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+ + + +A B C D E F G H I J K L M N O P R S T U V W _

+W

waitForFile(long) - +Method in class compbio.engine.FilePuller +: +
waitForJob(String) - +Method in class compbio.engine.cluster.drmaa.ClusterSession +: +
waitForJob(String, long) - +Method in class compbio.engine.cluster.drmaa.ClusterSession +: +
waitForResult(ClusterSession, String) - +Static method in class compbio.engine.cluster.drmaa.ClusterUtil +: +
waitForResult() - +Method in class compbio.engine.cluster.drmaa.JobRunner +: +
waitForResult() - +Method in class compbio.engine.local.LocalRunner +: +
waitForResult() - +Method in interface compbio.engine.SyncExecutor +: Call to this method block for as long as it is required for an executable to finish its job. +
wasAborted() - +Method in class compbio.engine.cluster.drmaa.StatisticManager +: +
WHITE_SPACE - +Static variable in class compbio.data.sequence.SequenceUtil +: A whitespace character: [\t\n\x0B\f\r] +
write(TreeSet<Score>, Writer) - +Static method in class compbio.data.sequence.Score +: Outputs the List of Score objects into the Output stream. +
write(RunConfiguration) - +Static method in class compbio.engine.client.RunConfiguration +: +
write(Object, OutputStream) - +Method in class compbio.engine.conf.RunnerConfigMarshaller +: +
writeAndValidate(Object, String, OutputStream) - +Method in class compbio.engine.conf.RunnerConfigMarshaller +: +
writeClustalAlignment(Writer, Alignment) - +Static method in class compbio.data.sequence.ClustalAlignmentUtil +: Write Clustal formatted alignment Limitations: does not record the + consensus. +
writeFasta(OutputStream, List<FastaSequence>, int) - +Static method in class compbio.data.sequence.SequenceUtil +: Writes list of FastaSequeces into the outstream formatting the sequence + so that it contains width chars on each line +
writeFasta(OutputStream, List<FastaSequence>) - +Static method in class compbio.data.sequence.SequenceUtil +: Writes FastaSequence in the file, each sequence will take one line only +
writeFastaKeepTheStream(OutputStream, List<FastaSequence>, int) - +Static method in class compbio.data.sequence.SequenceUtil +: +
writeFile(String, String, String, boolean) - +Static method in class compbio.engine.client.Util +: +
writeInput(List<FastaSequence>, ConfiguredExecutable<?>) - +Static method in class compbio.runner.Util +: +
writeMarker(String, JobStatus) - +Static method in class compbio.engine.client.Util +: +
writeOut(Writer) - +Method in class compbio.data.sequence.ScoreManager.ScoreHolder +: +
writeOut(Writer) - +Method in class compbio.data.sequence.ScoreManager +: +
writeStatFile(String, String) - +Static method in class compbio.engine.client.Util +: +
WrongParameterException - Exception in compbio.metadata: WrongParameterException is thrown wherever the RunnerConfig object + does not match the actual runnable or then attempting to set the value of + Argument to invalid value.
WrongParameterException(Option<?>) - +Constructor for exception compbio.metadata.WrongParameterException +: +
WrongParameterException(String) - +Constructor for exception compbio.metadata.WrongParameterException +: +
WrongParameterException(Throwable) - +Constructor for exception compbio.metadata.WrongParameterException +: +
WrongParameterException(String, Throwable) - +Constructor for exception compbio.metadata.WrongParameterException +: +
WrongParameterExceptionBean - Class in compbio.data.msa.jaxws: This class was generated by the JAX-WS RI.
WrongParameterExceptionBean() - +Constructor for class compbio.data.msa.jaxws.WrongParameterExceptionBean +: +
WSTester - Class in compbio.ws.client: Class for testing web services
WSTester(String, PrintWriter) - +Constructor for class compbio.ws.client.WSTester +: Construct an instance of JABAWS tester +
WSUtil - Class in compbio.ws.server
WSUtil() - +Constructor for class compbio.ws.server.WSUtil +: +