Profiles

Extending profiles:

Similarly to the pipelines, the profiles are YAML files in a python module (it is requires a __init__.py file in the folder containing the files). In order to be parsed correctly, the profile YAML file needs to have a specific structure:

info:
   description: Test Profile
   date:        14/03/2016

files:
   genome_fa:    /abs/path/to/fasta.fa
   genome_fa_gz: /abs/path/to/fasta.fa.gz

programs:
   samtools_0:
      path: samtools
      version: 0.1.19
   samtools_1:
      path: samtools
      version: 1.2
   bwa:
      path: bwa
      version: 0.7.10
   start:
      path: star
      version: 2.5.1b