/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
+ * Copyright (C) 2014 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.
- *
+ *
* 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 <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.ws.jws1;
{
// Adjust input view for gaps
// propagate insertions into profile
- alcsel = ColumnSelection.propagateInsertions(profileseq, al, input);
+ alcsel = ColumnSelection.propagateInsertions(profileseq, al,
+ input);
}
}
}
}
}
-
public JPredJob(Hashtable SequenceInfo, SequenceI seq, int[] delMap)
{
super();
sequence = new vamsas.objects.simple.Sequence();
sequence.setId(seq.getName());
sequence.setSeq(sq);
- } else {
+ }
+ else
+ {
errorMessage = "Sequence is too short to predict with JPred - need at least 20 amino acids.";
}
}
}
}
}
- String errorMessage="";
+
+ String errorMessage = "";
+
public String getValidationMessages()
{
- return errorMessage+"\n";
+ return errorMessage + "\n";
}
}
jobs = new WSJob[]
{ job };
job.setJobnum(0);
- } else {
+ }
+ else
+ {
wsInfo.appendProgressText(job.getValidationMessages());
}
}
{ job };
OutputHeader = wsInfo.getProgressText();
job.setJobnum(0);
- } else {
+ }
+ else
+ {
wsInfo.appendProgressText(job.getValidationMessages());
}
}