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+ + + +
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+ +compbio.ws.server +
+Class _MsaService<T>

+
+java.lang.Object
+  extended by compbio.ws.server.GenericMetadataService
+      extended by compbio.ws.server._MsaService<T>
+
+
+
Type Parameters:
T -
+
+
+
public abstract class _MsaService<T>
extends GenericMetadataService
+ + +

+TODO to complete after the approach is tested with SequenceAnnotation! + + Common methods for all SequenceAnnotation web services +

+ +

+

+
Since:
+
2.0
+
Version:
+
1.0 June 2011
+
Author:
+
pvtroshin
+
+
+ +

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+Method Summary
+ Stringalign(List<FastaSequence> sequences) + +
+           
+ StringcustomAlign(List<FastaSequence> sequences, + List<Option<T>> options) + +
+           
+ AlignmentgetResult(String jobId) + +
+           
+ StringpresetAlign(List<FastaSequence> sequences, + Preset<T> preset) + +
+           
+ ChunkHolderpullExecStatistics(String jobId, + long position) + +
+          Assume statistics is not supported
+  + + + + + + + +
Methods inherited from class compbio.ws.server.GenericMetadataService
cancelJob, getJobStatus, getLimit, getLimits, getPresets, getRunnerOptions
+  + + + + + + + +
Methods inherited from class java.lang.Object
equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
+  +

+ + + + + + + + +
+Method Detail
+ +

+align

+
+public String align(List<FastaSequence> sequences)
+             throws JobSubmissionException
+
+
+ +
Throws: +
JobSubmissionException
+
+
+
+ +

+presetAlign

+
+public String presetAlign(List<FastaSequence> sequences,
+                          Preset<T> preset)
+                   throws JobSubmissionException,
+                          WrongParameterException
+
+
+ +
Throws: +
JobSubmissionException +
WrongParameterException
+
+
+
+ +

+customAlign

+
+public String customAlign(List<FastaSequence> sequences,
+                          List<Option<T>> options)
+                   throws JobSubmissionException,
+                          WrongParameterException
+
+
+ +
Throws: +
JobSubmissionException +
WrongParameterException
+
+
+
+ +

+getResult

+
+public Alignment getResult(String jobId)
+                    throws ResultNotAvailableException
+
+
+ +
Throws: +
ResultNotAvailableException
+
+
+
+ +

+pullExecStatistics

+
+public ChunkHolder pullExecStatistics(String jobId,
+                                      long position)
+
+
Description copied from class: GenericMetadataService
+
Assume statistics is not supported +

+

+
Overrides:
pullExecStatistics in class GenericMetadataService
+
+
+ +
Returns:
ChunkHolder
+
+
+ +
+ + + + + + + + + + + + + + + + + + + +
+ + + + + + + + + + + + +
Overview  Package   Class  Use  Tree  Deprecated  Index  Help 
+		 + +
+ PREV CLASS  + NEXT CLASS + FRAMES   + NO FRAMES   +  + + + +
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+ + + +
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