compbio.ws.server

Class SequenceAnnotationService<T>

java.lang.Object

compbio.ws.server.GenericMetadataService

compbio.ws.server.SequenceAnnotationService<T>

Type Parameters:

T -

Direct Known Subclasses:

AAConWS, DisemblWS, GlobPlotWS, IUPredWS, JronnWS, RNAalifoldWS

public abstract class SequenceAnnotationService<T>
extends GenericMetadataService

Common methods for all SequenceAnnotation web services

Since:

2.0

Version:

1.0 June 2011

Author:

pvtroshin

Field Summary

Fields inherited from class compbio.ws.server.GenericMetadataService

log

Constructor Summary

Constructors

Constructor and Description
SequenceAnnotationService(SkeletalExecutable<T> exec, org.apache.log4j.Logger log)

Method Summary

Modifier and Type	Method and Description
java.lang.String	analize(java.util.List<FastaSequence> sequences)
java.lang.String	customAnalize(java.util.List<FastaSequence> sequences, java.util.List<Option<T>> options)
ScoreManager	getAnnotation(java.lang.String jobId)
java.lang.String	presetAnalize(java.util.List<FastaSequence> sequences, Preset<T> preset)

Methods inherited from class compbio.ws.server.GenericMetadataService

cancelJob, getJobStatus, getLimit, getLimits, getPresets, getRunnerOptions, init, pullExecStatistics

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SequenceAnnotationService

SequenceAnnotationService(SkeletalExecutable<T> exec,
                          org.apache.log4j.Logger log)

Method Detail

getAnnotation

public ScoreManager getAnnotation(java.lang.String jobId)
                           throws ResultNotAvailableException

Throws:

ResultNotAvailableException

analize

public java.lang.String analize(java.util.List<FastaSequence> sequences)
                         throws UnsupportedRuntimeException,
                                LimitExceededException,
                                JobSubmissionException

Throws:

UnsupportedRuntimeException

LimitExceededException

JobSubmissionException

customAnalize

public java.lang.String customAnalize(java.util.List<FastaSequence> sequences,
                                      java.util.List<Option<T>> options)
                               throws UnsupportedRuntimeException,
                                      LimitExceededException,
                                      JobSubmissionException,
                                      WrongParameterException

Throws:

UnsupportedRuntimeException

LimitExceededException

JobSubmissionException

WrongParameterException

presetAnalize

public java.lang.String presetAnalize(java.util.List<FastaSequence> sequences,
                                      Preset<T> preset)
                               throws UnsupportedRuntimeException,
                                      LimitExceededException,
                                      JobSubmissionException,
                                      WrongParameterException

Throws:

UnsupportedRuntimeException

LimitExceededException

JobSubmissionException

WrongParameterException