From 82b6edd4e28f5e8420434d8ed2f2e623cf765104 Mon Sep 17 00:00:00 2001
From: "Stephanie M. Gogarten" <sdmorris@uw.edu>
Date: Tue, 31 Dec 2024 13:18:44 -0800
Subject: [PATCH] increase disk space for concatenation step

---
 extract_vcf_ids.wdl | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/extract_vcf_ids.wdl b/extract_vcf_ids.wdl
index a64d72b..0b79193 100644
--- a/extract_vcf_ids.wdl
+++ b/extract_vcf_ids.wdl
@@ -35,7 +35,7 @@ task bcftools_query {
         Boolean pass_only
     }
 
-    Int disk_gb = ceil(size(vcf_file, "GB")*2) + 10
+    Int disk_gb = ceil(size(vcf_file, "GB")*1.5) + 5
 
     command <<<
         set -e -o pipefail
@@ -63,6 +63,8 @@ task concat_files {
         Array[File] files
     }
 
+    Int disk_gb = ceil(size(files, "GB")*2.5) + 5
+
     command <<<
         cat ~{sep=' ' files} > concat.txt
     >>>
@@ -73,5 +75,6 @@ task concat_files {
 
     runtime {
         docker: "staphb/bcftools:1.16"
+        disks: "local-disk ${disk_gb} SSD"
     }
 }