From a4e5c8974e2f8595d8cb57f0c0990f2cfcc72729 Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Tue, 1 Aug 2006 15:31:16 +0000
Subject: [PATCH] use feature_relationship.rank
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@4600 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
uk/ac/sanger/artemis/util/DatabaseDocument.java | 8 +++++++-
1 file changed, 7 insertions(+), 1 deletion(-)
diff --git a/uk/ac/sanger/artemis/util/DatabaseDocument.java b/uk/ac/sanger/artemis/util/DatabaseDocument.java
index e02c565ce..9037a2722 100644
--- a/uk/ac/sanger/artemis/util/DatabaseDocument.java
+++ b/uk/ac/sanger/artemis/util/DatabaseDocument.java
@@ -569,6 +569,7 @@ public class DatabaseDocument extends Document
String parent_id = null;
String parent_relationship = null;
+ int rank = -1;
if(feat.getFeature_relationship() != null)
{
ChadoFeatureRelationship feat_relationship = feat.getFeature_relationship();
@@ -577,6 +578,7 @@ public class DatabaseDocument extends Document
parent_relationship = feat_relationship.getCvterm().getName();
+ rank= feat_relationship.getRank();
if(parent_relationship == null)
parent_relationship = getCvtermName(parent_type_id, dao);
}
@@ -649,7 +651,11 @@ public class DatabaseDocument extends Document
}
this_buff.append("timelastmodified=" + timelastmodified + ";");
-
+
+ // this is the chado feature_relationship.rank used
+ // to order features e.g. exons
+ if(rank > -1)
+ this_buff.append("feature_relationship_rank="+rank+";");
// attributes
Hashtable qualifiers = feat.getQualifiers();
--
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