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RossLab/snakemake-cluster-template

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Activate a snakemake conda enviroment (alternatively make your own)

conda activate snake_env

Then

snakemake_clust.sh

should excute the default target, which is a dummy text file for now.

Snakemake tips

apparently I can produce a graph of the workflow (it's really pretty) :

snakemake --forceall --dag | dot -Tpng > dag1.png

Snakemake version of make clean (removed all downloaded and coputed data) is

rm $(snakemake --summary | tail -n+2 | cut -f1)

Snakemake version of GNU make dry run (show commands, don't execute them) is

snakemake -p --quiet -n

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no more boiler plate in your execution scripts.

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