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

I

id - Variable in class compbio.data.sequence.ScoreManager.ScoreHolder

initPull() - Method in class compbio.engine.FilePuller

INPUT - Static variable in class compbio.engine.client.SkeletalExecutable

IOHelper - Class in compbio.ws.client

IOHelper() - Constructor for class compbio.ws.client.IOHelper

IS_CLUSTER_ENGINE_ENABLED - Static variable in class compbio.engine.Configurator

IS_LOCAL_ENGINE_ENABLED - Static variable in class compbio.engine.Configurator

isAbsolutePath(String) - Static method in class compbio.engine.client.PathValidator

Whether a certain path is absolute or not is operation system dependent!

isAmbiguosProtein(String) - Static method in class compbio.data.sequence.SequenceUtil

Check whether the sequence confirms to amboguous protein sequence

isClusterJob() - Method in class compbio.stat.collector.JobStat

isDefault() - Method in class compbio.metadata.Limit

isExceeded(List<FastaSequence>) - Method in class compbio.metadata.Limit

Checks if the number of sequences or their average length in the dataset exceeds this limit.

isFileCreated() - Method in class compbio.engine.FilePuller

isJavaLibrary(Class<?>) - Static method in class compbio.engine.client.Util

Returns true of executableName.jar.file property has some value in the Executable.properties file, false otherwise.

isMarked(String, JobStatus) - Static method in class compbio.engine.client.Util

isNonAmbNucleotideSequence(String) - Static method in class compbio.data.sequence.SequenceUtil

Ambiguous DNA chars : AGTCRYMKSWHBVDN // differs from protein in only one (!) - B char

isNucleotideSequence(FastaSequence) - Static method in class compbio.data.sequence.SequenceUtil

IsOperating - Class in compbio.data.msa.jaxws

IsOperating() - Constructor for class compbio.data.msa.jaxws.IsOperating

isOperating(Services) - Method in interface compbio.data.msa.RegistryWS

Check whether a particular web service is working on this server

isOperating(Services) - Method in class compbio.ws.server.RegistryWS

IsOperatingResponse - Class in compbio.data.msa.jaxws

IsOperatingResponse() - Constructor for class compbio.data.msa.jaxws.IsOperatingResponse

isProteinSequence(String) - Static method in class compbio.data.sequence.SequenceUtil

isRequired() - Method in class compbio.metadata.Option

Flag that indicated that this option must be specified in the command line for an executable to run

isReturn() - Method in class compbio.data.msa.jaxws.CancelJobResponse

isReturn() - Method in class compbio.data.msa.jaxws.IsOperatingResponse

isValidClustalFile(InputStream) - Static method in class compbio.data.sequence.ClustalAlignmentUtil

Please note this method closes the input stream provided as a parameter

isValidDirectory(String) - Static method in class compbio.engine.client.PathValidator

isValidExecutable(String) - Static method in class compbio.engine.client.PathValidator

isValidJobId(String) - Static method in class compbio.engine.client.Util

IUPred - Class in compbio.runner.disorder

iupred sequenceFile Maximum sequence length is 40000 chars.

IUPred() - Constructor for class compbio.runner.disorder.IUPred

IUPredWS - Class in compbio.ws.server

IUPredWS() - Constructor for class compbio.ws.server.IUPredWS