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patch for occasional ArrayIndexOutOfBounds
[jalview.git]
/
src
/
jalview
/
io
/
FastaFile.java
diff --git
a/src/jalview/io/FastaFile.java
b/src/jalview/io/FastaFile.java
index
034e129
..
b8e001a
100755
(executable)
--- a/
src/jalview/io/FastaFile.java
+++ b/
src/jalview/io/FastaFile.java
@@
-1,5
+1,5
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
* Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
* Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
@@
-203,7
+203,7
@@
public class FastaFile extends AlignFile
out.append(" " + s[i].getDescription());
}
out.append(" " + s[i].getDescription());
}
- out.append("\n");
+ out.append(newline);
int nochunks = (s[i].getLength() / len) + 1;
int nochunks = (s[i].getLength() / len) + 1;
@@
-214,12
+214,12
@@
public class FastaFile extends AlignFile
if (end < s[i].getLength())
{
if (end < s[i].getLength())
{
- out.append(s[i].getSequenceAsString(start, end) + "\n");
+ out.append(s[i].getSequenceAsString(start, end) + newline);
}
else if (start < s[i].getLength())
{
out.append(s[i].getSequenceAsString(start, s[i].getLength())
}
else if (start < s[i].getLength())
{
out.append(s[i].getSequenceAsString(start, s[i].getLength())
- + "\n");
+ + newline);
}
}
}
}