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PRIDE-Archive / pridepy Public

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improve skip options#74

Merged

ypriverol merged 14 commits intomasterPRIDE-Archive/pridepy:masterfrom

devPRIDE-Archive/pridepy:devCopy head branch name to clipboard

Dec 12, 2025

Conversation Commits14 (14)Checks Files changed

Merged

improve skip options#74
ypriverol merged 14 commits intomasterfrom
dev

Commits

Commits on Dec 8, 2025

Initial plan
Copilot
committed
Convert skip_if_downloaded_already option to a Click flag

Copilot
and
ypriverol
committed
Make help text consistent across all commands and update README

Copilot
and
ypriverol
committed
Merge pull request #73 from PRIDE-Archive/copilot/make-skip-flag-option
ypriverol
authored

Commits on Dec 12, 2025

Update pridepy/pridepy.py

ypriverol
and
Copilot
authored
Update pridepy/pridepy.py

ypriverol
and
Copilot
authored
Update pridepy/pridepy.py

ypriverol
and
Copilot
authored
Initial plan
Copilot
committed
Convert all CLI flags from underscores to hyphens for consistency

Copilot
and
ypriverol
committed
Merge pull request #75 from PRIDE-Archive/copilot/sub-pr-74
ypriverol
authored
Initial plan
Copilot
committed
Change skip options to single --skip-if-downloaded-already flag

Copilot
and
ypriverol
committed
Update remaining docstrings with new default behavior

Copilot
and
ypriverol
committed
Merge pull request #76 from PRIDE-Archive/copilot/sub-pr-74-again
ypriverol
authored

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