lower resources for seqkit stats and read length gathering from fastq

Author: SHuang-Broad

wdl/tasks/Utility/FastqUtils.wdl

@@ -23,7 +23,7 @@ task Stats {
         Map[String, Float] res = read_map("2.col.map.tsv")
     }
 
-    Int disk_size = 100 + ceil(size(fastq, "GB"))
+    Int disk_size = 10 + ceil(size(fastq, "GB"))
 
     command <<<
         set -eux
@@ -45,10 +45,9 @@ task Stats {
     ###################
     RuntimeAttr default_attr = object {
         cpu_cores:             4,
-        mem_gb:                16,
+        mem_gb:                4,
         disk_gb:               disk_size,
-        boot_disk_gb:          10,
-        preemptible_tries:     0,
+        preemptible_tries:     2,
         max_retries:           0,
         docker:                "us.gcr.io/broad-dsp-lrma/lr-seqkit:2.4.0"
     }
@@ -57,7 +56,6 @@ task Stats {
         cpu:                   select_first([runtime_attr.cpu_cores, default_attr.cpu_cores])
         memory:                select_first([runtime_attr.mem_gb, default_attr.mem_gb]) + " GiB"
         disks: "local-disk " + select_first([runtime_attr.disk_gb, default_attr.disk_gb]) + " SSD"
-        bootDiskSizeGb:        select_first([runtime_attr.boot_disk_gb, default_attr.boot_disk_gb])
         preemptible:           select_first([runtime_attr.preemptible_tries, default_attr.preemptible_tries])
         maxRetries:            select_first([runtime_attr.max_retries, default_attr.max_retries])
         docker:                select_first([runtime_attr.docker, default_attr.docker])

wdl/tasks/Utility/ReadLengths.wdl

@@ -80,11 +80,11 @@ task GetLengthsFromFastq {
 
     runtime {
         cpu: 2
-        memory: "8 GiB"
+        memory: "4 GiB"
         disks: "local-disk ~{disk_size} HDD"
         preemptible_tries:  3
         max_retries:        2
-        docker: "us.gcr.io/broad-dsp-lrma/lr-gcloud-samtools:0.1.1"
+        docker: "us.gcr.io/broad-dsp-lrma/lr-gcloud-samtools:0.1.3"
     }
 }