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Improve input file processing for yaml (RFAA/Hydra) and json (HF3) files. #19

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jscgh opened this issue Oct 21, 2024 · 2 comments
Open

Improve input file processing for yaml (RFAA/Hydra) and json (HF3) files. #19

jscgh opened this issue Oct 21, 2024 · 2 comments
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jscgh commented Oct 21, 2024 •
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Input validation could be modified to better handle yaml and json files.
@jscgh jscgh added the enhancement New feature or request label Oct 21, 2024
@jscgh jscgh self-assigned this Oct 21, 2024
jscgh added a commit that referenced this issue Oct 21, 2024
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Updating input to work with .yaml #19 modified: assets/schema_input.…
6fdb111 
…json

	modified:   modules/local/run_rosettafold_all_atom.nf
	modified:   nextflow_schema.json
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jscgh commented Nov 5, 2024

The current workaround allows the files to be passed through, but is not the most elegant solution. I'll leave this open for now.

@jscgh jscgh changed the title Input file validation fails with .yaml files, which are needed for RFAA Improve input file processing for yaml (RFAA/Hyrda) and json (HF3) files. Nov 6, 2024
@jscgh jscgh changed the title Improve input file processing for yaml (RFAA/Hyrda) and json (HF3) files. Improve input file processing for yaml (RFAA/Hydra) and json (HF3) files. Nov 6, 2024
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nbtm-sh commented Dec 10, 2024

Sorry for late issue update but I'm just going through them now.

samplesheetutils is available as a Docker Container if you wish to implement it into your pipeline

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