Skip to content
Snippets Groups Projects
Commit 7252022d authored by Ruben Vorderman's avatar Ruben Vorderman
Browse files

sambamba creates index automaticall

parent 8df42e20
No related branches found
No related tags found
No related merge requests found
Hide whitespace changes
Inline Side-by-side
Showing
with 2 additions and 3 deletions
sambamba.wdl
+ 2
− 3
View file @ 7252022d
...@@ -94,9 +94,8 @@ task Sort { ...@@ -94,9 +94,8 @@ task Sort {
-m ~{memoryPerThreadGb}G \ -m ~{memoryPerThreadGb}G \
-o ~{outputPath} \ -o ~{outputPath} \
~{inputBam} ~{inputBam}
sambamba index \ # sambamba creates an index for us
~{"--nthreads " + threads} \ mv ~{outputPath}.bai ~{bamIndexPath}
~{outputPath} ~{bamIndexPath}
} }
output { output {
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment