Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
SequenceAnnotationServiceI	13	0	0	-1.0 -	Show methods

Class SequenceAnnotationServiceI

Class SequenceAnnotationServiceI	Line # 13	Total Statements 0	Complexity 0	TOTAL Coverage -1.0 -

 

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1		package jalview.ws.api;
2
3		import jalview.api.FeatureColourI;
4		import jalview.datamodel.AlignmentAnnotation;
5		import jalview.datamodel.SequenceI;
6		import jalview.datamodel.features.FeatureMatcherSetI;
7		import jalview.ws.params.ArgumentI;
8		import jalview.ws.params.WsParamSetI;
9
10		import java.util.List;
11		import java.util.Map;
12
		- Uncovered Elements: 0 (0) Complexity: 0 Complexity Density: -
13		public interface SequenceAnnotationServiceI extends JalviewWebServiceI
14		{
15
16
17		/**
18		* submit sequences to service with no parameters, or preset or parameter set.
19		* Nb- almost the same as the 'align' method in the Msa service :)
20		*
21		* @param seqs
22		* @param preset
23		* @param paramset
24		* @return
25		* @throws Throwable
26		*/
27		JobId submitToService(List<SequenceI> seqs, WsParamSetI preset,
28		List<ArgumentI> paramset) throws Throwable;
29
30		/**
31		* materialise annotation and features for sequences input to the service
32		*
33		* @param job
34		* @param seqs
35		* - features and alignment annotation added to these will be
36		* imported to the dataset for the alignment
37		* @param featureColours
38		* - container for feature colours - any defined will be merged with
39		* viewport
40		* @param featureFilters
41		* - container for filters - any defined will be merged with viewport
42		* @return sequence and alignment annotation rows that should be made
43		* visible/updated on alignment
44		* @throws Throwable
45		*/
46		List<AlignmentAnnotation> getAnnotationResult(JobId job,
47		List<SequenceI> seqs, Map<String, FeatureColourI> featureColours,
48		Map<String, FeatureMatcherSetI> featureFilters) throws Throwable;
49
50
51		}