Add missing files

genepi · May 24, 2024 · 6cbc0a2 · 6cbc0a2
1 parent 7353436
commit 6cbc0a2
Showing 1 changed file with 16 additions and 0 deletions.
diff --git a/modules/local/index_creation.nf b/modules/local/index_creation.nf
@@ -0,0 +1,16 @@
+process INDEX_CREATION {
+	input:
+	path reference
+	val mtdna_tag
+
+	output:
+	path "ref*.{dict,fai}", emit: fasta_index_ch
+	path "ref.fasta", emit: ref_ch
+
+	"""
+	sed -e "s/^>.*/>$mtdna_tag/" $reference > ref.fasta
+    samtools faidx ref.fasta
+    	samtools dict ref.fasta \
+	    -o ref.dict
+	"""
+}