.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NOTES.txt
NOTES_SDA.txt
R/BNframe2list.R
R/LoftusMasson.R
R/binSTATS.R
R/continuous_state-trace.R
R/delay.R
R/gen2list.R
R/gen2listBN.R
R/jCMRBN.R
R/jCMRfitsx.R
R/jCMRx.R
R/jCMRxBNfits.R
R/jMR.R
R/jMRBNfits.R
R/jMRfits.R
R/methods_sta_cmr.R
R/onLoad.R
R/partial_order_functions.R
R/shrinkDiag.R
R/staCMRBN.R
R/staCMRFITBN.R
R/staCMRx.R
R/staMRBN.R
R/staMRFITBN.R
R/staPLOT.R
R/staPLOTBN.R
R/staSTATS.R
R/staSTATSBN.R
R/tiesort.R
README.Rmd
README.md
data/delay.rda
development.R
development/delay.dat
development/prepare_delay_data.R
examples/examples.delay.R
inst/java/fxMR-0.3.41-jar-with-dependencies.jar
java/.classpath
java/.gitignore
java/.project
java/.settings/org.eclipse.core.resources.prefs
java/.settings/org.eclipse.jdt.core.prefs
java/BUILT_INSTRUCTIONS.txt
java/pom.xml
java/src/main/java/au/edu/adelaide/fxmr/DopeyTest.java
java/src/main/java/au/edu/adelaide/fxmr/data/BinElement.java
java/src/main/java/au/edu/adelaide/fxmr/data/BinModel.java
java/src/main/java/au/edu/adelaide/fxmr/data/GeneralModel.java
java/src/main/java/au/edu/adelaide/fxmr/data/GeneralModelReader.java
java/src/main/java/au/edu/adelaide/fxmr/data/Subject.java
java/src/main/java/au/edu/adelaide/fxmr/eqoptimiser/EQSolver.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/algebra/CholeskyFactorization.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/algebra/CholeskyMachine.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/algebra/Matrix1NormRescaler.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/algebra/MatrixRescaler.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/functions/QuadraticMultivariateRealFunction.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/functions/SimpleLinearConstraint.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/functions/TwiceDifferentiableMultivariateRealFunction.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/optimizers/JOptimizer.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/optimizers/OptimizationRequest.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/optimizers/OptimizationRequestHandler.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/optimizers/OptimizationResponse.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/optimizers/PrimalDualMethod.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/util/ColtUtils.java
java/src/main/java/au/edu/adelaide/fxmr/joptimizer/util/Utils.java
java/src/main/java/au/edu/adelaide/fxmr/model/Badness.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRIter.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRListener.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRProblem.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRSolution.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRTrial.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRUtil.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxFits.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxFitsGMProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxFitsProblem.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxFitsProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxGMFits.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxGMProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxProblem.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/CMRxTrial.java
java/src/main/java/au/edu/adelaide/fxmr/model/CombinedStatsSTA.java
java/src/main/java/au/edu/adelaide/fxmr/model/Fits.java
java/src/main/java/au/edu/adelaide/fxmr/model/HashableAdjSet.java
java/src/main/java/au/edu/adelaide/fxmr/model/ParCMRxSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/STASolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/ShrinkDiagonal.java
java/src/main/java/au/edu/adelaide/fxmr/model/SolverListener.java
java/src/main/java/au/edu/adelaide/fxmr/model/StatsSTA.java
java/src/main/java/au/edu/adelaide/fxmr/model/TrialCache.java
java/src/main/java/au/edu/adelaide/fxmr/model/VisitedSet.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinBaseProblem.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinCMRFits.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinCMRProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinCMRSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinCMRxFits.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinCMRxSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinMRSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinProblem.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinSolution.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinTrial.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/BinVisitedSet.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/ParBinCMRxSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/bin/ParBinCMRxSolverImpl.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/CatastrophicMRFailure.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRProblem.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRProblemMaker.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRReader.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRSolution.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRSolver.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRSolverAJOptimiser.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRSolverJOptimiserOriginal.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRSolverOJAlgo.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRSolverReverse.java
java/src/main/java/au/edu/adelaide/fxmr/model/mr/MRUtil.java
java/src/main/java/au/edu/adelaide/fxmr/model/ui/StatusFrame.java
java/src/main/java/au/edu/adelaide/fxmr/model/util/MultivariateNormalDistribution.java
java/src/main/java/au/edu/adelaide/fxmr/om/Combinations.java
java/src/main/java/au/edu/adelaide/fxmr/om/CombinatoricsUtils.java
java/src/main/java/au/edu/adelaide/fxmr/om/NegAbsIntArrayComparitor.java
java/src/main/java/au/edu/adelaide/fxmr/om/OMUtil.java
java/src/test/java/au/edu/adelaide/fxmr/data/GeneralModelTests.java
java/src/test/java/au/edu/adelaide/fxmr/eqoptimiser/EqTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/BinCSingleTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/BinSingleTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/BinTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/CMRTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/CMRxTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/ChealTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/Data4DTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/FeasStartTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/FitsTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/JoptimiserTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/KaitlynTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/LynkTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/MRFitsTest.java
java/src/test/java/au/edu/adelaide/fxmr/model/MRTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/MassiveDataTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/PretendMatlabTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/RealDataTests.java
java/src/test/java/au/edu/adelaide/fxmr/model/StatsTests.java
java/src/test/java/au/edu/adelaide/fxmr/om/OMUtilTests.java
man/continuous_cmr.Rd
man/delay.Rd
man/gen2list.Rd
man/staPLOT.Rd
man/sta_stats.Rd
stacmr.Rproj
tests/testthat.R
tests/testthat/test-conjoint_monotonic_regression.R
tests/testthat/test-monotonic_regression.R
tests/testthat/test-only-between-or-within.R
tests/testthat/test-partial_order_specification.R