Test was failing if the location was at 1 and negative strand because internally stored as 0 and you can't have negative 0

willishf · willishf · commit d7f76fe74980 · 2011-01-01T15:07:52.000Z
git-svn-id: http://code.open-bio.org/repos/biojava/biojava-live/trunk@8653 7c6358e6-4a41-0410-a743-a5b2a554c398
diff --git a/biojava3-genome/src/test/java/org/biojava3/genome/GeneFeatureHelperTest.java b/biojava3-genome/src/test/java/org/biojava3/genome/GeneFeatureHelperTest.java
@@ -14,6 +14,9 @@
 import org.biojava3.core.sequence.GeneSequence;
 import org.biojava3.core.sequence.ProteinSequence;
 import org.biojava3.core.sequence.io.FastaWriterHelper;
+import org.biojava3.genome.parsers.gff.FeatureI;
+import org.biojava3.genome.parsers.gff.FeatureList;
+import org.biojava3.genome.parsers.gff.GFF3Reader;
 import org.biojava3.genome.parsers.gff.GFF3Writer;
 
 /**
@@ -36,6 +39,15 @@ protected void tearDown() throws Exception {
         super.tearDown();
     }
 
+    public void testZeroLocation() throws Exception{
+
+        FeatureList listGenes = GFF3Reader.read("src/test/resources/amphimedon.gff3");
+     //   System.out.println("Features");
+     //   for(FeatureI feature : listGenes){
+     //       System.out.println(feature);
+     //   }
+    }
+
     /**
      * Test of loadFastaAddGeneFeaturesFromUpperCaseExonFastaFile method, of class GeneFeatureHelper.
      * @throws Exception
diff --git a/biojava3-genome/src/test/resources/amphimedon.gff3 b/biojava3-genome/src/test/resources/amphimedon.gff3
@@ -0,0 +1,3 @@
+##gff-version 3
+Contig13175	JGI	gene	1	1864985	.	-	.	ID=Aqu1;Name=Aqu1
+Contig100	JGI	mRNA	27	746	.	-	.	ID=PAC:15698561;Name=Aqu1.200033;PACid=15698561;Parent=Aqu1

Original file line number	Diff line number	Diff line change
`@@ -0,0 +1,3 @@`
	`1`	`+##gff-version 3`
	`2`	`+Contig13175 JGI gene 1 1864985 . - . ID=Aqu1;Name=Aqu1`
	`3`	`+Contig100 JGI mRNA 27 746 . - . ID=PAC:15698561;Name=Aqu1.200033;PACid=15698561;Parent=Aqu1`