From 6316d355ff3e86cad23a834a737c68a394819ec9 Mon Sep 17 00:00:00 2001 From: jprocter Date: Sun, 2 Sep 2012 14:30:12 +0100 Subject: [PATCH] JAL-1062 JAL-659 correct start position for retrieved sequence --- src/jalview/ws/dbsources/das/datamodel/DasSequenceSource.java | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/src/jalview/ws/dbsources/das/datamodel/DasSequenceSource.java b/src/jalview/ws/dbsources/das/datamodel/DasSequenceSource.java index ebe0134..269baf1 100644 --- a/src/jalview/ws/dbsources/das/datamodel/DasSequenceSource.java +++ b/src/jalview/ws/dbsources/das/datamodel/DasSequenceSource.java @@ -93,7 +93,7 @@ public class DasSequenceSource extends DbSourceProxyImpl implements } this.source = source; this.dbname = dbname; - this.dbrefname = dbrefname; + this.dbrefname = dbrefname.toUpperCase(); if (coordsys!=null ) { this.coordsys = coordsys; } @@ -253,6 +253,7 @@ public class DasSequenceSource extends DbSourceProxyImpl implements // in the XML Sequence sq = new Sequence(lbl, e.getContent().replaceAll( "\\s+", "")); + sq.setStart(e.getStart().intValue()); sq.addDBRef(new DBRefEntry(getDbSource(), getDbVersion() + ":" + e.getVersion(), lbl)); seqs.addElement(sq); -- 1.7.10.2