updating yml

[arvados-tutorial.git] / WGS-processing / yml / wgs-processing-wf.yml

diff --git a/WGS-processing/yml/wgs-processing-wf.yml b/WGS-processing/yml/wgs-processing-wf.yml
index 8853a804a7ad036f404a7660b40589eaf0fc2fcf..2e9cc446123ba1fe0cf2fd2c6e3adb9c611ac25f 100644 (file)
--- a/WGS-processing/yml/wgs-processing-wf.yml
+++ b/WGS-processing/yml/wgs-processing-wf.yml
@@ -1,16 +1,20 @@
-sample: ERR1726424
-
 reference:
   class: File
-  location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
+  format: edam:format_1929
+  location: keep:18657d75efb4afd31a14bb204d073239+13611/GRCh38_no_alt_plus_hs38d1_analysis_set.fna 
+
+fullintervallist:
+  class: File
+  location: keep:18657d75efb4afd31a14bb204d073239+13611/full-noalt-scattered.interval_list
 
 fastqdir:
   class: Directory
-  location: keep:5e1324428f93c5e41aeb3d7b676de34c+186978 
+  location: keep:a146a06222f9a66b7d141e078fc67660+376237
 
 clinvarvcf:
   class: File
-  location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz
+  format: edam:format_3016
+  location: keep:18657d75efb4afd31a14bb204d073239+13611/clinvar.vcf.gz
 
 reportfunc:
   class: File
@@ -18,14 +22,22 @@ reportfunc:
 
 headhtml:
   class: File
+  format: edam:format_2331
   location: ../src/annotation/head.html
 
 tailhtml:
   class: File
+  format: edam:format_2331
   location: ../src/annotation/tail.html
 
-scattercount: '32'
+scattercount: '20'
+
+knownsites1:
+  class: File
+  format: edam:format_3016
+  location: keep:18657d75efb4afd31a14bb204d073239+13611/Homo_sapiens_assembly38.dbsnp138.vcf 
 
-knownsites:
+knownsites2:
   class: File
-  location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz
+  format: edam:format_3016
+  location: keep:18657d75efb4afd31a14bb204d073239+13611/Homo_sapiens_assembly38.known_indels.vcf.gz