study-docker-repro-longevity/aggregate_wrapper.sh at main - study-docker-repro-longevity - La forge Chapril

GuilloteauQ/study-docker-repro-longevity

antux18 97447e59a1 The results of the get_analysis_dates function being used as inputs in some Snakemake rules, this causes Snakemake to overwrite older analysis, probably because the files used to generate these older analysis have been modified. To avoid overwriting older analysis, we only specify today's analysis in the input, and use a bash wrapper script to both fetch the older analysis by itself (by giving it the folder where to look), and run the analysis with the fetched files. So I removed get_analysis_dates and replaced it with the wrapper script every time it was used.

I also removed the older unfinished analysis wrapper that I forgot it existed...

2024-08-23 16:14:46 +02:00

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 #!/bin/bash
 INPUT_DIR=$1
 INPUT=$(find $INPUT_DIR/*.csv -maxdepth 1 -type f)
 OUTPUT=$2
 cat $INPUT > $OUTPUT