add gpu specific config options

nf-core · Nov 2, 2024 · db5555a · db5555a
1 parent ae62842
commit db5555a
Show file tree

Hide file tree

Showing 2 changed files with 9 additions and 0 deletions.
diff --git a/conf/base.config b/conf/base.config
@@ -52,6 +52,9 @@ process {
     withLabel:process_high_memory {
         memory = { 200.GB * task.attempt }
     }
+    withLabel:process_gpu {
+        ext.use_gpu = { use_gpu }
+    }
     withLabel:error_ignore {
         errorStrategy = 'ignore'
     }

diff --git a/nextflow.config b/nextflow.config
@@ -217,6 +217,12 @@ profiles {
         executor.cpus           = 4
         executor.memory         = 8.GB
     }
+    gpu {
+        use_gpu                 = true
+        docker.runOptions       = '-u $(id -u):$(id -g) --gpus device=0'
+        apptainer.runOptions    = '--no-mount tmp --writable-tmpfs --nv'
+        singularity.runOptions  = '--no-mount tmp --writable-tmpfs --nv'
+    }
     test        { includeConfig 'conf/test.config'      }
     test_full   { includeConfig 'conf/test_full.config' }
     test_ci     { params.pipelines_testdata_base_path = './test-datasets/' }