Print addiitonal diagnostic info when running

- Added project manifest
- v0.2.0
- Print git commit, etc when running

Author: cflerin

main.nf

@@ -1,11 +1,38 @@
 #!/usr/bin/env nextflow
 
-println( "\n***\nParameters in use:")
+println( "\n***")
+println "Project name: $workflow.manifest.name"
+println "Project dir : $workflow.projectDir"
+println "Git info: $workflow.repository - $workflow.revision [$workflow.commitId]"
+println "Cmd line: $workflow.commandLine"
+println "Pipeline version: $workflow.manifest.version"
+println( "***\nParameters in use:")
 params.each { println "${it}" }
-println( "***\n")
 
 
-file( "${params.outdir}" ).mkdirs()
+/*
+ * scenic channel setup
+ */
+
+// channel for SCENIC databases resources:
+featherDB = Channel
+    .fromPath( params.db )
+    .collect() // use all files together in the ctx command
+
+n = Channel.fromPath(params.db).count().get()
+if( n==1 ) {
+    println( "***\nWARNING: only using a single feather database:\n  ${featherDB.get()[0]}.\nTo include all database files using pattern matching, make sure the value for the '--db' parameter is enclosed in quotes!" )
+} else {
+    println( "***\nUsing $n feather databases:")
+    featherDB.get().each {
+        println "  ${it}"
+    }
+}
+println( "***\n")
+
+// expr = file(params.expr)
+tfs = file(params.TFs)
+motifs = file(params.motifs)
 
 
 /*
@@ -114,26 +141,6 @@ process cluster {
  * SCENIC steps
  */
 
-// channel for SCENIC databases resources:
-featherDB = Channel
-    .fromPath( params.db )
-    .collect() // use all files together in the ctx command
-
-n = Channel.fromPath(params.db).count().get()
-if( n==1 ) {
-    println( "***\nWARNING: only using a single feather database:\n  ${featherDB.get()[0]}.\nTo include all database files using pattern matching, make sure the value for the '--db' parameter is enclosed in quotes!\n***\n" )
-} else {
-    println( "***\nUsing $n feather databases:")
-    featherDB.get().each {
-        println "  ${it}"
-    }
-    println( "***\n")
-}
-
-// expr = file(params.expr)
-tfs = file(params.TFs)
-motifs = file(params.motifs)
-
 process GRNinference {
     cache 'deep'
     container params.pyscenic_container

nextflow.config

@@ -1,4 +1,14 @@
 
+manifest {
+    name = 'SCENIC Protocol'
+    description = 'A scalable SCENIC workflow for single-cell gene regulatory network analysis'
+    homePage = 'https://github.com/aertslab/SCENICprotocol'
+    author = 'Christopher Flerin, Bram Van de Sande'
+    mainScript = 'main.nf'
+    defaultBranch = 'master'
+    version = '0.2.0'
+}
+
 params {
     loom_input = '' // unfiltered loom input
     loom_filtered = 'filtered.loom'