Tidied up the nextflow.config profiles a bit

nextflow.config

@@ -11,34 +11,40 @@
 
 // Configurable variables/defaults
 params {
-    // defaults. best not changed
-    pipelineVersion = '1.0dev' // Pipeline version
-    container = "nfcore/vipr:latest" // for GIS translated into conda env name!
-    outdir = 'results'
-    tracedir = "${params.outdir}/pipeline_info"
+  // defaults. best not changed
+  pipelineVersion = '1.0dev' // Pipeline version
+  container = "nfcore/vipr:latest" // for GIS translated into conda env name!
+  outdir = 'results'
+  tracedir = "${params.outdir}/pipeline_info"
 
-    // Pipeline options
-    skip_kraken = false
+  // Pipeline options
+  skip_kraken = false
 }
 
 
 profiles {
-    standard {
-        includeConfig 'conf/base.config'
-    }
-    awsbatch {
+  standard {
+    includeConfig 'conf/base.config'
+  }
+  conda { process.conda = "$baseDir/environment.yml" }
+  docker { docker.enabled = true }
+  singularity { singularity.enabled = true }
+  awsbatch {
     includeConfig 'conf/base.config'
     includeConfig 'conf/awsbatch.config'
-    includeConfig 'conf/igenomes.config'
-    }
-    gis {
-        includeConfig 'conf/base.config'
-        includeConfig 'conf/gis.config'
-    }
-
-    conda { process.conda = "$baseDir/environment.yml" }
-    docker { docker.enabled = true }
-    singularity { singularity.enabled = true }
+  }
+  gis {
+    includeConfig 'conf/base.config'
+    includeConfig 'conf/gis.config'
+  }
+// TODO: Add a test config
+//  test {
+//    includeConfig 'conf/base.config'
+//    includeConfig 'conf/test.config'
+//  }
+  none {
+    // Don't load any config (for use with custom home configs)
+  }
 }