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Posted to commits@commons.apache.org by tn...@apache.org on 2014/04/29 01:31:23 UTC
svn commit: r5188 - in /dev/commons/math: ./ binaries/ source/
Author: tn
Date: Mon Apr 28 23:31:16 2014
New Revision: 5188
Log:
Creating distribution files for Commons Math 3.3 RC1
Added:
dev/commons/math/RELEASE-NOTES.txt (with props)
dev/commons/math/binaries/commons-math3-3.3-bin.tar.gz (with props)
dev/commons/math/binaries/commons-math3-3.3-bin.tar.gz.asc
dev/commons/math/binaries/commons-math3-3.3-bin.tar.gz.md5
dev/commons/math/binaries/commons-math3-3.3-bin.tar.gz.sha1
dev/commons/math/binaries/commons-math3-3.3-bin.zip (with props)
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dev/commons/math/binaries/commons-math3-3.3-bin.zip.md5
dev/commons/math/binaries/commons-math3-3.3-bin.zip.sha1
dev/commons/math/source/commons-math3-3.3-src.tar.gz (with props)
dev/commons/math/source/commons-math3-3.3-src.tar.gz.asc
dev/commons/math/source/commons-math3-3.3-src.tar.gz.md5
dev/commons/math/source/commons-math3-3.3-src.tar.gz.sha1
dev/commons/math/source/commons-math3-3.3-src.zip (with props)
dev/commons/math/source/commons-math3-3.3-src.zip.asc
dev/commons/math/source/commons-math3-3.3-src.zip.md5
dev/commons/math/source/commons-math3-3.3-src.zip.sha1
Added: dev/commons/math/RELEASE-NOTES.txt
==============================================================================
--- dev/commons/math/RELEASE-NOTES.txt (added)
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+
+ Apache Commons Math 3.3 RELEASE NOTES
+
+The Apache Commons Math team is pleased to announce the release of commons-math3-3.3.
+
+The Apache Commons Math project is a library of lightweight, self-contained mathematics
+and statistics components addressing the most common practical problems not immediately
+available in the Java programming language or commons-lang.
+
+This is a minor release: It combines bug fixes and new features.
+Changes to existing features were made in a backwards-compatible
+way such as to allow drop-in replacement of the v3.x JAR file.
+
+Most notable among the new features are:
+Framework for creating artificial neural nets, self organizing feature maps,
+computational geometry algorithms (convex hull, enclosing ball), performance
+improvements of the linear simplex solver, refactoring of curve fitters,
+low-discrepancy random generators (sobol, halton), least-squares fitting.
+
+The minimum version of the Java platform required to compile and use
+Commons Math is Java 5.
+
+Users are encouraged to upgrade to this version as this release not
+only includes bug fixes but also deprecates numerous classes and
+methods that will be deleted from the next major release (4.0).
+
+
+Caveat:
+ 1. The implementation of the BOBYQA optimization algorithm is in alpha
+ state (cf. MATH-621): Many code paths are untested, and we are looking
+ for volunteers to improve the code readability, robustness and performance
+ and to extend the unit tests suite.
+ 2. A few methods in the FastMath class are in fact slower that their
+ counterpart in either Math or StrictMath (cf. MATH-740 and MATH-901).
+ 3. A few methods/constructors in the package o.a.c.m.geometry.partitioning
+ have changed their signature in a non backwards-compatible way. The respective
+ classes are intended to be package private only and are not supposed to be
+ used for other purposes.
+
+Changes in this version include:
+
+New features:
+o N/A: Added an order 6 fixed-step ODE integrator designed by H. A. Luther in 1968.
+o MATH-1119: Added a fast single-step method for fixed-step Runge-Kutta integrators.
+o MATH-1101: Improved documentation of QR decomposition handling of singular matrices.
+o MATH-1053: QR decomposition can compute pseudo-inverses for tall matrices. Thanks to Sean Owen.
+o MATH-820: Field vectors now implement the visitor pattern just like real vectors.
+o MATH-749: Added MonotoneChain algorithm to compute the convex hull of a collection of
+ points in 2D. Additionally, the AklToussaintHeuristic can be used to speed up the generation.
+o MATH-1095: Added Emo Welzl algorithm to find the smallest enclosing ball of a collection of points.
+o MATH-1072: Added a constructor to "AbstractListChromosome" that does not copy the input argument.
+o MATH-1091: BSP tree now provides an API to compute a global signed distance from
+ a test point to the region. The distance is positive if the point is
+ outside of the region, negative if the point is inside, and zero
+ when the point is at the boundary. The distance is continuous
+ everywhere, so it can be used with a root solver to identify accurately
+ boundary crossings. This API is available for all BSP trees, in
+ Euclidean and spherical geometries, and in all dimensions.
+o MATH-1090: IntervalsSet now implements Iterable<double[]>, so one can iterate
+ over the sub-intervals without building a full list containing a copy of everything beforehand.
+o MATH-923: Utilities for creating artificial neural networks (package "o.a.c.m.ml.neuralnet").
+ Implementation of Kohonen's Self-Organizing Feature Map (SOFM).
+o MATH-1014: Refactoring of curve fitters (package "o.a.c.m.fitting").
+o MATH-970: Added possibility to retrieve the best found solution of the "SimplexSolver" in case
+ the iteration limit has been reached. The "optimize(OptimizationData...)" method now
+ supports a "SolutionCallback" which provides access to the best solution if
+ a feasible solution could be found (phase 2 of the Two-Phase simplex method has been reached).
+o MATH-1061: Added InsufficientDataException.
+o MATH-983: Added a graphical overview of available continuous distributions to the userguide.
+o MATH-1051: Added Kendall's tau correlation (KendallsCorrelation). Thanks to Matt Adereth,devl.
+o MATH-1036: Added SparseGradient to deal efficiently with first derivatives when the number
+ of variables is very large but most computations depend only on a few of the
+ variables. Thanks to Ajo Fod.
+o MATH-1038: Added ConfidenceInterval class and BinomialConfidenceInterval providing several
+ estimators for confidence intervals for binomial probabilities. Thanks to Thorsten Schäfer.
+o MATH-1004: Added new methods to compute the inverse of a matrix to "DiagonalMatrix"
+ and "MatrixUtils". Thanks to Ajo Fod.
+o MATH-1041: "Pair": added factory method and "toString" method. Thanks to Sean Owen.
+o MATH-1002: "AbstractUnivariateStatistic.test(...)" methods have uses outside subclasses;
+ implementation moved to MathArrays.verifyValues(...).
+o MATH-1034: Added exact binomial test implementation. Thanks to Thorsten Schäfer.
+o MATH-1018: Added overloaded constructors for subclasses of "RealDistribution" implementations
+ which do not require an explicit "inverseCumulativeAccuracy". The default accuracy will
+ be used instead. Thanks to Ajo Fod.
+o MATH-1001: Added overloaded methods for "Frequency#incrementValue(Comparable, long)" with
+ int, long and char primitive arguments. Thanks to sebb.
+o MATH-1030: Added a section to the userguide for the new package o.a.c.m.ml with an
+ overview of available clustering algorithms and a code example. Thanks to Thorsten Schäfer.
+o MATH-1028: Added new distance metric "EarthMoversDistance". Thanks to Thorsten Schäfer.
+o MATH-1025: Added CombinatoricsUtils to the util package, moving binomial
+ coefficients, factorials and Stirling numbers there and adding
+ a combinations iterator.
+o MATH-991: "PolynomialSplineFunction": added method "isValidPoint" that
+ checks whether a point is within the interpolation range.
+o MATH-989: "BicubicSplineInterpolatingFunction": added method "isValidPoint" that
+ checks whether a point is within the interpolation range.
+o MATH-1010: Utility to shuffle an array.
+o MATH-1008: Created package ("o.a.c.m.fitting.leastsquares") for least-squares
+ fitting, with implementations of "LevenbergMarquardtOptimizer" and
+ "GaussNewtonOptimizer" adapted to a new ("fluent") API.
+o MATH-1007: Add mode function to StatUtils class.
+o MATH-1000: Add mode function to Frequency class.
+o MATH-997: Implemented Gauss-Hermite quadrature scheme (in package "o.a.c.m.analysis.integration.gauss").
+o MATH-967: Added midpoint integration method. Thanks to Oleksandr Kornieiev.
+o MATH-851: Added method "MathArrays#convolve(double[], double[])" to compute the
+ discrete, linear convolution of two sequences. Thanks to Clemens Novak.
+o MATH-977: Added low-discrepancy random generator "HaltonSequenceGenerator".
+o MATH-826: Added low-discrepancy random generator "SobolSequenceGenerator". Thanks to Sam Halliday.
+o MATH-973: Added "GeometricDistribution" to "o.a.c.m.distribution" package. Thanks to Mauro Tortonesi.
+o MATH-968: Added "ParetoDistribution" to "o.a.c.m.distribution" package. Thanks to Alex Gryzlov.
+o MATH-898: Added "FuzzyKMeansClusterer" to "o.a.c.m.ml.clustering" package.
+
+Fixed Bugs:
+o N/A: Fixed an issue with noisy functions for ODE events detection.
+o MATH-1115: Build properly empty polyhedrons set when given equal min/max boundaries. Also explained
+ better in the javadoc about some wrong usage of PolyhedronsSet constructor.
+o MATH-1117: Build properly empty polygons set when given equal min/max boundaries. Also explained
+ better in the javadoc about some wrong usage of PolygonsSet constructor.
+o MATH-1118: "Complex": Fixed compatibility of "equals(Object)" with "hashCode()".
+ Added new methods for testing floating-point equality between the real
+ (resp. imaginary) parts of two complex numbers.
+o MATH-1107: Prevent penalties to grow multiplicatively in CMAES for out of bounds points. Thanks to Bruce A Johnson.
+o MATH-875: Un-deprecated RealVector.sparseIterator, documenting explicitly that entries
+ not iterated above are the zero ones.
+o MATH-821: Relaxed specification for function mapping on vectors, thus allowing straightforward
+ implementation for sparse vectors.
+o MATH-1065: Calculating the inverse cumulative probability of an "EnumeratedRealDistribution"
+ will now return the correct result according to the selected enumerated probability
+ mass function. Thanks to matteodg.
+o MATH-976: Create additional artifact "commons-math3-x.y.z-tools.jar" as part of the
+ release process. This artifact contains useful tools, e.g. for performance testing.
+o MATH-990: Improved performance of "MathArrays#sortInPlace(...)".
+o MATH-1044: Clarify javadoc of "DecompositionSolver#getInverse()" and corresponding implementations
+ wrt the actually returned inverse. Several decomposition implementations are able
+ to return a pseudo-inverse in case of a singular matrix. Thanks to Sean Owen.
+o MATH-985: Fixed an indexing problem in "BicubicSplineInterpolatingFunction" which
+ resulted in wrong interpolations. Thanks to Johnathan Kool.
+o MATH-1089: "Precision#round(double, ...)" will now return negative zero for negative
+ values rounded to zero, similar to the float variant.
+o MATH-1088: The iterator returned by "MultiDimensionalCounter#iterator()" will now
+ correctly throw a "NoSuchElementException" when calling "next()" and the iterator is already exhausted.
+o MATH-1082: The cutOff mechanism of the "SimplexSolver" in package o.a.c.math3.optim.linear
+ could lead to invalid solutions. The mechanism has been improved in a way that
+ the tableau does not need to be updated anymore. Additionally, a new check will
+ prevent impossible solutions to be returned as valid.
+o MATH-1079: Improved performance of "SimplexSolver" in package o.a.c.math3.optim.linear by
+ directly performing row operations and keeping track of the current basic variables.
+o MATH-842: Added support for different pivot selection rules to the "SimplexSolver" by introducing
+ the new "OptimizationData" class "PivotSelectionRule". Currently supported rules are:
+ Dantzig (default) and Bland (avoids cycles).
+o MATH-1070: Fix "Precision#round(float, int, int)" when using rounding mode "BigDecimal.ROUND_UP"
+ and the discarded fraction is zero. Thanks to Oleksandr Muliarevych.
+o MATH-1059: Use "FastMath" instead of "Math" within Commons Math.
+o MATH-1068: Avoid overflow when calculating Kendall's correlation for large arrays. Thanks to Gal Lalouche.
+o MATH-1067: Avoid infinite recursion in "Beta.regularizedBeta" (package "o.a.c.m.special"). Thanks to Florian Erhard.
+o MATH-1056: Fixed unintended integer division error in PoissonDistribution sampling method. Thanks to Sean Owen.
+o MATH-1057: Fixed failing unit tests for "BOBYQAOptimizer" when executed with a Oracle/Sun JVM 1.5.
+o MATH-1062: A call to "KalmanFilter#correct(...)" may have resulted in "NonSymmetricMatrixException"
+ as the internally used matrix inversion method was using a too strict symmetry check.
+o MATH-1058: Precision improvements (for small values of the argument) in "Beta" function
+ and in "LogNormalDistribution" and "WeibullDistribution". Thanks to Sean Owen.
+o MATH-1055: Fixed some invalid links inside javadoc and added missing deprecated annotations. Thanks to Sean Owen.
+o MATH-1051: "EigenDecomposition" may have failed to compute the decomposition for certain
+ non-symmetric matrices. Port of the respective bugfix in Jama-1.0.3.
+o MATH-1047: Check for overflow in methods "pow" (class "o.a.c.m.util.ArithmeticUtils").
+o MATH-1045: "EigenDecomposition": Using tolerance for detecting whether a matrix is singular. Thanks to Sean Owen.
+o MATH-1035: Simplified and improved performance of "ArithmeticUtils#addAndCheck(long, long)". Thanks to derphead.
+o MATH-1029: The "BigFraction" constructor will throw a "FractionConversionException"
+ also in case negative values are provided which exceed the allowed range (+/- Integer.MAX_VALUE).
+o MATH-1033: The "KalmanFilter" wrongly enforced a column dimension of 1 for
+ the provided control and measurement noise matrix. Thanks to Yuan Qu.
+o MATH-1037: Fix a typo in the test class of "GeometricDistribution" and ensure that a meaningful
+ tolerance value is used when comparing test results with expected values. Thanks to Aleksei Dievskii.
+o MATH-996: Creating a "Fraction" or "BigFraction" object with a maxDenominator parameter
+ does not throw a "FractionConversionException" anymore in case the value is
+ very close to fraction. Thanks to Tim Allison.
+o MATH-999: Improve performance of "DiagonalMatrix#preMultiply(RealVector)". Thanks to Ajo Fod.
+o MATH-1021: Fixed overflow in "HypergeometricDistribution". Thanks to Brian Bloniarz.
+o MATH-1020: Fixed "nextPermutation" method (in "o.a.c.m.random.RandomDataGenerator").
+ This bug does not affect applications using a previous version of Commons Math.
+o MATH-1019: Buggy (private) method "shuffle" in "o.a.c.m.random.RandomDataGenerator"
+ superseded by "MathArrays.shuffle" (cf. MATH-1010).
+o MATH-1012: Created "RandomGeneratorFactory" (package "o.a.c.m.random") to reduce
+ code duplication in "RandomDataGenerator".
+o MATH-1005: Fixed "MathArrays.linearCombination" when array length is 1. Thanks to Roman Werpachowski.
+o MATH-993: In "GaussNewtonOptimizer", check for convergence before updating the
+ parameters estimation for the next iteration.
+o MATH-988: Fixed NullPointerException in 2D and 3D sub-line intersections. Thanks to Andreas Huber.
+o MATH-962: Added clarification to the javadoc of "VectorFormat" and derived classes
+ in case "," is used as a separator.
+o MATH-965: Fixed inconsistent dimensions preventing use of secondary states in ODE events.
+
+Changes:
+o N/A: Bracketing utility for univariate root solvers returns a tighter interval than before.
+ It also allows choosing the search interval expansion rate, supporting both linear
+ and asymptotically exponential rates.
+o MATH-437: Added KolmogorovSmirnovTest class, deprecating KolmogorovSmirnovDistribution.
+o MATH-1099: Make QR the default in GaussNewtonOptimizer. Thanks to Evan Ward.
+o MATH-1099: Add Cholesky option to GaussNewtonOptimizer. Thanks to Evan Ward.
+o MATH-1099: Make QR in GaussNewton faster and more accurate. Thanks to Evan Ward.
+o MATH-870: The sparse vector and matrix classes have been un-deprecated. This is a reversal
+ of a former decision, as we now think we should adopt a generally accepted
+ behavior which is ... to ignore the problems of NaNs and infinities in
+ sparse linear algebra entities.
+o MATH-1050: Deprecated "ArithmeticUtils#pow(int, long)" and "ArithmeticUtils#pow(long, long)"
+ in favor of corresponding methods "ArithmeticUtils#pow(..., int)".
+o MATH-1080: The "LinearConstraintSet" will now return the enclosed collection of "LinearConstraint"
+ objects in the same order as they have been added.
+o MATH-1031: Added new class "ClusterEvaluator" to evaluate the result of a clustering algorithm
+ and refactored existing evaluation code in "MultiKMeansPlusPlusClusterer"
+ into separate class "SumOfClusterVariances". Thanks to Thorsten Schäfer.
+o MATH-1039: Added logDensity methods to AbstractReal/IntegerDistribution with naive default
+ implementations and improved implementations for some current distributions. Thanks to Aleksei Dievskii.
+o MATH-1011: Improved implementation of "sample" method of "UniformIntegerDistribution".
+o MATH-1006: Enabled LaTeX expressions in javadoc and site docs via MathJax.
+o MATH-995: Documented limitation of "IterativeLegendreGaussIntegrator" (added warning about potential wrong usage).
+o MATH-987: Added append method to SimpleRegression, making this class map/reducible. Thanks to Ajo Fod.
+o MATH-978: Added append method to StorelessCovariance, making this class map/reducible. Thanks to Ajo Fod.
+
+
+For complete information on Apache Commons Math, including instructions on how to submit bug reports,
+patches, or suggestions for improvement, see the Apache Apache Commons Math website:
+
+http://commons.apache.org/proper/commons-math/
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Re: svn commit: r5188 - in /dev/commons/math: ./ binaries/ source/
Posted by Thomas Neidhart <th...@gmail.com>.
On 04/29/2014 08:12 AM, Dennis Hendriks wrote:
>> [...] see the Apache Apache Commons Math website:
>
> I think 'Apache Apache' should be 'Apache', at the end of the changelog?
Hi Dennis,
ah, I missed this one. It looks like the component name has changed
since the last release and some templates have not been adjusted yet.
I guess it is not really a problem, but will update it if we really need
a RC2.
Thomas
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Re: svn commit: r5188 - in /dev/commons/math: ./ binaries/ source/
Posted by Dennis Hendriks <D....@tue.nl>.
> [...] see the Apache Apache Commons Math website:
I think 'Apache Apache' should be 'Apache', at the end of the changelog?
Best regards,
Dennis
On 04/29/2014 01:31 AM, tn@apache.org wrote:
> Author: tn
> Date: Mon Apr 28 23:31:16 2014
> New Revision: 5188
>
> Log:
> Creating distribution files for Commons Math 3.3 RC1
>
> Added:
> dev/commons/math/RELEASE-NOTES.txt (with props)
> dev/commons/math/binaries/commons-math3-3.3-bin.tar.gz (with props)
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> dev/commons/math/source/commons-math3-3.3-src.zip.md5
> dev/commons/math/source/commons-math3-3.3-src.zip.sha1
>
> Added: dev/commons/math/RELEASE-NOTES.txt
> ==============================================================================
> --- dev/commons/math/RELEASE-NOTES.txt (added)
> +++ dev/commons/math/RELEASE-NOTES.txt Mon Apr 28 23:31:16 2014
> @@ -0,0 +1,224 @@
> +
> + Apache Commons Math 3.3 RELEASE NOTES
> +
> +The Apache Commons Math team is pleased to announce the release of commons-math3-3.3.
> +
> +The Apache Commons Math project is a library of lightweight, self-contained mathematics
> +and statistics components addressing the most common practical problems not immediately
> +available in the Java programming language or commons-lang.
> +
> +This is a minor release: It combines bug fixes and new features.
> +Changes to existing features were made in a backwards-compatible
> +way such as to allow drop-in replacement of the v3.x JAR file.
> +
> +Most notable among the new features are:
> +Framework for creating artificial neural nets, self organizing feature maps,
> +computational geometry algorithms (convex hull, enclosing ball), performance
> +improvements of the linear simplex solver, refactoring of curve fitters,
> +low-discrepancy random generators (sobol, halton), least-squares fitting.
> +
> +The minimum version of the Java platform required to compile and use
> +Commons Math is Java 5.
> +
> +Users are encouraged to upgrade to this version as this release not
> +only includes bug fixes but also deprecates numerous classes and
> +methods that will be deleted from the next major release (4.0).
> +
> +
> +Caveat:
> + 1. The implementation of the BOBYQA optimization algorithm is in alpha
> + state (cf. MATH-621): Many code paths are untested, and we are looking
> + for volunteers to improve the code readability, robustness and performance
> + and to extend the unit tests suite.
> + 2. A few methods in the FastMath class are in fact slower that their
> + counterpart in either Math or StrictMath (cf. MATH-740 and MATH-901).
> + 3. A few methods/constructors in the package o.a.c.m.geometry.partitioning
> + have changed their signature in a non backwards-compatible way. The respective
> + classes are intended to be package private only and are not supposed to be
> + used for other purposes.
> +
> +Changes in this version include:
> +
> +New features:
> +o N/A: Added an order 6 fixed-step ODE integrator designed by H. A. Luther in 1968.
> +o MATH-1119: Added a fast single-step method for fixed-step Runge-Kutta integrators.
> +o MATH-1101: Improved documentation of QR decomposition handling of singular matrices.
> +o MATH-1053: QR decomposition can compute pseudo-inverses for tall matrices. Thanks to Sean Owen.
> +o MATH-820: Field vectors now implement the visitor pattern just like real vectors.
> +o MATH-749: Added MonotoneChain algorithm to compute the convex hull of a collection of
> + points in 2D. Additionally, the AklToussaintHeuristic can be used to speed up the generation.
> +o MATH-1095: Added Emo Welzl algorithm to find the smallest enclosing ball of a collection of points.
> +o MATH-1072: Added a constructor to "AbstractListChromosome" that does not copy the input argument.
> +o MATH-1091: BSP tree now provides an API to compute a global signed distance from
> + a test point to the region. The distance is positive if the point is
> + outside of the region, negative if the point is inside, and zero
> + when the point is at the boundary. The distance is continuous
> + everywhere, so it can be used with a root solver to identify accurately
> + boundary crossings. This API is available for all BSP trees, in
> + Euclidean and spherical geometries, and in all dimensions.
> +o MATH-1090: IntervalsSet now implements Iterable<double[]>, so one can iterate
> + over the sub-intervals without building a full list containing a copy of everything beforehand.
> +o MATH-923: Utilities for creating artificial neural networks (package "o.a.c.m.ml.neuralnet").
> + Implementation of Kohonen's Self-Organizing Feature Map (SOFM).
> +o MATH-1014: Refactoring of curve fitters (package "o.a.c.m.fitting").
> +o MATH-970: Added possibility to retrieve the best found solution of the "SimplexSolver" in case
> + the iteration limit has been reached. The "optimize(OptimizationData...)" method now
> + supports a "SolutionCallback" which provides access to the best solution if
> + a feasible solution could be found (phase 2 of the Two-Phase simplex method has been reached).
> +o MATH-1061: Added InsufficientDataException.
> +o MATH-983: Added a graphical overview of available continuous distributions to the userguide.
> +o MATH-1051: Added Kendall's tau correlation (KendallsCorrelation). Thanks to Matt Adereth,devl.
> +o MATH-1036: Added SparseGradient to deal efficiently with first derivatives when the number
> + of variables is very large but most computations depend only on a few of the
> + variables. Thanks to Ajo Fod.
> +o MATH-1038: Added ConfidenceInterval class and BinomialConfidenceInterval providing several
> + estimators for confidence intervals for binomial probabilities. Thanks to Thorsten Schäfer.
> +o MATH-1004: Added new methods to compute the inverse of a matrix to "DiagonalMatrix"
> + and "MatrixUtils". Thanks to Ajo Fod.
> +o MATH-1041: "Pair": added factory method and "toString" method. Thanks to Sean Owen.
> +o MATH-1002: "AbstractUnivariateStatistic.test(...)" methods have uses outside subclasses;
> + implementation moved to MathArrays.verifyValues(...).
> +o MATH-1034: Added exact binomial test implementation. Thanks to Thorsten Schäfer.
> +o MATH-1018: Added overloaded constructors for subclasses of "RealDistribution" implementations
> + which do not require an explicit "inverseCumulativeAccuracy". The default accuracy will
> + be used instead. Thanks to Ajo Fod.
> +o MATH-1001: Added overloaded methods for "Frequency#incrementValue(Comparable, long)" with
> + int, long and char primitive arguments. Thanks to sebb.
> +o MATH-1030: Added a section to the userguide for the new package o.a.c.m.ml with an
> + overview of available clustering algorithms and a code example. Thanks to Thorsten Schäfer.
> +o MATH-1028: Added new distance metric "EarthMoversDistance". Thanks to Thorsten Schäfer.
> +o MATH-1025: Added CombinatoricsUtils to the util package, moving binomial
> + coefficients, factorials and Stirling numbers there and adding
> + a combinations iterator.
> +o MATH-991: "PolynomialSplineFunction": added method "isValidPoint" that
> + checks whether a point is within the interpolation range.
> +o MATH-989: "BicubicSplineInterpolatingFunction": added method "isValidPoint" that
> + checks whether a point is within the interpolation range.
> +o MATH-1010: Utility to shuffle an array.
> +o MATH-1008: Created package ("o.a.c.m.fitting.leastsquares") for least-squares
> + fitting, with implementations of "LevenbergMarquardtOptimizer" and
> + "GaussNewtonOptimizer" adapted to a new ("fluent") API.
> +o MATH-1007: Add mode function to StatUtils class.
> +o MATH-1000: Add mode function to Frequency class.
> +o MATH-997: Implemented Gauss-Hermite quadrature scheme (in package "o.a.c.m.analysis.integration.gauss").
> +o MATH-967: Added midpoint integration method. Thanks to Oleksandr Kornieiev.
> +o MATH-851: Added method "MathArrays#convolve(double[], double[])" to compute the
> + discrete, linear convolution of two sequences. Thanks to Clemens Novak.
> +o MATH-977: Added low-discrepancy random generator "HaltonSequenceGenerator".
> +o MATH-826: Added low-discrepancy random generator "SobolSequenceGenerator". Thanks to Sam Halliday.
> +o MATH-973: Added "GeometricDistribution" to "o.a.c.m.distribution" package. Thanks to Mauro Tortonesi.
> +o MATH-968: Added "ParetoDistribution" to "o.a.c.m.distribution" package. Thanks to Alex Gryzlov.
> +o MATH-898: Added "FuzzyKMeansClusterer" to "o.a.c.m.ml.clustering" package.
> +
> +Fixed Bugs:
> +o N/A: Fixed an issue with noisy functions for ODE events detection.
> +o MATH-1115: Build properly empty polyhedrons set when given equal min/max boundaries. Also explained
> + better in the javadoc about some wrong usage of PolyhedronsSet constructor.
> +o MATH-1117: Build properly empty polygons set when given equal min/max boundaries. Also explained
> + better in the javadoc about some wrong usage of PolygonsSet constructor.
> +o MATH-1118: "Complex": Fixed compatibility of "equals(Object)" with "hashCode()".
> + Added new methods for testing floating-point equality between the real
> + (resp. imaginary) parts of two complex numbers.
> +o MATH-1107: Prevent penalties to grow multiplicatively in CMAES for out of bounds points. Thanks to Bruce A Johnson.
> +o MATH-875: Un-deprecated RealVector.sparseIterator, documenting explicitly that entries
> + not iterated above are the zero ones.
> +o MATH-821: Relaxed specification for function mapping on vectors, thus allowing straightforward
> + implementation for sparse vectors.
> +o MATH-1065: Calculating the inverse cumulative probability of an "EnumeratedRealDistribution"
> + will now return the correct result according to the selected enumerated probability
> + mass function. Thanks to matteodg.
> +o MATH-976: Create additional artifact "commons-math3-x.y.z-tools.jar" as part of the
> + release process. This artifact contains useful tools, e.g. for performance testing.
> +o MATH-990: Improved performance of "MathArrays#sortInPlace(...)".
> +o MATH-1044: Clarify javadoc of "DecompositionSolver#getInverse()" and corresponding implementations
> + wrt the actually returned inverse. Several decomposition implementations are able
> + to return a pseudo-inverse in case of a singular matrix. Thanks to Sean Owen.
> +o MATH-985: Fixed an indexing problem in "BicubicSplineInterpolatingFunction" which
> + resulted in wrong interpolations. Thanks to Johnathan Kool.
> +o MATH-1089: "Precision#round(double, ...)" will now return negative zero for negative
> + values rounded to zero, similar to the float variant.
> +o MATH-1088: The iterator returned by "MultiDimensionalCounter#iterator()" will now
> + correctly throw a "NoSuchElementException" when calling "next()" and the iterator is already exhausted.
> +o MATH-1082: The cutOff mechanism of the "SimplexSolver" in package o.a.c.math3.optim.linear
> + could lead to invalid solutions. The mechanism has been improved in a way that
> + the tableau does not need to be updated anymore. Additionally, a new check will
> + prevent impossible solutions to be returned as valid.
> +o MATH-1079: Improved performance of "SimplexSolver" in package o.a.c.math3.optim.linear by
> + directly performing row operations and keeping track of the current basic variables.
> +o MATH-842: Added support for different pivot selection rules to the "SimplexSolver" by introducing
> + the new "OptimizationData" class "PivotSelectionRule". Currently supported rules are:
> + Dantzig (default) and Bland (avoids cycles).
> +o MATH-1070: Fix "Precision#round(float, int, int)" when using rounding mode "BigDecimal.ROUND_UP"
> + and the discarded fraction is zero. Thanks to Oleksandr Muliarevych.
> +o MATH-1059: Use "FastMath" instead of "Math" within Commons Math.
> +o MATH-1068: Avoid overflow when calculating Kendall's correlation for large arrays. Thanks to Gal Lalouche.
> +o MATH-1067: Avoid infinite recursion in "Beta.regularizedBeta" (package "o.a.c.m.special"). Thanks to Florian Erhard.
> +o MATH-1056: Fixed unintended integer division error in PoissonDistribution sampling method. Thanks to Sean Owen.
> +o MATH-1057: Fixed failing unit tests for "BOBYQAOptimizer" when executed with a Oracle/Sun JVM 1.5.
> +o MATH-1062: A call to "KalmanFilter#correct(...)" may have resulted in "NonSymmetricMatrixException"
> + as the internally used matrix inversion method was using a too strict symmetry check.
> +o MATH-1058: Precision improvements (for small values of the argument) in "Beta" function
> + and in "LogNormalDistribution" and "WeibullDistribution". Thanks to Sean Owen.
> +o MATH-1055: Fixed some invalid links inside javadoc and added missing deprecated annotations. Thanks to Sean Owen.
> +o MATH-1051: "EigenDecomposition" may have failed to compute the decomposition for certain
> + non-symmetric matrices. Port of the respective bugfix in Jama-1.0.3.
> +o MATH-1047: Check for overflow in methods "pow" (class "o.a.c.m.util.ArithmeticUtils").
> +o MATH-1045: "EigenDecomposition": Using tolerance for detecting whether a matrix is singular. Thanks to Sean Owen.
> +o MATH-1035: Simplified and improved performance of "ArithmeticUtils#addAndCheck(long, long)". Thanks to derphead.
> +o MATH-1029: The "BigFraction" constructor will throw a "FractionConversionException"
> + also in case negative values are provided which exceed the allowed range (+/- Integer.MAX_VALUE).
> +o MATH-1033: The "KalmanFilter" wrongly enforced a column dimension of 1 for
> + the provided control and measurement noise matrix. Thanks to Yuan Qu.
> +o MATH-1037: Fix a typo in the test class of "GeometricDistribution" and ensure that a meaningful
> + tolerance value is used when comparing test results with expected values. Thanks to Aleksei Dievskii.
> +o MATH-996: Creating a "Fraction" or "BigFraction" object with a maxDenominator parameter
> + does not throw a "FractionConversionException" anymore in case the value is
> + very close to fraction. Thanks to Tim Allison.
> +o MATH-999: Improve performance of "DiagonalMatrix#preMultiply(RealVector)". Thanks to Ajo Fod.
> +o MATH-1021: Fixed overflow in "HypergeometricDistribution". Thanks to Brian Bloniarz.
> +o MATH-1020: Fixed "nextPermutation" method (in "o.a.c.m.random.RandomDataGenerator").
> + This bug does not affect applications using a previous version of Commons Math.
> +o MATH-1019: Buggy (private) method "shuffle" in "o.a.c.m.random.RandomDataGenerator"
> + superseded by "MathArrays.shuffle" (cf. MATH-1010).
> +o MATH-1012: Created "RandomGeneratorFactory" (package "o.a.c.m.random") to reduce
> + code duplication in "RandomDataGenerator".
> +o MATH-1005: Fixed "MathArrays.linearCombination" when array length is 1. Thanks to Roman Werpachowski.
> +o MATH-993: In "GaussNewtonOptimizer", check for convergence before updating the
> + parameters estimation for the next iteration.
> +o MATH-988: Fixed NullPointerException in 2D and 3D sub-line intersections. Thanks to Andreas Huber.
> +o MATH-962: Added clarification to the javadoc of "VectorFormat" and derived classes
> + in case "," is used as a separator.
> +o MATH-965: Fixed inconsistent dimensions preventing use of secondary states in ODE events.
> +
> +Changes:
> +o N/A: Bracketing utility for univariate root solvers returns a tighter interval than before.
> + It also allows choosing the search interval expansion rate, supporting both linear
> + and asymptotically exponential rates.
> +o MATH-437: Added KolmogorovSmirnovTest class, deprecating KolmogorovSmirnovDistribution.
> +o MATH-1099: Make QR the default in GaussNewtonOptimizer. Thanks to Evan Ward.
> +o MATH-1099: Add Cholesky option to GaussNewtonOptimizer. Thanks to Evan Ward.
> +o MATH-1099: Make QR in GaussNewton faster and more accurate. Thanks to Evan Ward.
> +o MATH-870: The sparse vector and matrix classes have been un-deprecated. This is a reversal
> + of a former decision, as we now think we should adopt a generally accepted
> + behavior which is ... to ignore the problems of NaNs and infinities in
> + sparse linear algebra entities.
> +o MATH-1050: Deprecated "ArithmeticUtils#pow(int, long)" and "ArithmeticUtils#pow(long, long)"
> + in favor of corresponding methods "ArithmeticUtils#pow(..., int)".
> +o MATH-1080: The "LinearConstraintSet" will now return the enclosed collection of "LinearConstraint"
> + objects in the same order as they have been added.
> +o MATH-1031: Added new class "ClusterEvaluator" to evaluate the result of a clustering algorithm
> + and refactored existing evaluation code in "MultiKMeansPlusPlusClusterer"
> + into separate class "SumOfClusterVariances". Thanks to Thorsten Schäfer.
> +o MATH-1039: Added logDensity methods to AbstractReal/IntegerDistribution with naive default
> + implementations and improved implementations for some current distributions. Thanks to Aleksei Dievskii.
> +o MATH-1011: Improved implementation of "sample" method of "UniformIntegerDistribution".
> +o MATH-1006: Enabled LaTeX expressions in javadoc and site docs via MathJax.
> +o MATH-995: Documented limitation of "IterativeLegendreGaussIntegrator" (added warning about potential wrong usage).
> +o MATH-987: Added append method to SimpleRegression, making this class map/reducible. Thanks to Ajo Fod.
> +o MATH-978: Added append method to StorelessCovariance, making this class map/reducible. Thanks to Ajo Fod.
> +
> +
> +For complete information on Apache Commons Math, including instructions on how to submit bug reports,
> +patches, or suggestions for improvement, see the Apache Apache Commons Math website:
> +
> +http://commons.apache.org/proper/commons-math/
>
> Propchange: dev/commons/math/RELEASE-NOTES.txt
> ------------------------------------------------------------------------------
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>
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> +++ dev/commons/math/binaries/commons-math3-3.3-bin.tar.gz.asc Mon Apr 28 23:31:16 2014
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