move profiles down to see if those will overwrite resources

FertigLab · May 17, 2024 · 022f4ec · 022f4ec
1 parent 3773910
commit 022f4ec
Showing 1 changed file with 30 additions and 31 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -1,34 +1,3 @@
-// ways to run the pipeline
-
-profiles {
-    docker {
-        docker.enabled         = true
-        docker.userEmulation   = true
-    }
-
-    singularity {
-        singularity.enabled    = true
-        singularity.autoMounts = true
-    }
-
-    slurm {
-        singularity.enabled =    true
-        singularity.autoMounts = true
-        process {
-            executor = 'slurm'
-            cpus = 10
-            memory = '10 GB'
-        }
-    }
-    test {
-        process {
-            withName: COGAPS {
-                cpus = 1
-            }
-        }
-    }
-}
-
 // default params
 params {
     outdir = 'out'
@@ -157,4 +126,34 @@ process {
         errorStrategy = 'retry'
         maxRetries    = 2
     }
+}
+
+// profiles to run the pipeline
+profiles {
+    docker {
+        docker.enabled         = true
+        docker.userEmulation   = true
+    }
+
+    singularity {
+        singularity.enabled    = true
+        singularity.autoMounts = true
+    }
+
+    slurm {
+        singularity.enabled =    true
+        singularity.autoMounts = true
+        process {
+            executor = 'slurm'
+            cpus = 10
+            memory = '10 GB'
+        }
+    }
+    test {
+        process {
+            withName: COGAPS {
+                cpus = 1
+            }
+        }
+    }
 }