|
|
@@ -2,7 +2,7 @@ import "./tasks/BAMReadCount.wdl" as BAMReadCount |
|
|
|
|
|
|
|
workflow {{ project_name }} { |
|
|
|
File ref_dir |
|
|
|
File fa |
|
|
|
String fa |
|
|
|
File fai |
|
|
|
File bed |
|
|
|
File bam |
|
|
@@ -15,14 +15,14 @@ workflow {{ project_name }} { |
|
|
|
|
|
|
|
call BAMReadCount.BAMReadCount as BAMReadCount { |
|
|
|
input: |
|
|
|
ref_dir = ref_dir, |
|
|
|
fa = fa, |
|
|
|
fai = fai, |
|
|
|
bed = bed, |
|
|
|
bam = bam, |
|
|
|
bai = bai, |
|
|
|
docker = docker, |
|
|
|
disk_size = disk_size, |
|
|
|
ref_dir=ref_dir, |
|
|
|
fa=fa, |
|
|
|
fai=fai, |
|
|
|
bed=bed, |
|
|
|
bam=bam, |
|
|
|
bai=bai, |
|
|
|
docker=docker, |
|
|
|
disk_size=disk_size, |
|
|
|
cluster_config=cluster_config, |
|
|
|
sample_id=sample_id |
|
|
|
} |