Log # duplicate tags.

[lightning.git] / import.go

diff --git a/import.go b/import.go
index 36558ca8d6a31f1f078db090d4ce87501cb333f4..a396636fcb324628a42b60b07d294d9cbba650ec 100644 (file)
--- a/import.go
+++ b/import.go
@@ -264,7 +264,9 @@ func (cmd *importer) tileInputs(tilelib *tileLibrary, infiles []string) error {
                                log.Printf("%s starting", infile)
                                defer log.Printf("%s done", infile)
                                tseqs, err := cmd.tileFasta(tilelib, infile)
-                               variants[0] = tseqs.Variants()
+                               var kept, dropped int
+                               variants[0], kept, dropped = tseqs.Variants()
+                               log.Printf("%s found %d unique tags plus %d repeats", infile, kept, dropped)
                                return err
                        }
                        infile2 := regexp.MustCompile(`\.1\.fasta(\.gz)?$`).ReplaceAllString(infile, `.2.fasta$1`)
@@ -273,7 +275,9 @@ func (cmd *importer) tileInputs(tilelib *tileLibrary, infiles []string) error {
                                log.Printf("%s starting", infile2)
                                defer log.Printf("%s done", infile2)
                                tseqs, err := cmd.tileFasta(tilelib, infile2)
-                               variants[1] = tseqs.Variants()
+                               var kept, dropped int
+                               variants[1], kept, dropped = tseqs.Variants()
+                               log.Printf("%s found %d unique tags plus %d repeats", infile, kept, dropped)
                                return err
                        }
                } else {
@@ -284,7 +288,9 @@ func (cmd *importer) tileInputs(tilelib *tileLibrary, infiles []string) error {
                                        log.Printf("%s phase %d starting", infile, phase+1)
                                        defer log.Printf("%s phase %d done", infile, phase+1)
                                        tseqs, err := cmd.tileGVCF(tilelib, infile, phase)
-                                       variants[phase] = tseqs.Variants()
+                                       var kept, dropped int
+                                       variants[phase], kept, dropped = tseqs.Variants()
+                                       log.Printf("%s phase %d found %d unique tags plus %d repeats", infile, phase+1, kept, dropped)
                                        return err
                                }
                        }