X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fio%2FAlignmentProperties.java;h=cb4b7ad50c208b37fc623d9a2e53ffff51967260;hb=a23cc416cd520ac6dec6052591575b264f5d25bc;hp=9bb6ea91c9090559f6c6947d24679f5aa138cd9b;hpb=a45774ee31d9f35d4eff46d54d7deab719afb092;p=jalview.git
diff --git a/src/jalview/io/AlignmentProperties.java b/src/jalview/io/AlignmentProperties.java
index 9bb6ea9..cb4b7ad 100644
--- a/src/jalview/io/AlignmentProperties.java
+++ b/src/jalview/io/AlignmentProperties.java
@@ -1,25 +1,27 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 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.IOException;
-import java.io.StringWriter;
import java.io.PrintWriter;
+import java.io.StringWriter;
import java.util.Enumeration;
import java.util.Hashtable;
@@ -27,8 +29,10 @@ import jalview.datamodel.Alignment;
import jalview.datamodel.AlignmentI;
/**
- * Render associated attributes of an alignment. The heart of this code was refactored from jalview.gui.AlignFrame and jalview.appletgui.AlignFrame
- * TODO: consider extending the html renderer to annotate elements with CSS ids enabling finer output format control.
+ * Render associated attributes of an alignment. The heart of this code was
+ * refactored from jalview.gui.AlignFrame and jalview.appletgui.AlignFrame TODO:
+ * consider extending the html renderer to annotate elements with CSS ids
+ * enabling finer output format control.
*
*/
public class AlignmentProperties
@@ -42,6 +46,7 @@ public class AlignmentProperties
/**
* render the alignment's properties report as text or an HTML fragment
+ *
* @param pw
* @param html
*/
@@ -56,11 +61,15 @@ public class AlignmentProperties
- alignment.getSequenceAt(i).getStart();
avg += size;
if (size > max)
+ {
max = size;
+ }
if (size < min)
+ {
min = size;
+ }
}
- avg = avg / (float) alignment.getHeight();
+ avg = avg / alignment.getHeight();
pw.print(nl);
pw.print("Sequences: " + alignment.getHeight());
pw.print(nl);