Error reporting.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@tomclegg.ca>

diff --git a/vcf2fasta.go b/vcf2fasta.go
index 383ef85ca76b5a6ad15c83778082549d995edbe9..78e773ace081477cbb9b81ff77b4328514855277 100644 (file)
--- a/vcf2fasta.go
+++ b/vcf2fasta.go
@@ -230,7 +230,10 @@ func (cmd *vcf2fasta) vcf2fasta(infile string, phase int) error {
                go func() {
                        defer wg.Done()
                        log.Printf("running %v", bed.Args)
-                       errs <- bed.Run()
+                       err := bed.Run()
+                       if err != nil {
+                               errs <- fmt.Errorf("gvcf_regions: %s", err)
+                       }
                }()
 
                bedcompr, bedcompw, err := os.Pipe()
@@ -247,7 +250,10 @@ func (cmd *vcf2fasta) vcf2fasta(infile string, phase int) error {
                go func() {
                        defer wg.Done()
                        log.Printf("running %v", bedcomp.Args)
-                       errs <- bedcomp.Run()
+                       err := bedcomp.Run()
+                       if err != nil {
+                               errs <- fmt.Errorf("bedtools complement: %s", err)
+                       }
                }()
                maskfile = bedcompr
        }
@@ -276,7 +282,7 @@ func (cmd *vcf2fasta) vcf2fasta(infile string, phase int) error {
                log.Printf("running %v", consensus.Args)
                err = consensus.Run()
                if err != nil {
-                       errs <- err
+                       errs <- fmt.Errorf("bcftools consensus: %s", err)
                        return
                }
                err = gzipw.Close()