/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
public Alignment readFile(String inFile, String type, String format)
throws java.io.IOException
{
- Alignment al;
- if (format.equals("HTML"))
- {
- afile = new HtmlFile(inFile, type);
- al = new Alignment(afile.getSeqsAsArray());
- afile.addAnnotations(al);
- }
- else
- {
- al = super.readFile(inFile, type, format);
- }
-
+ Alignment al = super.readFile(inFile, type, format);
return al;
}
public AlignmentI readFromFile(FileParse source, String format)
throws java.io.IOException
{
- Alignment al;
- if (format.equals("HTML"))
- {
- afile = new HtmlFile(source);
- al = new Alignment(afile.getSeqsAsArray());
- afile.addAnnotations(al);
- }
- else
- {
- al = (Alignment) super.readFromFile(source, format);
- }
+ Alignment al = (Alignment) super.readFromFile(source, format);
return al;
}
return formatSequences(format, getCacheSuffixDefault(format), av, selectedOnly);
}
+
}