From 2ae8a3e685e2528d8b5672ff3faa6189d10dab44 Mon Sep 17 00:00:00 2001
From: Andrew Yates <ayates@ebi.ac.uk>
Date: Tue, 17 Jan 2012 14:41:44 +0000
Subject: [PATCH] Missing a comma in the docs & updating the example to repeat
types which are currently in use
---
modules/Bio/EnsEMBL/DBSQL/RepeatFeatureAdaptor.pm | 4 ++--
modules/Bio/EnsEMBL/Slice.pm | 2 +-
2 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/modules/Bio/EnsEMBL/DBSQL/RepeatFeatureAdaptor.pm b/modules/Bio/EnsEMBL/DBSQL/RepeatFeatureAdaptor.pm
index bc282339b6..4e8363faf4 100644
--- a/modules/Bio/EnsEMBL/DBSQL/RepeatFeatureAdaptor.pm
+++ b/modules/Bio/EnsEMBL/DBSQL/RepeatFeatureAdaptor.pm
@@ -62,8 +62,8 @@ use vars qw(@ISA);
Arg [3] : (optional) string/array $repeat_type
Limits RepeatFeatures obtained to those of specified
repeat_type
- Example : @rfeats = @{$rfa->fetch_all_by_Slice($slice, undef, 'LTR')};
- @rfeats = @{$rfa->fetch_all_by_Slice($slice, undef, ['Type II Transposons' 'RNA repeats'])};
+ Example : @rfeats = @{$rfa->fetch_all_by_Slice($slice, undef, 'Type II Transposons')};
+ @rfeats = @{$rfa->fetch_all_by_Slice($slice, undef, ['Type II Transposons', 'RNA repeats'])};
Description: Retrieves repeat features overlapping the area designated by
the provided slice argument. Returned features will be in
in the same coordinate system as the provided slice and will
diff --git a/modules/Bio/EnsEMBL/Slice.pm b/modules/Bio/EnsEMBL/Slice.pm
index c01db2c187..3b89df2b47 100644
--- a/modules/Bio/EnsEMBL/Slice.pm
+++ b/modules/Bio/EnsEMBL/Slice.pm
@@ -1528,7 +1528,7 @@ sub get_all_SimpleFeatures {
to limit by more than one
Arg [3] : (optional) string $db
Key for database e.g. core/vega/cdna/....
- Example : @repeat_feats = @{$slice->get_all_RepeatFeatures(undef,'LTR')};
+ Example : @repeat_feats = @{$slice->get_all_RepeatFeatures(undef,'Type II Transposons')};
Description: Retrieves the RepeatFeatures which overlap with
logic name $logic_name and with score above $score. If
$logic_name is not defined features of all logic names are
--
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