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()