diff --git a/conf/pipeline/proteinfold/nci_gadi.config b/conf/pipeline/proteinfold/nci_gadi.config index f07999c01..9b6029b0b 100644 --- a/conf/pipeline/proteinfold/nci_gadi.config +++ b/conf/pipeline/proteinfold/nci_gadi.config @@ -11,9 +11,8 @@ profiles { // Define process resource limits process { - executor = 'pbspro' - project = System.getenv("PROJECT") storage = params.storage_account?.trim() ? params.storage_account : "scratch/${params.project}+gdata/${params.project}" + executor = 'pbspro' module = 'singularity' cache = 'lenient' stageInMode = 'symlink' @@ -22,7 +21,6 @@ profiles { withName: 'RUN_ALPHAFOLD2|RUN_ALPHAFOLD2_PRED|RUN_ALPHAFOLD2_MSA' { queue = params.use_gpu ? 'gpuvolta' : 'normal' cpus = 48 - gpus = 4 time = '4h' memory = 380.GB } @@ -31,7 +29,6 @@ profiles { container = "nf-core/proteinfold_colabfold:1.1.1" queue = params.use_gpu ? 'gpuvolta' : 'normal' cpus = 48 - gpus = 4 time = '4h' memory = 380.GB } @@ -40,18 +37,16 @@ profiles { container = "nf-core/proteinfold_esmfold:1.1.1" queue = params.use_gpu ? 'gpuvolta' : 'normal' cpus = 48 - gpus = 4 time = '4h' memory = 380.GB } } // Write custom trace file with outputs required for SU calculation - def trace_timestamp = new java.util.Date().format('yyyy-MM-dd_HH-mm-ss') trace { enabled = true overwrite = false - file = "./gadi-nf-core-trace-${trace_timestamp}.txt" + file = "./gadi-nf-core-trace-${new java.util.Date().format('yyyy-MM-dd_HH-mm-ss')}.txt" fields = 'name,status,exit,duration,realtime,cpus,%cpu,memory,%mem,rss' } }