WGS-processing/yml/bwamem-gatk-report-wf.yml

   1 sample: ERR1726424
   2
   3 reference:
   4   class: File
   5   location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
   6
   7 fastq1:
   8   class: File
   9   location: keep:c96565a96cd428fe92bf70e97488bd80+21857/ERR1726424_1.fastq/ERR1726424_1.fastq.gz
  10
  11 fastq2:
  12   class: File
  13   location: keep:0ea6e3aaa6ead18a2cc4ba67a22939e9+25007/ERR1726424_2.fastq/ERR1726424_2.fastq.gz
  14
  15 clinvarvcf:
  16   class: File
  17   location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz
  18
  19 reportfunc:
  20   class: File
  21   location: ../src/annotation/generatereport.py
  22
  23 headhtml:
  24   class: File
  25   location: /data-sdd/pgp/arvados-tutorial/src/annotation/head.html
  26
  27 tailhtml:
  28   class: File
  29   location: /data-sdd/pgp/arvados-tutorial/src/annotation/tail.html
  30
  31 scattercount: '32'
  32
  33 knownsites:
  34   class: File
  35   location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz