Correct yml file, add fasta to input and correct vcf on output

software/bcftools/mpileup/meta.yml

@@ -42,6 +42,10 @@ input:
         type: file
         description: Input BAM file
         pattern: "*.{bam}"
+    - fasta:
+        type: file
+        description: FASTA reference file
+        pattern: "*.{fasta,fa}"
 output:
     - meta:
         type: map
@@ -50,8 +54,8 @@ output:
           e.g. [ id:'test', single_end:false ]
     - vcf:
         type: file
-        description: FASTA reference consensus file
-        pattern: "*.{fasta,fa}"
+        description: VCF gzipped output file
+        pattern: "*.{vcf.gz}"
     - tbi:
         type: file
         description: tabix index file