Adding more formats to yml

Arvados-DCO-1.1-Signed-off-by: Sarah Wait Zaranek <swz@curii.com>
no issue #

diff --git a/WGS-processing/yml/helper/samtools-sort.yml b/WGS-processing/yml/helper/samtools-sort.yml
index 7c27a9c6ac9d1baabd92f459364a1b1bbdb9225e..7d85dd4a0965acb2dfd279c82813f2449c117430 100644 (file)
--- a/WGS-processing/yml/helper/samtools-sort.yml
+++ b/WGS-processing/yml/helper/samtools-sort.yml
@@ -1,5 +1,6 @@
 bam:
   class: File
+  format: edam:format_2572 
   location: keep:su92l-4zz18-v4m3dx8agdp1y9r/WGC069888D.bam
 
 sample: WGC069888D

diff --git a/WGS-processing/yml/helper/scatter-gatk-wf-with-interval.yml b/WGS-processing/yml/helper/scatter-gatk-wf-with-interval.yml
index 4a36ecb8534c6a8534fae2cae47b98520c8a52bc..a6d741456fd98a7323e3bc80f12d9f4043f193c2 100644 (file)
--- a/WGS-processing/yml/helper/scatter-gatk-wf-with-interval.yml
+++ b/WGS-processing/yml/helper/scatter-gatk-wf-with-interval.yml
@@ -1,9 +1,11 @@
 bam:
   class: File
+  format: edam:format_2572
   location: keep:377c02de508dff9e4474f9a48d754933+53821/marked_dupsERR1726424.sorted.bam 
 
 reference:
   class: File
+  format: edam:format_1929
   location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
 
 sample: ERR1726424
@@ -12,4 +14,5 @@ scattercount: '32'
 
 knownsites:
   class: File
+  format: edam:format_3016
   location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz