* Parser for the JPred/JNet concise format. This is a series of CSV lines, each
* line is either a sequence (QUERY), a sequence profile (align;), or jnet
/**
* Parser for the JPred/JNet concise format. This is a series of CSV lines, each
* line is either a sequence (QUERY), a sequence profile (align;), or jnet
@@ -294,7+299,11 @@ public class JPredFile extends AlignFile
if (maxLength != seq_entries.elementAt(i).toString().length())
{
if (maxLength != seq_entries.elementAt(i).toString().length())
{
- throw new IOException(MessageManager.formatMessage("exception.jpredconcide_entry_has_unexpected_number_of_columns", new String[]{ids.elementAt(i).toString()}));
if ((newSeq.getName().startsWith("QUERY") || newSeq.getName()
}
if ((newSeq.getName().startsWith("QUERY") || newSeq.getName()
@@ -318,7+327,11 @@ public class JPredFile extends AlignFile
} catch (Exception e)
{
tal = null;
} catch (Exception e)
{
tal = null;
- IOException ex = new IOException(MessageManager.formatMessage("exception.couldnt_parse_concise_annotation_for_prediction", new String[]{e.getMessage()}));