import org.forester.io.parsers.PhylogenyParser;
import org.forester.io.parsers.nexus.NexusPhylogeniesParser;
import org.forester.io.parsers.nhx.NHXParser;
+import org.forester.io.parsers.phyloxml.PhyloXmlDataFormatException;
import org.forester.io.parsers.phyloxml.PhyloXmlParser;
import org.forester.io.parsers.tol.TolParser;
import org.forester.phylogeny.Phylogeny;
PhylogenyMethods.transferInternalNodeNamesToConfidence( phylogeny );
}
if ( client.getProcessingInstructions() != null ) {
- WebserviceUtil.processInstructions( client, phylogeny );
+ try {
+ WebserviceUtil.processInstructions( client, phylogeny );
+ }
+ catch ( final PhyloXmlDataFormatException e ) {
+ JOptionPane.showMessageDialog( _main_frame,
+ "Error:\n" + e.getLocalizedMessage(),
+ "Error",
+ JOptionPane.ERROR_MESSAGE );
+ }
}
if ( client.getNodeField() != null ) {
- PhylogenyMethods.transferNodeNameToField( phylogeny, client.getNodeField() );
+ try {
+ PhylogenyMethods.transferNodeNameToField( phylogeny, client.getNodeField(), false );
+ }
+ catch ( final PhyloXmlDataFormatException e ) {
+ JOptionPane.showMessageDialog( _main_frame,
+ "Error:\n" + e.getLocalizedMessage(),
+ "Error",
+ JOptionPane.ERROR_MESSAGE );
+ }
}
phylogeny.setIdentifier( new Identifier( identifier, client.getName() ) );
_main_frame.getJMenuBar().remove( _main_frame.getHelpMenu() );
my_name_for_file = new String( sb.toString().replaceAll( " ", "_" ) );
}
_main_frame.getMainPanel().getCurrentTreePanel().setTreeFile( new File( my_name_for_file ) );
- Util.lookAtSomeTreePropertiesForAptxControlSettings( phylogeny, _main_frame.getMainPanel()
+ AptxUtil.lookAtSomeTreePropertiesForAptxControlSettings( phylogeny, _main_frame.getMainPanel()
.getControlPanel(), _main_frame.getConfiguration() );
_main_frame.getMainPanel().getControlPanel().showWhole();
}