1 changed files with 18 additions and 5 deletions
+ 18
- 5
workflow.wdl
View File
| File read1 | File read1 | ||||
| File read2 | File read2 | ||||
| File idx | |||||
| File idx | |||||
| String idx_prefix | String idx_prefix | ||||
| String disk_size | |||||
| String cluster_config | |||||
| call hisat2.hisat2 as hisat2 { | call hisat2.hisat2 as hisat2 { | ||||
| input: idx=idx, idx_prefix=idx_prefix, read_1P=read1, read_2P=read2 | |||||
| input: | |||||
| idx=idx, | |||||
| idx_prefix=idx_prefix, | |||||
| read_1P=read1, | |||||
| read_2P=read2, | |||||
| disk_size=disk_size, | |||||
| cluster_config=cluster_config | |||||
| } | } | ||||
| call samtools.samtools as samtools { | call samtools.samtools as samtools { | ||||
| input: sam = hisat2.sam | |||||
| input: | |||||
| sam = hisat2.sam, | |||||
| disk_size=disk_size, | |||||
| cluster_config=cluster_config | |||||
| } | } | ||||
| call arcashla.arcashla as arcashla { | call arcashla.arcashla as arcashla { | ||||
| input: bam = samtools.out_bam | |||||
| input: | |||||
| bam = samtools.out_bam, | |||||
| disk_size=disk_size, | |||||
| cluster_config=cluster_config | |||||
| } | } | ||||
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