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

M

Mafft - Class in compbio.runner.msa

Mafft() - Constructor for class compbio.runner.msa.Mafft

mafft_binaries - Static variable in class compbio.engine.client.EnvVariableProcessor

MAFFT_INFO - Static variable in enum compbio.ws.client.Services

mafftOptions - Static variable in class compbio.ws.server.MafftWS

mafftPresets - Static variable in class compbio.ws.server.MafftWS

MafftWS - Class in compbio.ws.server

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

main(String[]) - Static method in class compbio.data.sequence.RNAStructReader

main(String[]) - Static method in class compbio.stat.collector.ExecutionStatCollector

Not in use

main(String[]) - Static method in class compbio.stat.collector.StatDB

main(String[]) - Static method in class compbio.ws.client.AAConClient

Starts command line client, if no parameters are supplied prints help.

main(String[]) - Static method in class compbio.ws.client.Jws2Client

Starts command line client, if no parameter are supported print help.

main(String[]) - Static method in enum compbio.ws.client.Services

main(String[]) - Static method in class compbio.ws.client.WSTester

Test JWS2 web services

main(String[]) - Static method in class compbio.ws.server.SimpleWSPublisher

Deprecated.

MainManager - Class in compbio.ws.server

Two tasks: 1.

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

makeLocalPath(String) - Static method in class compbio.engine.cluster.drmaa.ClusterRunner

makeLocalPath(String) - Static method in class compbio.engine.cluster.drmaa.JobRunner

MATRIX_PAR_NAME - Variable in class compbio.runner.msa.Mafft

max - Variable in class compbio.metadata.ValueConstrain

maxNameLength - Static variable in class compbio.data.sequence.ClustalAlignmentUtil

MAXVALUE - Static variable in class compbio.runner.OptionCombinator

maxvmem - Variable in class compbio.engine.cluster.drmaa.StatisticManager

MEAStructP - Static variable in class compbio.data.sequence.RNAStructReader

mergeEnvVariables(Map<String, String>, Map<String, String>) - Static method in class compbio.engine.client.EngineUtil

mergeEnvVariables(Map<String, String>, Map<String, String>) - Static method in class compbio.engine.client.Util

message - Variable in class compbio.data.msa.jaxws.JobSubmissionExceptionBean

message - Variable in class compbio.data.msa.jaxws.LimitExceededExceptionBean

message - Variable in class compbio.data.msa.jaxws.ResultNotAvailableExceptionBean

message - Variable in class compbio.data.msa.jaxws.UnsupportedRuntimeExceptionBean

message - Variable in class compbio.data.msa.jaxws.WrongParameterExceptionBean

Metadata<T> - Interface in compbio.data.msa

metadata - Variable in class compbio.data.sequence.Alignment

MetadataHelper - Class in compbio.ws.client

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

method - Variable in class compbio.data.sequence.Score

mfeStructP - Static variable in class compbio.data.sequence.RNAStructReader

min - Variable in class compbio.metadata.ValueConstrain

minNameHolderLength - Static variable in class compbio.data.sequence.ClustalAlignmentUtil

MINVALUE - Static variable in class compbio.runner.OptionCombinator

moreinfo - Variable in class compbio.ws.client.Services.ServiceInfo

MSAprobs - Class in compbio.runner.msa

MSAprobs() - Constructor for class compbio.runner.msa.MSAprobs

MSAPROBS_INFO - Static variable in enum compbio.ws.client.Services

MSAprobsOptions - Static variable in class compbio.ws.server.MSAprobsWS

MSAprobsWS - Class in compbio.ws.server

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

MsaWS<T> - Interface in compbio.data.msa

Multiple Sequence Alignment (MSA) Web Services Interface

Muscle - Class in compbio.runner.msa

Muscle() - Constructor for class compbio.runner.msa.Muscle

Default options are -clwstrict - write output in clustal format

MUSCLE_INFO - Static variable in enum compbio.ws.client.Services

muscleOptions - Static variable in class compbio.ws.server.MuscleWS

musclePresets - Static variable in class compbio.ws.server.MuscleWS

MuscleWS - Class in compbio.ws.server

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

MySchemaOutputResolver(String, String) - Constructor for class compbio.engine.conf.RunnerConfigMarshaller.MySchemaOutputResolver

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