X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=datamodel%2Fcompbio%2Fdata%2Fsequence%2FFastaReader.java;fp=datamodel%2Fcompbio%2Fdata%2Fsequence%2FFastaReader.java;h=38f1ccbe83c7057a553fd557bb0ad9f512dbe645;hb=603a6be6b9459625f535bf42c6d8ec5462e218e2;hp=2e1357f18788dc0a862ecf1aa7e2b59eababb8a5;hpb=0c18a9f74394c551d5192b37cf6ff1ba64feb21c;p=jabaws.git

diff --git a/datamodel/compbio/data/sequence/FastaReader.java b/datamodel/compbio/data/sequence/FastaReader.java
index 2e1357f..38f1ccb 100644
--- a/datamodel/compbio/data/sequence/FastaReader.java
+++ b/datamodel/compbio/data/sequence/FastaReader.java
@@ -19,6 +19,7 @@ package compbio.data.sequence;
 
 import java.io.File;
 import java.io.FileNotFoundException;
+import java.io.InputStream;
 import java.util.Iterator;
 import java.util.Scanner;
 
@@ -92,6 +93,19 @@ public class FastaReader implements Iterator<FastaSequence> {
 			}
 		});
 	}
+
+	/**
+	 * This class will not close the incoming stream! So the client should do
+	 * so.
+	 * 
+	 * @param inputStream
+	 * @throws FileNotFoundException
+	 */
+	public FastaReader(final InputStream inputStream)
+			throws FileNotFoundException {
+		input = new Scanner(inputStream);
+		input.useDelimiter("\\s*>");
+	}
 	/**
 	 * {@inheritDoc}
 	 *