package jalview.ws.jws1;
import jalview.datamodel.AlignmentI;
+import jalview.io.FileFormat;
import jalview.io.FileParse;
import jalview.io.FormatAdapter;
import jalview.io.InputStreamParser;
AlignmentI al = null;
while (r.hasNext())
{
- FileParse fp = new InputStreamParser(r.next(), source.getDataName());
- AlignmentI nal = new FormatAdapter().readFromFile(fp, "RNAML");
+ FileParse fp = new InputStreamParser(r.next(),
+ source.getDataName());
+ AlignmentI nal = new FormatAdapter().readFromFile(fp,
+ FileFormat.Rnaml);
if (al == null)
{
al = nal;
}
else
{
- throw new IOException(
- MessageManager
- .getString("exception.unexpected_handling_rnaml_translation_for_pdb"),
+ throw new IOException(MessageManager.getString(
+ "exception.unexpected_handling_rnaml_translation_for_pdb"),
x);
}
}
URL url = new URL(
"http://paradise-ibmc.u-strasbg.fr/webservices/annotate3d?data="
+ content);
- BufferedReader is = new BufferedReader(new InputStreamReader(
- url.openStream()));
+ BufferedReader is = new BufferedReader(
+ new InputStreamReader(url.openStream()));
String str4;
while ((str4 = is.readLine()) != null)
{