X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=src%2Fjalview%2Fio%2FPIRFile.java;h=5f5c23c4c834e4f79788f56bb3a93e454ba65996;hb=cbdd0bde03d210649623b4576dd75e6c25fe4582;hp=fcd790e8880ae161c64cb8dc9b5057c50fb90d22;hpb=e601d78bc7762386f570e346a803684c43a66ff1;p=jalview.git
diff --git a/src/jalview/io/PIRFile.java b/src/jalview/io/PIRFile.java
index fcd790e..5f5c23c 100755
--- a/src/jalview/io/PIRFile.java
+++ b/src/jalview/io/PIRFile.java
@@ -1,26 +1,30 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
* Jalview is free software: you can redistribute it and/or
* modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
- *
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
* Jalview is distributed in the hope that it will be useful, but
* WITHOUT ANY WARRANTY; without even the implied warranty
* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
* PURPOSE. See the GNU General Public License for more details.
*
- * You should have received a copy of the GNU General Public License along with Jalview. If not, see .
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.io;
-import java.io.*;
-import java.util.*;
+import jalview.datamodel.Sequence;
+import jalview.datamodel.SequenceI;
-import jalview.datamodel.*;
+import java.io.IOException;
+import java.util.Vector;
public class PIRFile extends AlignFile
{
@@ -42,6 +46,7 @@ public class PIRFile extends AlignFile
super(source);
}
+ @Override
public void parse() throws IOException
{
StringBuffer sequence;
@@ -96,6 +101,7 @@ public class PIRFile extends AlignFile
}
}
+ @Override
public String print()
{
return print(getSeqsAsArray());
@@ -170,7 +176,8 @@ public class PIRFile extends AlignFile
}
}
}
- int nochunks = (seq.length() / len) + 1;
+ int nochunks = (seq.length() / len)
+ + (seq.length() % len > 0 ? 1 : 0);
for (int j = 0; j < nochunks; j++)
{