May 1, 2025 12:05
@AntonPetrov @CosineGenie
refactor: replace os.path with pathlib for better path handling
08b3a26 
Co-authored-by: Genie <genie@cosine.sh>
@AntonPetrov @CosineGenie
refactor: update path handling in config.py to use pathlib for better…
6add630 
… readability and maintainability

Co-authored-by: Genie <genie@cosine.sh>
@AntonPetrov @CosineGenie
fix: simplify path handling in setup and crw_setup functions
cecac5c 
Co-authored-by: Genie <genie@cosine.sh>
@AntonPetrov @CosineGenie
refactor: replace os.path with pathlib for better path handling in co…
81a2866 
…re.py

Co-authored-by: Genie <genie@cosine.sh>
@cosineai cosineai bot changed the base branch from main to develop May 1, 2025 18:09
@cosineai cosineai bot force-pushed the cosine/refactor/use-pathlib-u470z3 branch from 0dddf74 to b7e0824 Compare May 1, 2025 18:18
@cosineai cosineai bot force-pushed the cosine/refactor/use-pathlib-u470z3 branch from b7e0824 to 895ff53 Compare May 1, 2025 18:35
@AntonPetrov @CosineGenie
fix: update destination path assignment in RnaArtist class
3f9eccf 
Co-authored-by: Genie <genie@cosine.sh>
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