The length of segment is 1 bp less then the true value

[jiefoxi]

The length of segment is 1 bp less then the true value

Here is a patch to fix it:

  lib/Bio/Graphics/Browser2/Render.pm |    4 ++--
  1 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/lib/Bio/Graphics/Browser2/Render.pm b/lib/Bio/Graphics/Browser2/Render.pm
index 0cc268d..3d6d701 100644
--- a/lib/Bio/Graphics/Browser2/Render.pm
+++ b/lib/Bio/Graphics/Browser2/Render.pm
@@ -878,7 +878,7 @@ sub generate_title {
          : @$features == 0                   ? $self->translate('NOT_FOUND',$state->{name})
     : @$features == 1 ? "$description: ".
                   $self->translate('SHOWING_FROM_TO',
-                        scalar $dsn->unit_label($state->{view_stop} - $state->{view_start}),
+                        scalar $dsn->unit_label($state->{view_stop} - $state->{view_start} + 1),
                         $state->{ref},
                         $dsn->commas($state->{view_start}),
                         $dsn->commas($state->{view_stop}))
@@ -921,7 +921,7 @@ sub segment_info_object {
         flip                 => $state->{flip},
         initial_view_start   => $state->{view_start},
         initial_view_stop    => $state->{view_stop},
-        length_label         => scalar $self->data_source->unit_label($state->{view_stop} - $state->{view_start}),
+        length_label         => scalar $self->data_source->unit_label($state->{view_stop} - $state->{view_start} + 1),
         description          => $self->data_source->description,
     );
     if ( $state->{region_size} ) {

[scottcain]

Hi jiefoxi,

Can you provide some evidence that segment has an off by one? I'm wondering if perhaps you are not interpreting the graphical display the same way we are.

Thanks,
Scott

[jiefoxi]

For example, when choosing a region "chr1:1..100", GBrowse shows "chr1: 99 bp from chr1:1..99".

[scottcain]

Hmm, it doesn't do that for me:

Search term: ChrV:1..100

Result: 100 bp from ChrV:1..100

What version of GBrowse are you using? It would probably be better to take this to the GBrowse mailing list.

[jiefoxi]

GBrowse 2.43

[scottcain]

Since this can't be reproduced in the current release, I assume it was fixed somewhere along the way, so I'm closing this.