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nf-core / mcmicro

An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
https://nf-co.re/mcmicro
MIT License
4 stars 12 forks source link

basicpy output should be split up by sample ID #27

Open jmuhlich opened 2 months ago

jmuhlich commented 2 months ago

Description of the bug

basicpy output file paths/names are based only on the input filenames. If a run has multiple samples with the same filenames then their basicpy outputs will clash and overwrite each other.

Command used and terminal output

No response

Relevant files

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System information

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RobJY commented 2 months ago

I pushed a fix for this to my fork in branch 'issue_27'. I'll make a PR for it once #29 is merged.