Uses of Class
compbio.metadata.RunnerConfig

Packages that use RunnerConfig
compbio.data.msa   
compbio.data.msa.jaxws   
compbio.engine.client Classes and interfaces representing an input for engines. 
compbio.metadata A meta-data model for multiple sequence alignment web services Classes in this package have no dependencies to other sources in the project. 
compbio.runner Utilities commonly used by all runners. 
compbio.ws.server   
 

Uses of RunnerConfig in compbio.data.msa
 

Methods in compbio.data.msa that return RunnerConfig
 RunnerConfig<T> MsaWS.getRunnerOptions()
          Get options supported by a web service
 

Uses of RunnerConfig in compbio.data.msa.jaxws
 

Methods in compbio.data.msa.jaxws that return RunnerConfig
 RunnerConfig GetRunnerOptionsResponse.getReturn()
           
 

Methods in compbio.data.msa.jaxws with parameters of type RunnerConfig
 void GetRunnerOptionsResponse.setReturn(RunnerConfig _return)
           
 

Uses of RunnerConfig in compbio.engine.client
 

Methods in compbio.engine.client that return RunnerConfig
static
<V> RunnerConfig<V>
ConfExecutable.getRunnerOptions(java.lang.Class<? extends Executable<V>> clazz)
           
 

Uses of RunnerConfig in compbio.metadata
 

Methods in compbio.metadata that return RunnerConfig
 RunnerConfig<T> RunnerConfig.copyAndValidateRConfig(RunnerConfig<?> runnerConf)
           
 

Methods in compbio.metadata with parameters of type RunnerConfig
 RunnerConfig<T> RunnerConfig.copyAndValidateRConfig(RunnerConfig<?> runnerConf)
           
 java.util.List<Option<T>> Preset.getArguments(RunnerConfig<T> rconfig)
          Converts list of options as String to type Option
 void PresetManager.validate(RunnerConfig<T> options)
          Checks whether preset option and parameter are defined in RunnerConfig object.
 

Uses of RunnerConfig in compbio.runner
 

Methods in compbio.runner that return RunnerConfig
static
<T> RunnerConfig<T>
Util.getSupportedOptions(java.lang.Class<? extends Executable<T>> clazz)
           
 

Methods in compbio.runner with parameters of type RunnerConfig
static java.util.List<java.lang.String> OptionCombinator.argumentsToCommandString(java.util.List<? extends Option<?>> arguments, RunnerConfig<? extends Executable<?>> rconfig)
           
 

Constructors in compbio.runner with parameters of type RunnerConfig
OptionCombinator(RunnerConfig<? extends Executable<?>> rconfig)
           
 

Uses of RunnerConfig in compbio.ws.server
 

Methods in compbio.ws.server that return RunnerConfig
 RunnerConfig<Tcoffee> TcoffeeWS.getRunnerOptions()
           
 RunnerConfig<Probcons> ProbconsWS.getRunnerOptions()
           
 RunnerConfig<Muscle> MuscleWS.getRunnerOptions()
           
 RunnerConfig<Mafft> MafftWS.getRunnerOptions()
           
 RunnerConfig<ClustalW> ClustalWS.getRunnerOptions()