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Download mitcr-1.0-distribution.jar

mitcr/mitcr-1.0-distribution.jar.zip( 918 k)

The download jar file contains the following class files or Java source files.

META-INF/AUTHORS
META-INF/LICENSE
META-INF/LICENSE-APACHE-2.0
META-INF/LICENSE-LGPL-3.0
META-INF/MANIFEST.MF
META-INF/NOTICE
META-INF/README
META-INF/maven/cc.redberry/pipe/pom.properties
META-INF/maven/cc.redberry/pipe/pom.xml
META-INF/maven/com.milaboratory/mitcr/pom.properties
META-INF/maven/com.milaboratory/mitcr/pom.xml
META-INF/maven/commons-cli/commons-cli/pom.properties
META-INF/maven/commons-cli/commons-cli/pom.xml
META-INF/maven/org.apache.commons/commons-compress/pom.properties
META-INF/maven/org.apache.commons/commons-compress/pom.xml
META-INF/maven/org.apache.commons/commons-math3/pom.properties
META-INF/maven/org.apache.commons/commons-math3/pom.xml
assets/org/apache/commons/math3/exception/util/LocalizedFormats_fr.properties
cc.redberry.pipe.CUtils.class
cc.redberry.pipe.InputPort.class
cc.redberry.pipe.InputPortUninterruptible.class
cc.redberry.pipe.OutputPort.class
cc.redberry.pipe.OutputPortUninterruptible.class
cc.redberry.pipe.Processor.class
cc.redberry.pipe.ProcessorFactory.class
cc.redberry.pipe.ThreadSafe.class
cc.redberry.pipe.VoidProcessor.class
cc.redberry.pipe.VoidProcessorFactory.class
cc.redberry.pipe.blocks.AbstractOutputPortUninterruptible.class
cc.redberry.pipe.blocks.Buffer.class
cc.redberry.pipe.blocks.CCUtils.class
cc.redberry.pipe.blocks.Merger.class
cc.redberry.pipe.blocks.O2ITransmitter.class
cc.redberry.pipe.blocks.ParallelProcessor.class
cc.redberry.pipe.util.CountLimitingOutputPort.class
cc.redberry.pipe.util.CountingOutputPort.class
cc.redberry.pipe.util.FlatteningOutputPort.class
cc.redberry.pipe.util.IteratorOutputPortAdapter.class
cc.redberry.pipe.util.SimpleProcessorWrapper.class
cc.redberry.pipe.util.SimpleProcessorWrapperSynchronized.class
cc.redberry.pipe.util.SimpleVoidProcessorExecutor.class
cc.redberry.pipe.util.UncaughtExceptionHandler.class
com.milaboratory.core.clone.Clone.class
com.milaboratory.core.clone.CloneCluster.class
com.milaboratory.core.clone.CloneClusterImpl.class
com.milaboratory.core.clone.CloneComparator.class
com.milaboratory.core.clone.CloneImpl.class
com.milaboratory.core.clone.CloneSet.class
com.milaboratory.core.clone.CloneSetClustered.class
com.milaboratory.core.clone.CloneSetClusteredImpl.class
com.milaboratory.core.clone.CloneSetImpl.class
com.milaboratory.core.io.AbstractBinaryContainerIO.class
com.milaboratory.core.io.BinaryContainerIO.class
com.milaboratory.core.io.BinaryContainerReader.class
com.milaboratory.core.io.BinaryContainerWriter.class
com.milaboratory.core.io.DataInputPositioned.class
com.milaboratory.core.io.DataOutputPositioned.class
com.milaboratory.core.io.FixedBlockSize.class
com.milaboratory.core.io.IOUtill.class
com.milaboratory.core.io.IndexedContainerInput.class
com.milaboratory.core.io.IndexedContainerOutput.class
com.milaboratory.core.io.SignatureCheckError.class
com.milaboratory.core.io.WrongStructureException.class
com.milaboratory.core.io.impl.AbstractIndexedContainerInput.class
com.milaboratory.core.io.impl.BBBackedLongArrayList.class
com.milaboratory.core.io.impl.ByteArrayIndexedContainerInput.class
com.milaboratory.core.io.impl.ByteBufferHolder.class
com.milaboratory.core.io.impl.ByteBufferHolderCache.class
com.milaboratory.core.io.impl.DataInputPositionedStream.class
com.milaboratory.core.io.impl.DataOutputPositionedStream.class
com.milaboratory.core.io.impl.FileIndexedContainerInput.class
com.milaboratory.core.io.impl.FileIndexedContainerOutput.class
com.milaboratory.core.io.impl.IByteArrayOutputStream.class
com.milaboratory.core.io.serializers.Bit2ArrayIO.class
com.milaboratory.core.io.serializers.BitArrayIO.class
com.milaboratory.core.io.serializers.NucleotideSQPairIO.class
com.milaboratory.core.io.serializers.NucleotideSequenceIO.class
com.milaboratory.core.io.serializers.SegmentGroupContainerIO.class
com.milaboratory.core.io.serializers.SequenceQualityIO.class
com.milaboratory.core.io.util.ClassUtils.class
com.milaboratory.core.io.util.PrimitiveArrayIO.class
com.milaboratory.core.io.util.PrimitiveIO.class
com.milaboratory.core.io.util.PrimitiveMapIO.class
com.milaboratory.core.segment.Allele.class
com.milaboratory.core.segment.AlleleSet.class
com.milaboratory.core.segment.CDR.class
com.milaboratory.core.segment.Chain.class
com.milaboratory.core.segment.DefaultSegmentLibrary.class
com.milaboratory.core.segment.Gene.class
com.milaboratory.core.segment.MD5ChecksumTestFail.class
com.milaboratory.core.segment.Molecule.class
com.milaboratory.core.segment.Segment.class
com.milaboratory.core.segment.SegmentFamily.class
com.milaboratory.core.segment.SegmentGroup.class
com.milaboratory.core.segment.SegmentGroupContainer.class
com.milaboratory.core.segment.SegmentGroupType.class
com.milaboratory.core.segment.SegmentLibrary.class
com.milaboratory.core.segment.SegmentSet.class
com.milaboratory.core.segment.SegmentUtils.class
com.milaboratory.core.segment.Species.class
com.milaboratory.core.segment.SpeciesSegmentGroup.class
com.milaboratory.core.sequence.Alphabet.class
com.milaboratory.core.sequence.NucleotideSQPair.class
com.milaboratory.core.sequence.Sequence.class
com.milaboratory.core.sequence.SequenceBuilder.class
com.milaboratory.core.sequence.SequenceBuilderFactory.class
com.milaboratory.core.sequence.SequenceQuality.class
com.milaboratory.core.sequence.SequencingErrorType.class
com.milaboratory.core.sequence.aminoacid.AminoAcidAlphabet.class
com.milaboratory.core.sequence.aminoacid.AminoAcidSequence.class
com.milaboratory.core.sequence.aminoacid.AminoAcidSequenceImpl.class
com.milaboratory.core.sequence.aminoacid.CDRAminoAcidAlphabet.class
com.milaboratory.core.sequence.aminoacid.CDRAminoAcidSequence.class
com.milaboratory.core.sequence.aminoacid.CDRTriplet.class
com.milaboratory.core.sequence.motif.LowQualityIndicator.class
com.milaboratory.core.sequence.motif.LowQualityIndicatorProvider.class
com.milaboratory.core.sequence.motif.NucleotideMotif.class
com.milaboratory.core.sequence.motif.NucleotideMotifBuilder.class
com.milaboratory.core.sequence.motif.NucleotideMotifSearchAdvanced.class
com.milaboratory.core.sequence.motif.NucleotideMotifSearchAdvancedWrapper.class
com.milaboratory.core.sequence.motif.NucleotideMotifSearchParameters.class
com.milaboratory.core.sequence.motif.NucleotideSQPairProvider.class
com.milaboratory.core.sequence.motif.NucleotideWildcards.class
com.milaboratory.core.sequence.motif.SSequencingReadBindings.class
com.milaboratory.core.sequence.nucleotide.AbstarctNucleotideSequence.class
com.milaboratory.core.sequence.nucleotide.NucleotideAlphabet.class
com.milaboratory.core.sequence.nucleotide.NucleotideAlphabetWithN.class
com.milaboratory.core.sequence.nucleotide.NucleotideSequence.class
com.milaboratory.core.sequence.nucleotide.NucleotideSequenceBuilder.class
com.milaboratory.core.sequence.nucleotide.NucleotideSequenceImpl.class
com.milaboratory.core.sequence.quality.SequenceQualityPhred.class
com.milaboratory.core.sequence.tree.LinearMinPenalty.class
com.milaboratory.core.sequence.tree.NucleotideSQPairSet.class
com.milaboratory.core.sequence.tree.NucleotideSQPairSetEvent.class
com.milaboratory.core.sequence.tree.NucleotideSQPairSetEventType.class
com.milaboratory.core.sequence.tree.NucleotideSQPairSetListener.class
com.milaboratory.core.sequence.tree.NucleotideSequencePenaltyTreeSet.class
com.milaboratory.core.sequence.tree.Penalty.class
com.milaboratory.core.sequence.tree.SequenceTreeMap.class
com.milaboratory.core.sequence.util.NucleotideRCSequence.class
com.milaboratory.core.sequence.util.NucleotideSequenceGenerator.class
com.milaboratory.core.sequence.util.NucleotideSubSequence.class
com.milaboratory.core.sequence.util.SequenceMismatch.class
com.milaboratory.core.sequence.util.SequenceMismatchCollector.class
com.milaboratory.core.sequence.util.SequenceQualityUtils.class
com.milaboratory.core.sequence.util.SequencesUtils.class
com.milaboratory.core.sequence.util.SubSequenceQuality.class
com.milaboratory.core.sequence.util.Translator.class
com.milaboratory.core.sequencing.SequencingUtils.class
com.milaboratory.core.sequencing.io.PSequencingDataReader.class
com.milaboratory.core.sequencing.io.SSequencingDataReader.class
com.milaboratory.core.sequencing.io.SSequencingDataReaderWithFlowgram.class
com.milaboratory.core.sequencing.io.SequencingDataReader.class
com.milaboratory.core.sequencing.io.fasta.FastaItem.class
com.milaboratory.core.sequencing.io.fasta.FastaItemsReader.class
com.milaboratory.core.sequencing.io.fasta.FastaReader.class
com.milaboratory.core.sequencing.io.fasta.FastaWriter.class
com.milaboratory.core.sequencing.io.fastq.Casava18InfoProvider.class
com.milaboratory.core.sequencing.io.fastq.IlluminaInfoProvider.class
com.milaboratory.core.sequencing.io.fastq.IlluminaInfoProviderFactory.class
com.milaboratory.core.sequencing.io.fastq.IlluminaReadInfo.class
com.milaboratory.core.sequencing.io.fastq.IlluminaReadInfoImpl.class
com.milaboratory.core.sequencing.io.fastq.NucleotideSQPairTrimmer.class
com.milaboratory.core.sequencing.io.fastq.PFastqReader.class
com.milaboratory.core.sequencing.io.fastq.PFastqWriter.class
com.milaboratory.core.sequencing.io.fastq.PSequencingReadsTrimmer.class
com.milaboratory.core.sequencing.io.fastq.SFastqReader.class
com.milaboratory.core.sequencing.io.fastq.SFastqWriter.class
com.milaboratory.core.sequencing.io.fastq.SSequencingReadTrimmer.class
com.milaboratory.core.sequencing.io.fastq.quality.AbstractSequenceQualityFactory.class
com.milaboratory.core.sequencing.io.fastq.quality.PhredSequenceQualityFactory.class
com.milaboratory.core.sequencing.io.fastq.quality.QualityStringFormat.class
com.milaboratory.core.sequencing.io.fastq.quality.SequenceQualityFactory.class
com.milaboratory.core.sequencing.io.fastq.quality.WrongQualityStringException.class
com.milaboratory.core.sequencing.io.sff.SFFClipper.class
com.milaboratory.core.sequencing.io.sff.SFFHeader.class
com.milaboratory.core.sequencing.io.sff.SFFRAWRead.class
com.milaboratory.core.sequencing.io.sff.SFFReader.class
com.milaboratory.core.sequencing.read.PDataSerRecord.class
com.milaboratory.core.sequencing.read.PSequencingRead.class
com.milaboratory.core.sequencing.read.PSequencingReadImpl.class
com.milaboratory.core.sequencing.read.SSequencingRead.class
com.milaboratory.core.sequencing.read.SSequencingReadImpl.class
com.milaboratory.core.sequencing.read.SSequencingReadWithFlowgram.class
com.milaboratory.core.sequencing.read.SSequencingReadWithFlowgramImpl.class
com.milaboratory.core.sequencing.read.SequencingRead.class
com.milaboratory.mitcr.SimpleTest.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractionResult.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractionResultUtils.class
com.milaboratory.mitcr.cdrextraction.CDR3Extractor.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFactory.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFactoryFromSQPair.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFactoryFromSRead.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFromPRead.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFromSQPair.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorFromSRead.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorListener.class
com.milaboratory.mitcr.cdrextraction.CDR3ExtractorParameters.class
com.milaboratory.mitcr.cdrextraction.CoreCDR3Extractor.class
com.milaboratory.mitcr.cdrextraction.Strand.class
com.milaboratory.mitcr.cdrextraction.TargetRead.class
com.milaboratory.mitcr.cli.BuildInformation.class
com.milaboratory.mitcr.cli.BuildInformationProvider.class
com.milaboratory.mitcr.cli.ExportDetalizationLevel.class
com.milaboratory.mitcr.cli.Main.class
com.milaboratory.mitcr.cli.ParametersIO.class
com.milaboratory.mitcr.cli.ReportExporter.class
com.milaboratory.mitcr.cli.TabDelimitedExporter.class
com.milaboratory.mitcr.cli.TabDelimitedImporter.class
com.milaboratory.mitcr.clonegenerator.AccumulatorClone.class
com.milaboratory.mitcr.clonegenerator.BarcodeAggregator.class
com.milaboratory.mitcr.clonegenerator.BasicCloneGenerator.class
com.milaboratory.mitcr.clonegenerator.BasicCloneGeneratorParameters.class
com.milaboratory.mitcr.clonegenerator.CloneGenerator.class
com.milaboratory.mitcr.clonegenerator.CloneGeneratorFactory.class
com.milaboratory.mitcr.clonegenerator.CloneGeneratorListener.class
com.milaboratory.mitcr.clonegenerator.CloneGeneratorParameters.class
com.milaboratory.mitcr.clonegenerator.CloneGeneratorParametersDeserializer.class
com.milaboratory.mitcr.clonegenerator.InMemoryResultAccumulator.class
com.milaboratory.mitcr.clonegenerator.LQFilteringOffCloneGenerator.class
com.milaboratory.mitcr.clonegenerator.LQFilteringOffCloneGeneratorParameters.class
com.milaboratory.mitcr.clonegenerator.LQMappingCloneGenerator.class
com.milaboratory.mitcr.clonegenerator.LQMappingCloneGeneratorParameters.class
com.milaboratory.mitcr.clonegenerator.OnHDDResultAccumulator.class
com.milaboratory.mitcr.clonegenerator.ResultsAccumulator.class
com.milaboratory.mitcr.clonegenerator.SequencingReadLink.class
com.milaboratory.mitcr.clonegenerator.TreePackingInfo.class
com.milaboratory.mitcr.clsexport.AbstractCloneSetMetadata.class
com.milaboratory.mitcr.clsexport.AbstractCloneSetMetadataIO.class
com.milaboratory.mitcr.clsexport.CloneClusterData.class
com.milaboratory.mitcr.clsexport.CloneClusterDataIO.class
com.milaboratory.mitcr.clsexport.CloneIO.class
com.milaboratory.mitcr.clsexport.ClsExporter.class
com.milaboratory.mitcr.clsexport.DataSetMetadata.class
com.milaboratory.mitcr.clsexport.DataSetMetadataIO.class
com.milaboratory.mitcr.clsexport.SCloneSetMetadata.class
com.milaboratory.mitcr.clsexport.SCloneSetMetadataIO.class
com.milaboratory.mitcr.clusterization.CloneClusterizationType.class
com.milaboratory.mitcr.clusterization.CloneClusterizer.class
com.milaboratory.mitcr.clusterization.CloneClusterizerFactory.class
com.milaboratory.mitcr.clusterization.ClusterizationListener.class
com.milaboratory.mitcr.clusterization.DummyCloneClusterizer.class
com.milaboratory.mitcr.clusterization.MonolayerCluster.class
com.milaboratory.mitcr.clusterization.PenaltyBasedFastClusterizer.class
com.milaboratory.mitcr.clusterization.PenaltyCalculator.class
com.milaboratory.mitcr.clusterization.penalty.NoClusterizationPenalty.class
com.milaboratory.mitcr.clusterization.penalty.OneMismatchPenaltyCalculator.class
com.milaboratory.mitcr.clusterization.penalty.VDJExplicitPenalty.class
com.milaboratory.mitcr.clusterization.penalty.VJMismatchPenalty.class
com.milaboratory.mitcr.pipeline.AnalysisListener.class
com.milaboratory.mitcr.pipeline.AnalysisListenerCombiner.class
com.milaboratory.mitcr.pipeline.DefaultAnalysisListener.class
com.milaboratory.mitcr.pipeline.FullPipeline.class
com.milaboratory.mitcr.pipeline.ParameterPresets.class
com.milaboratory.mitcr.pipeline.Parameters.class
com.milaboratory.mitcr.qualitystrategy.DummyQualityInterpretationStrategy.class
com.milaboratory.mitcr.qualitystrategy.GBNSBothSidesNucleotideInfoProvider.class
com.milaboratory.mitcr.qualitystrategy.GBNSNucleotideInfoProvider.class
com.milaboratory.mitcr.qualitystrategy.GBNSUtils.class
com.milaboratory.mitcr.qualitystrategy.GoodBadNucleotideSequence.class
com.milaboratory.mitcr.qualitystrategy.GoodBadNucleotideSequenceProvider.class
com.milaboratory.mitcr.qualitystrategy.IlluminaQualityInterpretationStrategy.class
com.milaboratory.mitcr.qualitystrategy.QualityInterpretationStrategy.class
com.milaboratory.mitcr.qualitystrategy.QualityInterpretationStrategyDeserializer.class
com.milaboratory.mitcr.statistics.AnalysisStatisticsAggregator.class
com.milaboratory.mitcr.statistics.CloneSetQualityControl.class
com.milaboratory.mitcr.util.evolver.AbstractGenerator.class
com.milaboratory.mitcr.util.evolver.ConditionsProvider.class
com.milaboratory.mitcr.util.evolver.Generator.class
com.milaboratory.mitcr.util.evolver.Reactor.class
com.milaboratory.mitcr.vdjmapping.AlignmentDirection.class
com.milaboratory.mitcr.vdjmapping.DSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.DSegmentMapperFactory.class
com.milaboratory.mitcr.vdjmapping.DSegmentMapperParameters.class
com.milaboratory.mitcr.vdjmapping.PointSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.SearchDirection.class
com.milaboratory.mitcr.vdjmapping.SegmentMapper.class
com.milaboratory.mitcr.vdjmapping.SegmentMappingResult.class
com.milaboratory.mitcr.vdjmapping.SimplestAlignment.class
com.milaboratory.mitcr.vdjmapping.VDJSegmentsMapper.class
com.milaboratory.mitcr.vdjmapping.VDJSegmentsMapperFactory.class
com.milaboratory.mitcr.vdjmapping.VDJSegmentsMappingResult.class
com.milaboratory.mitcr.vdjmapping.VJMapperListener.class
com.milaboratory.mitcr.vdjmapping.VJSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.VJSegmentMapperFactory.class
com.milaboratory.mitcr.vdjmapping.VJSegmentMapperParameters.class
com.milaboratory.mitcr.vdjmapping.VJSegmentMappingResult.class
com.milaboratory.mitcr.vdjmapping.VJSegmentMappingResultFormatter.class
com.milaboratory.mitcr.vdjmapping.VJSegmentsMapperAdapter.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeNode.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGenerator.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorBadDeletion.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorBadMismatch.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorBadMismatch3B.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeNodeGeneratorMatchOnly.class
com.milaboratory.mitcr.vdjmapping.ntree.NTreeSlider.class
com.milaboratory.mitcr.vdjmapping.ntree.NucleotideInfo.class
com.milaboratory.mitcr.vdjmapping.ntree.NucleotideInfoProvider.class
com.milaboratory.mitcr.vdjmapping.tree.CoreVJSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.tree.OneDirectionSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.tree.STree.class
com.milaboratory.mitcr.vdjmapping.tree.STreeResultHolder.class
com.milaboratory.mitcr.vdjmapping.tree.SmartAlignmentSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.tree.SmartAlignmentSegmentMapperV2.class
com.milaboratory.mitcr.vdjmapping.tree.UniDirectionSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.trivial.OneSideAligner.class
com.milaboratory.mitcr.vdjmapping.trivial.OneSideAlignmentResult.class
com.milaboratory.mitcr.vdjmapping.trivial.TrivialSegmentMapper.class
com.milaboratory.mitcr.vdjmapping.trivial.TrivialSegmentMapperFactory.class
com.milaboratory.util.Bit2Array.class
com.milaboratory.util.BitArray.class
com.milaboratory.util.CanReportProgress.class
com.milaboratory.util.CanReportProgressAndStage.class
com.milaboratory.util.CompressionType.class
com.milaboratory.util.CoordProxy.class
com.milaboratory.util.Factory.class
com.milaboratory.util.HashFunctions.class
com.milaboratory.util.IndexRange.class
com.milaboratory.util.IntArrayList.class
com.milaboratory.util.LongArrayList.class
com.milaboratory.util.Math.class
com.milaboratory.util.NullOutputStream.class
com.milaboratory.util.ProgressReporter.class
com.milaboratory.util.ProgressReporterFactory.class
com.milaboratory.util.TablePrintStreamAdapter.class
com.milaboratory.util.XMLException.class
gnu.trove.TIntCollection.class
gnu.trove.function.TObjectFunction.class
gnu.trove.impl.Constants.class
gnu.trove.impl.HashFunctions.class
gnu.trove.impl.PrimeFinder.class
gnu.trove.impl.hash.THash.class
gnu.trove.impl.hash.THashPrimitiveIterator.class
gnu.trove.impl.hash.TIntHash.class
gnu.trove.impl.hash.TPrimitiveHash.class
gnu.trove.iterator.TAdvancingIterator.class
gnu.trove.iterator.TIntIterator.class
gnu.trove.iterator.TIntObjectIterator.class
gnu.trove.iterator.TIterator.class
gnu.trove.iterator.TPrimitiveIterator.class
gnu.trove.map.TIntObjectMap.class
gnu.trove.map.hash.TIntObjectHashMap.class
gnu.trove.procedure.TIntObjectProcedure.class
gnu.trove.procedure.TIntProcedure.class
gnu.trove.procedure.TObjectProcedure.class
gnu.trove.set.TIntSet.class
mitcr
org.apache.commons.cli.AlreadySelectedException.class
org.apache.commons.cli.CommandLine.class
org.apache.commons.cli.CommandLineParser.class
org.apache.commons.cli.HelpFormatter.class
org.apache.commons.cli.MissingArgumentException.class
org.apache.commons.cli.MissingOptionException.class
org.apache.commons.cli.Option.class
org.apache.commons.cli.OptionBuilder.class
org.apache.commons.cli.OptionGroup.class
org.apache.commons.cli.OptionValidator.class
org.apache.commons.cli.Options.class
org.apache.commons.cli.ParseException.class
org.apache.commons.cli.Parser.class
org.apache.commons.cli.PatternOptionBuilder.class
org.apache.commons.cli.PosixParser.class
org.apache.commons.cli.TypeHandler.class
org.apache.commons.cli.UnrecognizedOptionException.class
org.apache.commons.cli.Util.class
org.apache.commons.compress.compressors.CompressorException.class
org.apache.commons.compress.compressors.CompressorInputStream.class
org.apache.commons.compress.compressors.CompressorOutputStream.class
org.apache.commons.compress.compressors.CompressorStreamFactory.class
org.apache.commons.compress.compressors.bzip2.BZip2CompressorInputStream.class
org.apache.commons.compress.compressors.bzip2.BZip2CompressorOutputStream.class
org.apache.commons.compress.compressors.bzip2.BZip2Constants.class
org.apache.commons.compress.compressors.bzip2.CRC.class
org.apache.commons.compress.compressors.bzip2.Rand.class
org.apache.commons.compress.compressors.gzip.GzipCompressorInputStream.class
org.apache.commons.compress.compressors.gzip.GzipCompressorOutputStream.class
org.apache.commons.compress.compressors.pack200.InMemoryCachingStreamBridge.class
org.apache.commons.compress.compressors.pack200.Pack200CompressorInputStream.class
org.apache.commons.compress.compressors.pack200.Pack200CompressorOutputStream.class
org.apache.commons.compress.compressors.pack200.Pack200Strategy.class
org.apache.commons.compress.compressors.pack200.StreamBridge.class
org.apache.commons.compress.compressors.pack200.TempFileCachingStreamBridge.class
org.apache.commons.compress.utils.CountingInputStream.class
org.apache.commons.math3.analysis.UnivariateFunction.class
org.apache.commons.math3.analysis.solvers.AbstractUnivariateSolver.class
org.apache.commons.math3.analysis.solvers.AllowedSolution.class
org.apache.commons.math3.analysis.solvers.BaseAbstractUnivariateSolver.class
org.apache.commons.math3.analysis.solvers.BaseUnivariateSolver.class
org.apache.commons.math3.analysis.solvers.BracketedUnivariateSolver.class
org.apache.commons.math3.analysis.solvers.BrentSolver.class
org.apache.commons.math3.analysis.solvers.UnivariateSolver.class
org.apache.commons.math3.analysis.solvers.UnivariateSolverUtils.class
org.apache.commons.math3.distribution.AbstractIntegerDistribution.class
org.apache.commons.math3.distribution.AbstractRealDistribution.class
org.apache.commons.math3.distribution.BetaDistribution.class
org.apache.commons.math3.distribution.BinomialDistribution.class
org.apache.commons.math3.distribution.CauchyDistribution.class
org.apache.commons.math3.distribution.ChiSquaredDistribution.class
org.apache.commons.math3.distribution.ExponentialDistribution.class
org.apache.commons.math3.distribution.FDistribution.class
org.apache.commons.math3.distribution.GammaDistribution.class
org.apache.commons.math3.distribution.HypergeometricDistribution.class
org.apache.commons.math3.distribution.IntegerDistribution.class
org.apache.commons.math3.distribution.NormalDistribution.class
org.apache.commons.math3.distribution.PascalDistribution.class
org.apache.commons.math3.distribution.PoissonDistribution.class
org.apache.commons.math3.distribution.RealDistribution.class
org.apache.commons.math3.distribution.SaddlePointExpansion.class
org.apache.commons.math3.distribution.TDistribution.class
org.apache.commons.math3.distribution.WeibullDistribution.class
org.apache.commons.math3.distribution.ZipfDistribution.class
org.apache.commons.math3.exception.ConvergenceException.class
org.apache.commons.math3.exception.DimensionMismatchException.class
org.apache.commons.math3.exception.MathArithmeticException.class
org.apache.commons.math3.exception.MathIllegalArgumentException.class
org.apache.commons.math3.exception.MathIllegalNumberException.class
org.apache.commons.math3.exception.MathIllegalStateException.class
org.apache.commons.math3.exception.MathInternalError.class
org.apache.commons.math3.exception.MaxCountExceededException.class
org.apache.commons.math3.exception.NoBracketingException.class
org.apache.commons.math3.exception.NonMonotonicSequenceException.class
org.apache.commons.math3.exception.NotANumberException.class
org.apache.commons.math3.exception.NotFiniteNumberException.class
org.apache.commons.math3.exception.NotPositiveException.class
org.apache.commons.math3.exception.NotStrictlyPositiveException.class
org.apache.commons.math3.exception.NullArgumentException.class
org.apache.commons.math3.exception.NumberIsTooLargeException.class
org.apache.commons.math3.exception.NumberIsTooSmallException.class
org.apache.commons.math3.exception.OutOfRangeException.class
org.apache.commons.math3.exception.TooManyEvaluationsException.class
org.apache.commons.math3.exception.util.ArgUtils.class
org.apache.commons.math3.exception.util.ExceptionContext.class
org.apache.commons.math3.exception.util.ExceptionContextProvider.class
org.apache.commons.math3.exception.util.Localizable.class
org.apache.commons.math3.exception.util.LocalizedFormats.class
org.apache.commons.math3.random.AbstractWell.class
org.apache.commons.math3.random.BitsStreamGenerator.class
org.apache.commons.math3.random.RandomData.class
org.apache.commons.math3.random.RandomDataGenerator.class
org.apache.commons.math3.random.RandomDataImpl.class
org.apache.commons.math3.random.RandomGenerator.class
org.apache.commons.math3.random.Well19937c.class
org.apache.commons.math3.special.Beta.class
org.apache.commons.math3.special.Erf.class
org.apache.commons.math3.special.Gamma.class
org.apache.commons.math3.util.ArithmeticUtils.class
org.apache.commons.math3.util.ContinuedFraction.class
org.apache.commons.math3.util.DoubleArray.class
org.apache.commons.math3.util.FastMath.class
org.apache.commons.math3.util.FastMathCalc.class
org.apache.commons.math3.util.FastMathLiteralArrays.class
org.apache.commons.math3.util.Incrementor.class
org.apache.commons.math3.util.MathArrays.class
org.apache.commons.math3.util.MathUtils.class
org.apache.commons.math3.util.Pair.class
org.apache.commons.math3.util.Precision.class
org.apache.commons.math3.util.ResizableDoubleArray.class
org.jdom.Attribute.class
org.jdom.AttributeList.class
org.jdom.CDATA.class
org.jdom.Comment.class
org.jdom.Content.class
org.jdom.ContentList.class
org.jdom.DataConversionException.class
org.jdom.DefaultJDOMFactory.class
org.jdom.DescendantIterator.class
org.jdom.DocType.class
org.jdom.Document.class
org.jdom.Element.class
org.jdom.EntityRef.class
org.jdom.FilterIterator.class
org.jdom.IllegalAddException.class
org.jdom.IllegalDataException.class
org.jdom.IllegalNameException.class
org.jdom.IllegalTargetException.class
org.jdom.JDOMException.class
org.jdom.JDOMFactory.class
org.jdom.Namespace.class
org.jdom.NamespaceKey.class
org.jdom.Parent.class
org.jdom.ProcessingInstruction.class
org.jdom.Text.class
org.jdom.UncheckedJDOMFactory.class
org.jdom.Verifier.class
org.jdom.adapters.AbstractDOMAdapter.class
org.jdom.adapters.CrimsonDOMAdapter.class
org.jdom.adapters.DOMAdapter.class
org.jdom.adapters.JAXPDOMAdapter.class
org.jdom.adapters.OracleV1DOMAdapter.class
org.jdom.adapters.OracleV2DOMAdapter.class
org.jdom.adapters.XML4JDOMAdapter.class
org.jdom.adapters.XercesDOMAdapter.class
org.jdom.filter.AbstractFilter.class
org.jdom.filter.AndFilter.class
org.jdom.filter.ContentFilter.class
org.jdom.filter.ElementFilter.class
org.jdom.filter.Filter.class
org.jdom.filter.NegateFilter.class
org.jdom.filter.OrFilter.class
org.jdom.input.BuilderErrorHandler.class
org.jdom.input.DOMBuilder.class
org.jdom.input.JAXPParserFactory.class
org.jdom.input.JDOMParseException.class
org.jdom.input.SAXBuilder.class
org.jdom.input.SAXHandler.class
org.jdom.input.TextBuffer.class
org.jdom.output.DOMOutputter.class
org.jdom.output.EscapeStrategy.class
org.jdom.output.Format.class
org.jdom.output.JDOMLocator.class
org.jdom.output.NamespaceStack.class
org.jdom.output.SAXOutputter.class
org.jdom.output.XMLOutputter.class
org.jdom.transform.JDOMResult.class
org.jdom.transform.JDOMSource.class
org.jdom.transform.XSLTransformException.class
org.jdom.transform.XSLTransformer.class
org.jdom.xpath.JaxenXPath.class
org.jdom.xpath.XPath.class
segments.gsl








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