Uses of Class
compbio.metadata.JobSubmissionException

Packages that use JobSubmissionException

compbio.data.msa
compbio.engine
compbio.engine.client	Classes and interfaces representing an input for engines.
compbio.engine.cluster.drmaa	An cluster engine classes responsible for execution of Executables on the clusters.
compbio.engine.local	An local engine classes responsible for execution of Executables on the local computer (the same machine as JVM running these classes).
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.ws.server

Uses of JobSubmissionException in compbio.data.msa

Methods in compbio.data.msa that throw JobSubmissionException

java.lang.String	MsaWS.align(java.util.List<FastaSequence> sequences) Align a list of sequences with default settings.
java.lang.String	MsaWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<T>> options) Align a list of sequences with options.
java.lang.String	MsaWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<T> preset) Align a list of sequences with preset.

Uses of JobSubmissionException in compbio.engine

Methods in compbio.engine that throw JobSubmissionException

static <T> ConfiguredExecutable<T>	Configurator.configureExecutable(Executable<T> executable)
static <T> ConfiguredExecutable<T>	Configurator.configureExecutable(Executable<T> executable, Executable.ExecProvider provider)
static <T> ConfiguredExecutable<T>	Configurator.configureExecutable(Executable<T> executable, java.util.List<FastaSequence> dataSet)
void	SyncExecutor.executeJob() Execute the job
static SyncExecutor	Configurator.getSyncEngine(ConfiguredExecutable<?> executable)
static SyncExecutor	Configurator.getSyncEngine(ConfiguredExecutable<?> executable, Executable.ExecProvider provider)
java.lang.String	AsyncExecutor.submitJob(ConfiguredExecutable<?> executable) Submits job for the execution Immediate execution is not guaranteed, this method puts the job in the queue.

Uses of JobSubmissionException in compbio.engine.client

Methods in compbio.engine.client that throw JobSubmissionException

java.lang.String

ConfiguredExecutable.getCommand(Executable.ExecProvider provider)

Uses of JobSubmissionException in compbio.engine.cluster.drmaa

Methods in compbio.engine.cluster.drmaa that throw JobSubmissionException

void	JobRunner.executeJob()
static JobRunner	JobRunner.getInstance(ConfiguredExecutable<?> executable)
java.lang.String	AsyncJobRunner.submitJob(ConfiguredExecutable<?> executable)

Constructors in compbio.engine.cluster.drmaa that throw JobSubmissionException

JobRunner(ConfiguredExecutable<?> confExec)

Uses of JobSubmissionException in compbio.engine.local

Methods in compbio.engine.local that throw JobSubmissionException

void	LocalRunner.executeJob()
java.lang.String	AsyncLocalRunner.submitJob(ConfiguredExecutable<?> executable)

Constructors in compbio.engine.local that throw JobSubmissionException

ExecutableWrapper(ConfiguredExecutable<?> executable, java.lang.String workDirectory)

Uses of JobSubmissionException in compbio.metadata

Subclasses of JobSubmissionException in compbio.metadata

class	LimitExceededException Thrown if the task larger in size that the limit that applies to the calculation.
class	UnsupportedRuntimeException Indicates that the server could not execute native executables.

Uses of JobSubmissionException in compbio.ws.server

Methods in compbio.ws.server that throw JobSubmissionException

java.lang.String	TcoffeeWS.align(java.util.List<FastaSequence> sequences)
java.lang.String	ProbconsWS.align(java.util.List<FastaSequence> sequences)
java.lang.String	MuscleWS.align(java.util.List<FastaSequence> sequences)
java.lang.String	MafftWS.align(java.util.List<FastaSequence> sequences)
java.lang.String	ClustalWS.align(java.util.List<FastaSequence> sequences)
static <T> java.lang.String	WSUtil.align(java.util.List<FastaSequence> sequences, ConfiguredExecutable<T> confExec, org.apache.log4j.Logger statLog, javax.xml.ws.WebServiceContext wsContext, java.lang.String callingMethod, Limit<T> limit)
java.lang.String	ClustalWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<ClustalW>> options)
java.lang.String	MafftWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<Mafft>> options)
java.lang.String	MuscleWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<Muscle>> options)
java.lang.String	ProbconsWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<Probcons>> options)
java.lang.String	TcoffeeWS.customAlign(java.util.List<FastaSequence> sequences, java.util.List<Option<Tcoffee>> options)
java.lang.String	ClustalWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<ClustalW> preset)
java.lang.String	MafftWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<Mafft> preset)
java.lang.String	MuscleWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<Muscle> preset)
java.lang.String	ProbconsWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<Probcons> preset)
java.lang.String	TcoffeeWS.presetAlign(java.util.List<FastaSequence> sequences, Preset<Tcoffee> preset)