|
|
@@ -230,20 +230,20 @@ workflow {{ project_name }} { |
|
|
|
} |
|
|
|
} |
|
|
|
|
|
|
|
call Manta.Manta as Manta { |
|
|
|
input: |
|
|
|
call Manta.Manta as Manta { |
|
|
|
input: |
|
|
|
sample=sample_id, |
|
|
|
fasta=fasta, |
|
|
|
ref_dir=ref_dir, |
|
|
|
fasta=fasta, |
|
|
|
ref_dir=ref_dir, |
|
|
|
regions=regions, |
|
|
|
normal_bam=normal_BQSR.recaled_bam, |
|
|
|
normal_bam_index=normal_BQSR.recaled_bam_index, |
|
|
|
tumor_bam=tumor_BQSR.recaled_bam, |
|
|
|
tumor_bam_index=tumor_BQSR.recaled_bam_index, |
|
|
|
docker=manta_docker, |
|
|
|
cluster_config=cluster_config, |
|
|
|
disk_size=disk_size |
|
|
|
} |
|
|
|
docker=manta_docker, |
|
|
|
cluster_config=cluster_config, |
|
|
|
disk_size=disk_size |
|
|
|
} |
|
|
|
|
|
|
|
call AnnotSV.AnnotSV as Manta_AnnotSV { |
|
|
|
input: |