add nextflow d30e48d

nextflow/tests-v1/blast.nf

@@ -0,0 +1,41 @@
+#!/usr/bin/env nextflow
+
+params.db = "$baseDir/blast-db/tiny"
+params.query = "$baseDir/data/sample.fa"
+params.chunkSize = 1
+
+DB = file(params.db)
+
+process blast {
+    input:
+    path 'seq.fa'
+
+    output:
+    path 'out'
+
+    """
+    blastp -db $DB -query seq.fa -outfmt 6 > out
+    """
+}
+
+process sort {
+    input:
+    path 'hits_*'
+
+    output:
+    stdout
+
+    """
+    sort hits_*
+    """
+}
+
+
+workflow {
+    Channel.fromPath(params.query) |
+            splitFasta( by: params.chunkSize, file:true ) |
+            blast |
+            collect |
+            sort |
+            subscribe { println it }
+}