*/
package jalview.ws.jws1;
+import java.util.Locale;
+
import jalview.datamodel.AlignmentI;
import jalview.datamodel.AlignmentView;
import jalview.gui.AlignFrame;
alignFrame = _alignFrame;
if (!sh.getAbstractName().equals("MsaWS"))
{
- JvOptionPane.showMessageDialog(Desktop.desktop, MessageManager
- .formatMessage("label.service_called_is_not_msa_service",
- new String[] { sh.getName() }), MessageManager
- .getString("label.internal_jalview_error"),
+ JvOptionPane.showMessageDialog(Desktop.desktop,
+ MessageManager.formatMessage(
+ "label.service_called_is_not_msa_service",
+ new String[]
+ { sh.getName() }),
+ MessageManager.getString("label.internal_jalview_error"),
JvOptionPane.WARNING_MESSAGE);
return;
if ((wsInfo = setWebService(sh)) == null)
{
JvOptionPane.showMessageDialog(Desktop.desktop, MessageManager
- .formatMessage("label.msa_service_is_unknown",
- new String[] { sh.getName() }), MessageManager
- .getString("label.internal_jalview_error"),
+ .formatMessage("label.msa_service_is_unknown", new String[]
+ { sh.getName() }),
+ MessageManager.getString("label.internal_jalview_error"),
JvOptionPane.WARNING_MESSAGE);
return;
wsInfo.setProgressText(((submitGaps) ? "Re-alignment" : "Alignment")
+ " of " + altitle + "\nJob details\n");
- String jobtitle = WebServiceName.toLowerCase();
+ String jobtitle = WebServiceName.toLowerCase(Locale.ROOT);
if (jobtitle.endsWith("alignment"))
{
- if (submitGaps
- && (!jobtitle.endsWith("realignment") || jobtitle
- .indexOf("profile") == -1))
+ if (submitGaps && (!jobtitle.endsWith("realignment")
+ || jobtitle.indexOf("profile") == -1))
{
int pos = jobtitle.indexOf("alignment");
jobtitle = WebServiceName.substring(0, pos) + "re-alignment of "
public void actionPerformed(ActionEvent e)
{
AlignmentView msa = alignFrame.gatherSequencesForAlignment();
- new jalview.ws.jws1.MsaWSClient(serviceHandle, alignFrame
- .getTitle(), msa, false, true, alignFrame.getViewport()
- .getAlignment().getDataset(), alignFrame);
+ new jalview.ws.jws1.MsaWSClient(serviceHandle,
+ alignFrame.getTitle(), msa, false, true,
+ alignFrame.getViewport().getAlignment().getDataset(),
+ alignFrame);
}
if (canSubmitGaps())
{
// We know that ClustalWS can accept partial alignments for refinement.
- final JMenuItem methodR = new JMenuItem(serviceHandle.getName()
- + " Realign");
+ final JMenuItem methodR = new JMenuItem(
+ serviceHandle.getName() + " Realign");
methodR.setToolTipText(WsURL);
methodR.addActionListener(new ActionListener()
{
public void actionPerformed(ActionEvent e)
{
AlignmentView msa = alignFrame.gatherSequencesForAlignment();
- new jalview.ws.jws1.MsaWSClient(serviceHandle, alignFrame
- .getTitle(), msa, true, true, alignFrame.getViewport()
- .getAlignment().getDataset(), alignFrame);
+ new jalview.ws.jws1.MsaWSClient(serviceHandle,
+ alignFrame.getTitle(), msa, true, true,
+ alignFrame.getViewport().getAlignment().getDataset(),
+ alignFrame);
}