import jalview.datamodel.Alignment;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.Alignment;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.AlignmentI;
+ "Job. <br>Problematic url was <a href=\""
+ request.getURI() + "\">" + request.getURI()
+ "</a><br>See Console output for details.";
+ "Job. <br>Problematic url was <a href=\""
+ request.getURI() + "\">" + request.getURI()
+ "</a><br>See Console output for details.";
default:
// Some other response. Probably need to pop up the content in a window.
// TODO: deal with all other HTTP response codes from server.
default:
// Some other response. Probably need to pop up the content in a window.
// TODO: deal with all other HTTP response codes from server.
boolean vsepjobs = restClient.service.isVseparable();
// total number of distinct alignment sets generated by job set.
int numAlSets = 0, als = 0;
boolean vsepjobs = restClient.service.isVseparable();
// total number of distinct alignment sets generated by job set.
int numAlSets = 0, als = 0;
- List<AlignmentI> destAls = new ArrayList<>();
- List<jalview.datamodel.HiddenColumns> destColsel = new ArrayList<>();
- List<List<NewickFile>> trees = new ArrayList<>();
+ List<AlignmentI> destAls = new ArrayList<AlignmentI>();
+ List<jalview.datamodel.HiddenColumns> destColsel = new ArrayList<jalview.datamodel.HiddenColumns>();
+ List<List<NewickFile>> trees = new ArrayList<List<NewickFile>>();
- ArrayList<SequenceGroup> visgrps = new ArrayList<>();
- Hashtable<String, SequenceGroup> groupNames = new Hashtable<>();
+ ArrayList<SequenceGroup> visgrps = new ArrayList<SequenceGroup>();
+ Hashtable<String, SequenceGroup> groupNames = new Hashtable<String, SequenceGroup>();
"dealing with multiple alignment products returned by non-vertically separable service.");
}
// recover reference to last alignment created for this rest frame
"dealing with multiple alignment products returned by non-vertically separable service.");
}
// recover reference to last alignment created for this rest frame
{
// TODO: process each newick file, lifting over sequence refs to
// current alignment, if necessary.
{
// TODO: process each newick file, lifting over sequence refs to
// current alignment, if necessary.