Add nextflow.config

software/fastqc/test/main.nf

@@ -2,10 +2,6 @@
 
 nextflow.enable.dsl = 2
 
-params.outdir = "output/"
-params.publish_dir_mode = "copy"
-params.conda = false
-
 include { FASTQC } from '../main.nf'
 
 /*

software/fastqc/test/nextflow.config

@@ -1,2 +1,20 @@
 
+params {
+  outdir = "output/"
+  publish_dir_mode = "copy"
+  conda = false
+}
+
+profiles {
+  conda  {
+    params.conda = true
+  }
+  docker {
     docker.enabled = true
+    docker.runOptions = '-u \$(id -u):\$(id -g)'
+  }
+  singularity {
+    singularity.enabled = true
+    singularity.autoMounts = true
+  }
+}