}
// USE THIS METHOD TO SAVE A SINGLE ALIGNMENT WINDOW
- public void SaveAlignment(AlignFrame af, String jarFile,
+ public boolean SaveAlignment(AlignFrame af, String jarFile,
String fileName)
{
try
out.close();
jout.close();
+ return true;
}
catch (Exception ex)
{
ex.printStackTrace();
+ return false;
}
}
vamsasSeq = new Sequence();
vamsasSeq.setId(id + "");
vamsasSeq.setName(jds.getName());
- vamsasSeq.setSequence(jds.getSequence());
+ vamsasSeq.setSequence(jds.getSequenceAsString());
vamsasSeq.setDescription(jds.getDescription());
if (jds.getDatasetSequence().getDBRef() != null)
BufferedReader in = new BufferedReader(new InputStreamReader(jin));
File outFile = File.createTempFile("jalview_pdb", ".txt");
- System.out.println("CREATE "+outFile);
outFile.deleteOnExit();
PrintWriter out = new PrintWriter(new FileOutputStream(outFile));
String data;