Merge pull request #479 from ens-lgil/feature/haplo_fix_96b

Keep same chromosome ordering for the transcript tree
Ensembl · Jun 4, 2019 · c9cbd42 · c9cbd42
2 parents c36b302 + 3ab39a5
commit c9cbd42
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/modules/Bio/EnsEMBL/VEP/AnnotationSource/Cache/Transcript.pm b/modules/Bio/EnsEMBL/VEP/AnnotationSource/Cache/Transcript.pm
@@ -288,7 +288,7 @@ sub tree_file {
     open TR, ">$tmpfile" or throw("ERROR: Could not write to transcript coords file: $!");
 
     opendir DIR, $as_dir;
-    foreach my $c(grep {!/^\./ && -d $as_dir.'/'.$_} readdir DIR) {
+    foreach my $c(sort { $a cmp $b } grep {!/^\./ && -d $as_dir.'/'.$_} readdir DIR) {
 
       opendir CHR, $as_dir.'/'.$c;
 
@@ -319,4 +319,4 @@ sub tree_file {
   return $file;
 }
 
-1;
+1;