X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=website%2Fdm_javadoc%2Findex-files%2Findex-16.html;h=e5349174481c7e8b5a66a88fbe899ead9ef4800f;hb=bc3346bd7c1c518fad867d4c60a53779e7516588;hp=e58d39443aa881388abec3f06a203a28d627802d;hpb=02ace2e4cf6d29a70be3dd799f84e3f14333cdbb;p=jabaws.git diff --git a/website/dm_javadoc/index-files/index-16.html b/website/dm_javadoc/index-files/index-16.html index e58d394..e534917 100644 --- a/website/dm_javadoc/index-files/index-16.html +++ b/website/dm_javadoc/index-files/index-16.html @@ -2,12 +2,12 @@ - + S-Index - + @@ -82,7 +82,45 @@ function windowTitle()

S

-
SequenceUtil - Class in compbio.data.sequence
Utility class for operations on sequences
Services - Enum in compbio.ws.client
List of web services currently supported by JABAWS version 1
setDefaultValue(String) - +
Score - Class in compbio.data.sequence
A value class for AACon annotation results storage.
Score(Enum<?>, ArrayList<Float>) - +Constructor for class compbio.data.sequence.Score +
Instantiate the Score +
Score(Enum<?>, ArrayList<Float>, TreeSet<Range>) - +Constructor for class compbio.data.sequence.Score +
  +
Score(Enum<?>, TreeSet<Range>) - +Constructor for class compbio.data.sequence.Score +
  +
Score(Enum<?>, float[]) - +Constructor for class compbio.data.sequence.Score +
  +
ScoreManager - Class in compbio.data.sequence
 
ScoreManager.ScoreHolder - Class in compbio.data.sequence
 
scores - +Variable in class compbio.data.sequence.ScoreManager.ScoreHolder +
  +
SequenceAnnotation<T> - Interface in compbio.data.msa
Interface for tools that results to one or more annotation to sequence(s) + + Single, multiple sequences their groups or alignments can be annotated
SequenceUtil - Class in compbio.data.sequence
Utility class for operations on sequences
SERVICE_NAMESPACE - +Static variable in interface compbio.data.msa.JABAService +
  +
Services - Enum in compbio.ws.client
List of web services currently supported by JABAWS version 2
ServicesUtil - Class in compbio.ws.client
 
ServicesUtil() - +Constructor for class compbio.ws.client.ServicesUtil +
  +
setActualNumberofSequences(int) - +Method in class compbio.data.msa.jaxws.LimitExceededExceptionBean +
  +
setArg0(Services) - +Method in class compbio.data.msa.jaxws.GetLastTested +
  +
setArg0(Services) - +Method in class compbio.data.msa.jaxws.GetLastTestedOn +
  +
setArg0(Services) - +Method in class compbio.data.msa.jaxws.IsOperating +
  +
setArg0(Services) - +Method in class compbio.data.msa.jaxws.TestService +
  +
setDefaultValue(String) - Method in class compbio.metadata.Option
Sets one of the values defined in optionList as default.
setDefaultValue(String) - @@ -94,12 +132,60 @@ Method in class compbio.metadata.setDescription(String) - Method in class compbio.metadata.Preset
  +
setFastaSequences(List<FastaSequence>) - +Method in class compbio.data.msa.jaxws.Align +
  +
setFastaSequences(List<FastaSequence>) - +Method in class compbio.data.msa.jaxws.Analize +
  +
setFastaSequences(List<FastaSequence>) - +Method in class compbio.data.msa.jaxws.CustomAlign +
  +
setFastaSequences(List<FastaSequence>) - +Method in class compbio.data.msa.jaxws.CustomAnalize +
  +
setFastaSequences(List<FastaSequence>) - +Method in class compbio.data.msa.jaxws.PresetAlign +
  +
setFastaSequences(List<FastaSequence>) - +Method in class compbio.data.msa.jaxws.PresetAnalize +
 
setFurtherDetails(URL) - Method in class compbio.metadata.Option
  +
setJobId(String) - +Method in class compbio.data.msa.jaxws.CancelJob +
  +
setJobId(String) - +Method in class compbio.data.msa.jaxws.GetAnnotation +
  +
setJobId(String) - +Method in class compbio.data.msa.jaxws.GetJobStatus +
  +
setJobId(String) - +Method in class compbio.data.msa.jaxws.GetResult +
  +
setJobId(String) - +Method in class compbio.data.msa.jaxws.PullExecStatistics +
 
setMax(String) - Method in class compbio.metadata.ValueConstrain
  +
setMessage(String) - +Method in class compbio.data.msa.jaxws.JobSubmissionExceptionBean +
  +
setMessage(String) - +Method in class compbio.data.msa.jaxws.LimitExceededExceptionBean +
  +
setMessage(String) - +Method in class compbio.data.msa.jaxws.ResultNotAvailableExceptionBean +
  +
setMessage(String) - +Method in class compbio.data.msa.jaxws.UnsupportedRuntimeExceptionBean +
  +
setMessage(String) - +Method in class compbio.data.msa.jaxws.WrongParameterExceptionBean +
 
setMin(String) - Method in class compbio.metadata.ValueConstrain
  @@ -109,6 +195,9 @@ Method in class compbio.metadata.setName(String) - Method in class compbio.metadata.Preset
  +
setNumberOfSequencesAllowed(int) - +Method in class compbio.data.msa.jaxws.LimitExceededExceptionBean +
 
setOptionName(String) - Method in class compbio.metadata.Parameter
  @@ -118,6 +207,12 @@ Method in class compbio.metadata.setOptionNames(Set<String>) - Method in class compbio.metadata.Parameter
  +
setOptions(List<Option>) - +Method in class compbio.data.msa.jaxws.CustomAlign +
  +
setOptions(List<Option>) - +Method in class compbio.data.msa.jaxws.CustomAnalize +
 
setOptions(List<String>) - Method in class compbio.metadata.Preset
  @@ -127,24 +222,108 @@ Method in class compbio.metadata.setParameters(List<Parameter<T>>) - Method in class compbio.metadata.RunnerConfig
Sets the list of parameters as internal list +
setPosition(long) - +Method in class compbio.data.msa.jaxws.PullExecStatistics +
 
setPossibleValues(Set<String>) - Method in class compbio.metadata.Parameter
  +
setPreset(Preset) - +Method in class compbio.data.msa.jaxws.PresetAlign +
  +
setPreset(Preset) - +Method in class compbio.data.msa.jaxws.PresetAnalize +
  +
setPresetName(String) - +Method in class compbio.data.msa.jaxws.GetLimit +
 
setPresets(List<Preset<T>>) - Method in class compbio.metadata.PresetManager
 
setPrmSeparator(String) - Method in class compbio.metadata.RunnerConfig
Sets name value separator character +
setRanges(TreeSet<Range>) - +Method in class compbio.data.sequence.Score +
 
setRequired(boolean) - Method in class compbio.metadata.Option
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.AlignResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.AnalizeResponse +
  +
setReturn(boolean) - +Method in class compbio.data.msa.jaxws.CancelJobResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.CustomAlignResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.CustomAnalizeResponse +
  +
setReturn(ScoreManager) - +Method in class compbio.data.msa.jaxws.GetAnnotationResponse +
  +
setReturn(JobStatus) - +Method in class compbio.data.msa.jaxws.GetJobStatusResponse +
  +
setReturn(Date) - +Method in class compbio.data.msa.jaxws.GetLastTestedOnResponse +
  +
setReturn(int) - +Method in class compbio.data.msa.jaxws.GetLastTestedResponse +
  +
setReturn(Limit) - +Method in class compbio.data.msa.jaxws.GetLimitResponse +
  +
setReturn(LimitsManager) - +Method in class compbio.data.msa.jaxws.GetLimitsResponse +
  +
setReturn(PresetManager) - +Method in class compbio.data.msa.jaxws.GetPresetsResponse +
  +
setReturn(Alignment) - +Method in class compbio.data.msa.jaxws.GetResultResponse +
  +
setReturn(RunnerConfig) - +Method in class compbio.data.msa.jaxws.GetRunnerOptionsResponse +
  +
setReturn(Set<Services>) - +Method in class compbio.data.msa.jaxws.GetSupportedServicesResponse +
  +
setReturn(boolean) - +Method in class compbio.data.msa.jaxws.IsOperatingResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.PresetAlignResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.PresetAnalizeResponse +
  +
setReturn(ChunkHolder) - +Method in class compbio.data.msa.jaxws.PullExecStatisticsResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.TestAllServicesResponse +
  +
setReturn(String) - +Method in class compbio.data.msa.jaxws.TestServiceResponse +
 
setRunnerClassName(String) - Method in class compbio.metadata.PresetManager
 
setRunnerClassName(String) - Method in class compbio.metadata.RunnerConfig
Set the name of a runner class +
setSequenceLenghtActual(int) - +Method in class compbio.data.msa.jaxws.LimitExceededExceptionBean +
  +
setSequenceLenghtAllowed(int) - +Method in class compbio.data.msa.jaxws.LimitExceededExceptionBean +
 
setType(ValueConstrain.Type) - Method in class compbio.metadata.ValueConstrain
  @@ -157,7 +336,10 @@ Method in interface compbio.metadata.setValue(String) - Method in class compbio.metadata.Option
  -
+
SINGLE_ENTRY_KEY - +Static variable in class compbio.data.sequence.ScoreManager +
  +
SMERFSConstraints - Enum in compbio.data.sequence
Enumeration defining two constraints for SMERFS columns score calculation.