Workflow modification

• git_dir and data_dir/result_dir in every config file

How to run snakemake

Running snakemake: download -> preprocessing -> methods -> metrics

• dry run: snakemake -s <process>.smk -nf

• actual run snakemake -s <process>.smk --cores <n_of_cores> --use-conda --ri

  • ri: in case you use keyboard interruption to quit the previous job. This will make sure snakemake rereun those incomplete job.

• Try not to kill snakemake when it's installing conda packages.