From: Sarah Wait Zaranek <swz@curii.com>
Date: Wed, 1 Jul 2020 18:42:43 +0000 (+0000)
Subject: Updating yml to include intervals
X-Git-Url: https://git.arvados.org/arvados-tutorial.git/commitdiff_plain/e6e2eee883a525559734f74a337fbfef8f44f7f9

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

diff --git a/WGS-processing/yml/helper/gather-vcf.yml b/WGS-processing/yml/helper/gather-array-vcf.yml
similarity index 100%
rename from WGS-processing/yml/helper/gather-vcf.yml
rename to WGS-processing/yml/helper/gather-array-vcf.yml
diff --git a/WGS-processing/yml/helper/gatk-applyBQSR.yml b/WGS-processing/yml/helper/gatk-applyBQSR-with-interval.yml
similarity index 74%
rename from WGS-processing/yml/helper/gatk-applyBQSR.yml
rename to WGS-processing/yml/helper/gatk-applyBQSR-with-interval.yml
index 0241acd..6259b09 100644
--- a/WGS-processing/yml/helper/gatk-applyBQSR.yml
+++ b/WGS-processing/yml/helper/gatk-applyBQSR-with-interval.yml
@@ -11,3 +11,7 @@ sample: ERR1726424
 recaltable: 
   class: File
   location: keep:fdce030a5036edb9b821222e316ee706+143/ERR1726424_recal_data.table
+
+intervallist:
+  class: File
+  location: keep:4d4947f6637f0acec32580e09d991967+815/0000-scattered.interval_list