Merge branch 'CW-4917' into 'dev'

Fix resource requirements [CW-4917]

Closes CW-4917

See merge request epi2melabs/workflows/wf-mpx!42

CHANGELOG.md

@@ -4,6 +4,11 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+
+## [Unreleased]
+### Fixed
+- Updated recommended (32GB) and minimum (16GB, with `--assembly false`) memory requirements.
+
 ## [v1.1.2]
 ### Changed
 - Reconcile workflow with wf-template v5.2.5.

README.md

@@ -21,12 +21,12 @@ We expect data to be generated from a mixed population sample hence the use of t
 Recommended requirements:
 
 + CPUs = 4
-+ Memory = 16GB
++ Memory = 32GB
 
 Minimum requirements:
 
 + CPUs = 4
-+ Memory = 10GB
++ Memory = 16GB
 
 Approximate run time: 45 minutes
 

docs/03_compute_requirements.md

@@ -1,12 +1,12 @@
 Recommended requirements:
 
 + CPUs = 4
-+ Memory = 16GB
++ Memory = 32GB
 
 Minimum requirements:
 
 + CPUs = 4
-+ Memory = 10GB
++ Memory = 16GB
 
 Approximate run time: 45 minutes
 

main.nf

@@ -125,7 +125,7 @@ process makeConsensus {
 process flyeAssembly {
     label "wfmpx"
     cpus 4
-    memory '28GB'
+    memory '31GB'
     input:
         tuple val(sample_id), val(type), path("${sample_id}.bam"), path("${sample_id}.bam.bai")
         path reference
@@ -159,7 +159,7 @@ process noAssembly{
 process medaka_polish {
     label "medaka"
     cpus 2
-    memory '16GB'
+    memory '15GB'
     input:
         tuple val(sample_id),
         val(type),

nextflow_schema.json

@@ -218,11 +218,11 @@
     "resources": {
         "recommended": {
             "cpus": 4,
-            "memory": "16GB"
+            "memory": "32GB"
         },
         "minimum": {
             "cpus": 4,
-            "memory": "10GB"
+            "memory": "16GB"
         },
         "run_time": "45 minutes",
         "arm_support": true