fix singularity config

Author: luisas

nextflow.config

@@ -123,22 +123,21 @@ profiles {
     }
     docker {
         docker.enabled          = true
-        docker.runOptions      = params.use_gpu ? '--gpus all' : '-u $(id -u):$(id -g)'
+        docker.runOptions       = params.use_gpu ? '--gpus all' : '-u $(id -u):$(id -g)'
         conda.enabled           = false
         singularity.enabled     = false
         podman.enabled          = false
         shifter.enabled         = false
         charliecloud.enabled    = false
         apptainer.enabled       = false
-        docker.runOptions       = '-u $(id -u):$(id -g)'
     }
     arm {
-        docker.runOptions     = params.use_gpu ? '-u $(id -u):$(id -g) --platform=linux/amd64 --gpus all' : '-u $(id -u):$(id -g) --platform=linux/amd64'
+        docker.runOptions       = params.use_gpu ? '-u $(id -u):$(id -g) --platform=linux/amd64 --gpus all' : '-u $(id -u):$(id -g) --platform=linux/amd64'
     }
     singularity {
         singularity.enabled     = true
         singularity.autoMounts  = true
-        singularity.runOptions = params.use_gpu ? '--nv' : singularity.runOptions
+        singularity.runOptions  = params.use_gpu ? '--nv' : ""
         conda.enabled           = false
         docker.enabled          = false
         podman.enabled          = false
@@ -177,7 +176,7 @@ profiles {
     apptainer {
         apptainer.enabled       = true
         apptainer.autoMounts    = true
-        apptainer.runOptions    = params.use_gpu ? '--nv' : apptainer.runOptions
+        apptainer.runOptions    = params.use_gpu ? '--nv' : ""
         conda.enabled           = false
         docker.enabled          = false
         singularity.enabled     = false