From d1a7d97d1f636002ed8fc160156b42aa28a9cb9b Mon Sep 17 00:00:00 2001
From: Nathan Johnson <njohnson@ebi.ac.uk>
Date: Wed, 28 Oct 2009 11:54:17 +0000
Subject: [PATCH] Removed references to Oligo and Affy as now in efg
---
modules/Bio/EnsEMBL/DBSQL/AnalysisAdaptor.pm | 4 +---
modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm | 6 ++----
2 files changed, 3 insertions(+), 7 deletions(-)
diff --git a/modules/Bio/EnsEMBL/DBSQL/AnalysisAdaptor.pm b/modules/Bio/EnsEMBL/DBSQL/AnalysisAdaptor.pm
index d0262786e5..1d0b5337f1 100755
--- a/modules/Bio/EnsEMBL/DBSQL/AnalysisAdaptor.pm
+++ b/modules/Bio/EnsEMBL/DBSQL/AnalysisAdaptor.pm
@@ -193,14 +193,12 @@ SELECT DISTINCT analysis_id FROM %s |;
sub feature_classes{
# Can't think of a way to do this programatically, so hard-coded
return qw(
- AffyFeature
DensityFeature
DnaAlignFeature
Gene
PredictionTranscript
MarkerFeature
- OligoFeature
- ProteinAlignFeature
+ ProteinAlignFeature
ProteinFeature
QtlFeature
RepeatFeature
diff --git a/modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm b/modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm
index b525a2872a..2d93e8723d 100755
--- a/modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm
+++ b/modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm
@@ -298,14 +298,12 @@ sub get_available_adaptors {
# Firstly those that just have an adaptor named after there object
# in the main DBSQL directory.
map( { $_ => "Bio::EnsEMBL::DBSQL::${_}Adaptor" } qw(
- AffyFeature AffyArray AffyProbe
- Analysis ArchiveStableId Attribute
+ Analysis ArchiveStableId Attribute
AssemblyExceptionFeature AssemblyMapper CoordSystem
CompressedSequence DBEntry DnaAlignFeature
DensityFeature DensityType Exon
Gene KaryotypeBand MiscSet
- MiscFeature OligoArray OligoFeature
- OligoProbe PredictionTranscript PredictionExon
+ MiscFeature PredictionTranscript PredictionExon
ProteinFeature ProteinAlignFeature RepeatConsensus
RepeatFeature Sequence SimpleFeature
Slice SupportingFeature Transcript
--
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