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Implementation of csvkit for stream merging csv #136

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tillenglert opened this issue Sep 30, 2024 · 0 comments
Open

Implementation of csvkit for stream merging csv #136

tillenglert opened this issue Sep 30, 2024 · 0 comments
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enhancement Improvement for existing functionality

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@tillenglert
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Description of feature

Currently some processes, like MERGE_PREDICTIONS use a custom concat_tsv.py script enabling streamed merging of many cvs, as prediction tables tend to get very large and multiple 100ed files are concatenated.

To reduce maintenance load we could implement an nf-core module for:
https://csvkit.readthedocs.io/en/latest/contributing.html#streaming-versus-buffering
@tillenglert tillenglert added the enhancement Improvement for existing functionality label Sep 30, 2024
@tillenglert tillenglert mentioned this issue Sep 30, 2024
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@tillenglert tillenglert changed the title Implementation of csvkit for stream merging css Implementation of csvkit for stream merging csv Sep 30, 2024
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