perf: cluster_config

defaults

   "sequenza_docker": "registry.cn-shanghai.aliyuncs.com/choppy-pipe/sequenza:3.0.0",
   "msisensor_docker": "registry.cn-shanghai.aliyuncs.com/choppy-pipe/msisensor-pro:1.2.0",
   "tmb_docker": "registry.cn-shanghai.aliyuncs.com/choppy-pipe/tmb:1.0.0",
-  "cluster_config": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
+  "cluster_16cpu_32gb": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
+  "cluster_2cpu_4gb": "OnDemand bcs.es.c.large img-ubuntu-vpc",
   "disk_size": "200"
 }

inputs

   "{{ project_name }}.baseline": "{{ baseline }}",
   "{{ project_name }}.ref_flat": "{{ ref_flat }}",
   "{{ project_name }}.disk_size": "{{ disk_size }}",
-  "{{ project_name }}.cluster_config": "{{ cluster_config }}"
+  "{{ project_name }}.cluster_2cpu_4gb": "{{ cluster_2cpu_4gb }}",
+  "{{ project_name }}.cluster_16cpu_32gb": "{{ cluster_16cpu_32gb }}"
 }

workflow.wdl

   Int? interval_padding
   
   String disk_size
-  String cluster_config
+  String cluster_2cpu_4gb
+  String cluster_16cpu_32gb
   
   if (tumor_fastq_1!= "") {
     call mapping.mapping as tumor_mapping {
       ref_dir=ref_dir,
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call Metrics.Metrics as tumor_Metrics {
       sample=sample_id + '.T',
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call Dedup.Dedup as tumor_Dedup {
       sample=sample_id + '.T',
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call deduped_Metrics.deduped_Metrics as tumor_deduped_Metrics {
       sample=sample_id + '.T',
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call BQSR.BQSR as tumor_BQSR {
       sample=sample_id + '.T',
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
   }
   
       ref_dir=ref_dir,
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call Metrics.Metrics as normal_Metrics {
       regions=regions,
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call Dedup.Dedup as normal_Dedup {
       sample=sample_id + '.N',
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call deduped_Metrics.deduped_Metrics as normal_deduped_Metrics {
       regions=regions,
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call BQSR.BQSR as normal_BQSR {
       sample=sample_id + '.N',
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call Haplotyper.Haplotyper as Haplotyper {
       regions=regions,
       docker=sentieon_docker,
       disk_size=disk_size,
-      cluster_config=cluster_config
+      cluster_config=cluster_16cpu_32gb
     }
 
     call bcftools.bcftools as Haplotyper_bcftools {
       fasta=fasta,
       ref_dir=ref_dir,
       docker=bcftools_docker,
-      cluster_config=cluster_config,
+      cluster_config=cluster_2cpu_4gb,
       disk_size=disk_size
     }
   }
     tumor_bam=tumor_BQSR.recaled_bam,
     tumor_bam_index=tumor_BQSR.recaled_bam_index,
     docker=manta_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_16cpu_32gb,
     disk_size=disk_size
   }
   
     germline_vcf=Manta.germline_vcf,
     annotsv_database=annotsv_database,
     docker=annotsv_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_2cpu_4gb,
     disk_size=disk_size
   }
   
     germline_resource=germline_resource,
     germline_resource_tbi=germline_resource_tbi,
     docker=sentieon_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_16cpu_32gb,
     disk_size=disk_size
   }
   
     fasta=fasta,
     ref_dir=ref_dir,
     docker=bcftools_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_2cpu_4gb,
     disk_size=disk_size
   }
   
     vcf=TNseq_bcftools.norm_vcf,
     annovar_database=annovar_database,
     docker=annovar_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_16cpu_32gb,
     disk_size=disk_size
   }
   
     tumor_bam_index=tumor_BQSR.recaled_bam_index,
     baseline=baseline,
     docker=msisensor_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_2cpu_4gb,
     disk_size=disk_size
   }
   
     tumor_bam=tumor_BQSR.recaled_bam,
     tumor_bam_index=tumor_BQSR.recaled_bam_index,
     docker=sequenza_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_16cpu_32gb,
     disk_size=disk_size
   }
   
     regions=regions,
     snpindel_txt=TNseq_ANNOVAR.multianno_txt,
     docker=tmb_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_2cpu_4gb,
     disk_size=disk_size
   }
   
     tumor_bam_index=tumor_BQSR.recaled_bam_index,
     hrd=HRD.hrd,
     docker=cnvkit_docker,
-    cluster_config=cluster_config,
+    cluster_config=cluster_2cpu_4gb,
     disk_size=disk_size
   }
 }