---
bio_nextgen:
  alignment:
    - bwa
    - bowtie2
    - star
  utilities:
    - bamtools
    - bedtools
    - fastqc
    - ogap
    - rnaseqc
  analysis:
    - cufflinks
    - picard
    - samtools
    - tophat
  variant:
    - bcbio_variation
    - freebayes
    - gatk
    - gatk_protected
    - grabix
    - mutect
    - tabix
    - snpeff
    - varscan
  needs_64bit:
    - ucsc_tools
    - novoalign
    - novosort
---
bio_nextgen:
  alignment:
    - bwa
    - bowtie2
    - star
  utilities:
    - bamtools
    - bedtools
    - fastqc
    - ogap
    - rnaseqc
  analysis:
    - cufflinks
    - picard
    - samtools
    - tophat
  variant:
    - bcbio_variation
    - freebayes
    - gatk
    #- gatk_protected
    - grabix
    - mutect
    - tabix
    - snpeff
    - varscan
  needs_64bit:
    - ucsc_tools
    - novoalign
    - novosort
Remove requirement for GATK protected until testing with 2.7.1 is complete
Remove requirement for GATK protected until testing with 2.7.1 is complete
