A B C D E F G I L M N P R S T W

A

add(MeanNumNodesCalculator.Line) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.SumLine

Instantiates a new sum line.

addLine(MeanNumNodesCalculator.Line) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.File

Adds the line.

addVersion(String, Date, File, ModelDocument, boolean) - Method in class de.unirostock.sems.bives.statsgenerator.ds.Model

Adds the version.

App - Class in de.unirostock.sems.bives.statsgenerator

Hello world!.

App(String, String) - Constructor for class de.unirostock.sems.bives.statsgenerator.App

Instantiates a new app.

B

BivesAuswertungImager - Class in de.unirostock.sems.bives.statsgenerator.algorithm

The Class BivesAuswertungImager.

BivesAuswertungImager() - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.BivesAuswertungImager

C

clean(Map<String, Model>) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Clean.

clean() - Method in class de.unirostock.sems.bives.statsgenerator.ds.Model

Clean.

clean() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Clean.

close() - Method in class de.unirostock.sems.bives.statsgenerator.io.StatsWriter

ColorizeComodi - Class in de.unirostock.sems.bives.statsgenerator.algorithm

ColorizeComodi() - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.ColorizeComodi

ComodiTermCounter - Class in de.unirostock.sems.bives.statsgenerator.ds

The Class ComodiTermCounter.

ComodiTermCounter(String) - Constructor for class de.unirostock.sems.bives.statsgenerator.ds.ComodiTermCounter

The Constructor.

compare(ModelVersion, ModelVersion, Model, File) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Compare.

create() - Method in class de.unirostock.sems.bives.statsgenerator.io.StatsWriter

Creates the.

D

de.unirostock.sems.bives.statsgenerator - package de.unirostock.sems.bives.statsgenerator

de.unirostock.sems.bives.statsgenerator.algorithm - package de.unirostock.sems.bives.statsgenerator.algorithm

de.unirostock.sems.bives.statsgenerator.ds - package de.unirostock.sems.bives.statsgenerator.ds

de.unirostock.sems.bives.statsgenerator.io - package de.unirostock.sems.bives.statsgenerator.io

DiffResult - Class in de.unirostock.sems.bives.statsgenerator.ds

DiffResult() - Constructor for class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

DiffStatsWriter - Class in de.unirostock.sems.bives.statsgenerator.io

The Class DiffStatsWriter.

DiffStatsWriter(String) - Constructor for class de.unirostock.sems.bives.statsgenerator.io.DiffStatsWriter

Instantiates a new diff stats writer.

E

equals(MeanNumNodesCalculator.SumLine) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.SumLine

Equals.

F

Figurizer - Class in de.unirostock.sems.bives.statsgenerator.algorithm

The Class Figurizer.

Figurizer() - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.Figurizer

File(String) - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.File

Instantiates a new file.

fileName - Variable in class de.unirostock.sems.bives.statsgenerator.io.StatsWriter

The file name.

FileStatsWriter - Class in de.unirostock.sems.bives.statsgenerator.io

FileStatsWriter(String) - Constructor for class de.unirostock.sems.bives.statsgenerator.io.FileStatsWriter

Instantiates a new file stats writer.

formatter - Static variable in class de.unirostock.sems.bives.statsgenerator.App

The Constant formatter.

G

generateFileStats(ModelVersion, Date, Model) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Do file stats.

getBivesDeletes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getBivesInserts() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getBivesMoves() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getBivesUpdates() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getFile() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Gets the file.

getId() - Method in class de.unirostock.sems.bives.statsgenerator.ds.Model

Gets the id.

getLatesBefore(String) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.File

Gets the lates before.

getModelDocument() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Gets the model document.

getModels() - Method in class de.unirostock.sems.bives.statsgenerator.ds.InfoJs

Gets the models.

getName() - Method in class de.unirostock.sems.bives.statsgenerator.ds.Model

Gets the name.

getTriggeredDeletes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getTriggeredInserts() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getTriggeredMoves() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getTriggeredUpdates() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getUnixDeletes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getUnixInserts() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getUrl() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Gets the url.

getVersion(Date) - Method in class de.unirostock.sems.bives.statsgenerator.ds.Model

Gets the version.

getVersionDate() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Gets the version date.

getVersionId() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Gets the version id.

getVersions() - Method in class de.unirostock.sems.bives.statsgenerator.ds.Model

Gets the versions.

getXmlAttributes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getXmlModelName() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Gets the xml model name.

getXmlNodes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

getXmlTexts() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

goForIt(String, String) - Method in class de.unirostock.sems.bives.statsgenerator.App

Go for it.

I

incrementTriggeredDeletes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

Increment the triggered-deletes-counter.

incrementTriggeredInserts() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

Increment the triggered-inserts-counter.

incrementTriggeredMoves() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

Increment the triggered-moves-counter.

incrementTriggeredUpdates() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

Increment the triggered-updates-counter.

incrementUnixDeletes() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

Increment the unix-deletes-counter.

incrementUnixInserts() - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

Increment the unix-inserts-counter.

InfoJs - Class in de.unirostock.sems.bives.statsgenerator.ds

InfoJs(SBMLValidator, CellMLValidator) - Constructor for class de.unirostock.sems.bives.statsgenerator.ds.InfoJs

Instantiates a new info js.

isCellml() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Checks if is cellml.

isSbml() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Checks if is sbml.

L

Line(int, int, int, int, int, int, int, int, int, int, int, String, String, String) - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.Line

Instantiates a new line.

M

main(String[]) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.BivesAuswertungImager

The main method.

main(String[]) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.ColorizeComodi

main(String[]) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.Figurizer

The main method.

main(String[]) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator

The main method.

main(String[]) - Static method in class de.unirostock.sems.bives.statsgenerator.App

The main method.

MeanNumNodesCalculator - Class in de.unirostock.sems.bives.statsgenerator.algorithm

The Class MeanNumNodesCalculatorCellML.

MeanNumNodesCalculator() - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator

MeanNumNodesCalculator.File - Class in de.unirostock.sems.bives.statsgenerator.algorithm

The Class File.

MeanNumNodesCalculator.Line - Class in de.unirostock.sems.bives.statsgenerator.algorithm

The Class Line.

MeanNumNodesCalculator.SumLine - Class in de.unirostock.sems.bives.statsgenerator.algorithm

Model - Class in de.unirostock.sems.bives.statsgenerator.ds

Model(String) - Constructor for class de.unirostock.sems.bives.statsgenerator.ds.Model

Instantiates a new model.

ModelVersion - Class in de.unirostock.sems.bives.statsgenerator.ds

The Class ModelVersion.

ModelVersion(String, Date, File, ModelDocument, Model, boolean) - Constructor for class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

Instantiates a new model version.

N

nCellMl - Variable in class de.unirostock.sems.bives.statsgenerator.ds.ComodiTermCounter

The n cell ml.

newLine - Static variable in class de.unirostock.sems.bives.statsgenerator.algorithm.Figurizer

The Constant newLine.

nSBML - Variable in class de.unirostock.sems.bives.statsgenerator.ds.ComodiTermCounter

The n biom.

P

parseInfoJs(File) - Method in class de.unirostock.sems.bives.statsgenerator.ds.InfoJs

Parses the info.js.

process() - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Process.

process(File) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Process biomodels.

processModel(Model) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Process model.

processWorkingDir(File) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Process model.

R

REPO_BIOMODELS - Static variable in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator

REPO_PMR - Static variable in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator

RepositoryProcessor - Class in de.unirostock.sems.bives.statsgenerator.algorithm

The Class BiomodelsProcessor.

RepositoryProcessor(File, File, SBMLValidator, CellMLValidator, FileStatsWriter, DiffStatsWriter, Map<String, ComodiTermCounter>) - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.RepositoryProcessor

Instantiates a new biomodels processor.

run(File, File) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.BivesAuswertungImager

Run.

run(InputStream, InputStream, File) - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.ColorizeComodi

Run the colorizer.

run(String, String) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator

Run.

S

setBivesDeletes(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setBivesInserts(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setBivesMoves(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setBivesUpdates(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setTriggeredDeletes(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setTriggeredInserts(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setTriggeredMoves(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setTriggeredUpdates(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setUnixDeletes(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setUnixInserts(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setXmlAttributes(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setXmlNodes(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

setXmlTexts(int) - Method in class de.unirostock.sems.bives.statsgenerator.ds.DiffResult

speed - Static variable in class de.unirostock.sems.bives.statsgenerator.App

The speed.

statsUrl - Static variable in class de.unirostock.sems.bives.statsgenerator.App

The url to the stats website.

StatsWriter - Class in de.unirostock.sems.bives.statsgenerator.io

The Class StatsWriter.

StatsWriter(String) - Constructor for class de.unirostock.sems.bives.statsgenerator.io.StatsWriter

Instantiates a new stats writer.

sum(int, int, double[]) - Static method in class de.unirostock.sems.bives.statsgenerator.algorithm.BivesAuswertungImager

Sum.

SumLine() - Constructor for class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.SumLine

T

term - Variable in class de.unirostock.sems.bives.statsgenerator.ds.ComodiTermCounter

The term.

tooLarge - Static variable in class de.unirostock.sems.bives.statsgenerator.App

The too large.

toString() - Method in class de.unirostock.sems.bives.statsgenerator.algorithm.MeanNumNodesCalculator.SumLine

toString() - Method in class de.unirostock.sems.bives.statsgenerator.ds.ModelVersion

W

write(DiffResult, String, String, String, String) - Method in class de.unirostock.sems.bives.statsgenerator.io.DiffStatsWriter

Write.

writeHeader() - Method in class de.unirostock.sems.bives.statsgenerator.io.DiffStatsWriter

writeHeader() - Method in class de.unirostock.sems.bives.statsgenerator.io.FileStatsWriter

writeHeader() - Method in class de.unirostock.sems.bives.statsgenerator.io.StatsWriter

Write header.

writeLine(int, int, int, int, int, int, int, int, int, int, int, boolean, String, Date, String, String, String, String) - Method in class de.unirostock.sems.bives.statsgenerator.io.FileStatsWriter

Write line.

writer - Variable in class de.unirostock.sems.bives.statsgenerator.io.StatsWriter

The writer.

A B C D E F G I L M N P R S T W