sample: ERR1726424

reference:
  class: File
  format: edam:format_1929
  location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa

fullintervallist:
  class: File
  location: /data-sdd/pgp/testdata/full-noalt-scattered.interval_list

fastq1:
  class: File
  format: edam:format_1930
  location: keep:c96565a96cd428fe92bf70e97488bd80+21857/ERR1726424_1.fastq/ERR1726424_1.fastq.gz 

fastq2:
  class: File
  format: edam:format_1930
  location: keep:0ea6e3aaa6ead18a2cc4ba67a22939e9+25007/ERR1726424_2.fastq/ERR1726424_2.fastq.gz

clinvarvcf:
  class: File
  format: edam:format_3016
  location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz

reportfunc:
  class: File
  location: ../src/annotation/generatereport.py

headhtml:
  class: File
  format: edam:format_1964
  location: /data-sdd/pgp/arvados-tutorial/src/annotation/head.html

tailhtml:
  class: File
  format: edam:format_1964
  location: /data-sdd/pgp/arvados-tutorial/src/annotation/tail.html

scattercount: '32'

knownsites1:
  class: File
  format: edam:format_3016
  location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.dbsnp138.vcf

knownsites2:
  class: File
  format: edam:format_3016
  location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz