Commit Graph

4280 Commits

Author SHA1 Message Date
Phil Steitz 99155e564c Muted pmd for empty catch blocks.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422350 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 20:47:47 +00:00
Phil Steitz 0d31f27386 Made default file encoding explicit (FindBugs).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422338 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 20:05:51 +00:00
Phil Steitz 623963275a Javadoc formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422337 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 20:04:47 +00:00
Phil Steitz 7d61c9ada9 Added sync to compute method.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422321 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 19:24:04 +00:00
Phil Steitz 1a77fde3cd Added missing @since tags.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422313 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 18:53:41 +00:00
Luc Maisonobe 7fc64f6dcb Added documentation for differentiation in user guide.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422251 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 14:20:12 +00:00
Gilles Sadowski 0017c17836 MATH-874
Javadoc (deprecation tag).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422230 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 12:11:13 +00:00
Gilles Sadowski d868dbf47d MATH-874
Added "@Deprecated" annotation.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422223 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 11:32:35 +00:00
Luc Maisonobe 389aa0081a Fixed a missing element in the solvers table (user-guide).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422214 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 10:23:18 +00:00
Phil Steitz 23400334ee Added missing @since tags.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422195 13f79535-47bb-0310-9956-ffa450edef68
2012-12-15 06:45:18 +00:00
Gilles Sadowski f235e1c1d0 Replaced deprecated "RandomDataImpl" with "RandomDataGenerator".
Added private constructor.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422123 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 22:12:34 +00:00
Gilles Sadowski 1f7c434521 Deprecation.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1422107 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 21:47:21 +00:00
Phil Steitz 2f33283981 Reverted incompatible changes made in r1420006.
Fixed javadoc error in EmpiricalDistribution class javadoc.
Deprecated constructors taking RandomDataImpl instances in EmpiricalDistribution, ValueServer.  These constructors predate RandomGenerator, which should be used directly as the source of random data for these classes.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421968 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 16:28:23 +00:00
Luc Maisonobe 610b5d26c9 Fixed PMD warnings.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421949 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 15:53:32 +00:00
Gilles Sadowski 2bdc9d4548 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421917 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 15:05:18 +00:00
Gilles Sadowski 6f806cfe41 MATH-916
Restore backwards-compatibility (for release 3.1).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421911 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 14:59:44 +00:00
Gilles Sadowski 29a297de44 MATH-915
Restore backwards-compatibility (for release 3.1).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421910 13f79535-47bb-0310-9956-ffa450edef68
2012-12-14 14:57:56 +00:00
Thomas Neidhart 7521e5af34 Fix PMD warnings by suppressing or removing unused imports.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421448 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 19:45:57 +00:00
Gilles Sadowski 96f6fd10b6 Removed inconsistent null checks (reported by FindBugs).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421290 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 13:39:04 +00:00
Gilles Sadowski 77910da210 MATH-914
Markers to indicate the bug location.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421287 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 13:29:56 +00:00
Gilles Sadowski 3f7e2e38ce Unused argument (found by PMD).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421280 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 13:07:57 +00:00
Gilles Sadowski 28c30e9190 Unused argument (found by PMD).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421263 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 12:47:07 +00:00
Gilles Sadowski 931e594d11 Removed unneeded "import" statements.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421260 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 12:41:54 +00:00
Gilles Sadowski f25ba664ed Fixed bug found by PMD.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421249 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 12:32:03 +00:00
Gilles Sadowski 4a75bce80e MATH-874
Moved "GoalType" and "ObjectiveFunction" to package
"o.a.c.m.optim.nonlinear.scalar".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1421054 13f79535-47bb-0310-9956-ffa450edef68
2012-12-13 00:54:05 +00:00
Gilles Sadowski 889c2d9e19 MATH-874
Data files needed by some unit tests.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420762 13f79535-47bb-0310-9956-ffa450edef68
2012-12-12 15:27:35 +00:00
Gilles Sadowski 4a007942c4 Fixed wrong position of package description.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420705 13f79535-47bb-0310-9956-ffa450edef68
2012-12-12 14:35:37 +00:00
Gilles Sadowski 5968be0da0 MATH-874
Update "changes.xml".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420693 13f79535-47bb-0310-9956-ffa450edef68
2012-12-12 14:18:22 +00:00
Gilles Sadowski 7ee7843ffe MATH-874
Refactored of the contents of package "o.a.c.m.optimization"
into the new "o.a.c.m.optim" and "o.a.c.m.fitting" packages.
* All deprecated classes/fields/methods have been removed in the
  replacement packages.
* Simplified API: a single "optimize(OptimizationData... data)"
  for all optimizer types.
* Simplified class hierarchy, merged interfaces and abstract
  classes, only base classes are generic.
* The new classes do not use the "DerivativeStructure" type.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420684 13f79535-47bb-0310-9956-ffa450edef68
2012-12-12 14:10:38 +00:00
Gilles Sadowski 63623c9236 Fixed "Clirr" error.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420669 13f79535-47bb-0310-9956-ffa450edef68
2012-12-12 13:40:35 +00:00
Gilles Sadowski c5bb8dcf03 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420666 13f79535-47bb-0310-9956-ffa450edef68
2012-12-12 13:33:20 +00:00
Phil Steitz 6c048df147 Fixed javadoc error, replaced depreacated class.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420006 13f79535-47bb-0310-9956-ffa450edef68
2012-12-11 06:10:08 +00:00
Phil Steitz 905aaf4567 Added RealDistribution methods to EmpiricalDistribution. JIRA: MATH-672.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1420000 13f79535-47bb-0310-9956-ffa450edef68
2012-12-11 05:36:06 +00:00
Sebastien Brisard 95fc482c33 Javadoc: warning about private methods being accessed through reflection in
unit tests.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1416796 13f79535-47bb-0310-9956-ffa450edef68
2012-12-04 06:41:57 +00:00
Luc Maisonobe 8f98daf191 Added lower and upper boundaries to finite differences.
When a function is defined only on an interval, finite differences
should not attempt to compute sample points outside this interval. This
case is now detected properly and the sample is shifted if needed. This
may result in some loss of accuracy as the formula is not centered
anymore, but at least we should not get catastrophic errors or
exceptions.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1416249 13f79535-47bb-0310-9956-ffa450edef68
2012-12-02 20:23:49 +00:00
Thomas Neidhart 0fde6532f1 Removed unused variables.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1416204 13f79535-47bb-0310-9956-ffa450edef68
2012-12-02 17:43:39 +00:00
Sebastien Brisard ce2502a522 Replaced calls to deprecated Beta.logBeta(double, double, double, int) with
calls to Beta.logBeta(double, double).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1416017 13f79535-47bb-0310-9956-ffa450edef68
2012-12-01 16:24:33 +00:00
Sebastien Brisard 141f4b8163 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1416010 13f79535-47bb-0310-9956-ffa450edef68
2012-12-01 16:08:12 +00:00
Sebastien Brisard 492f3de982 Description of upcoming version 3.1 now reports that the accuracy of Beta has
been improved.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415973 13f79535-47bb-0310-9956-ffa450edef68
2012-12-01 10:36:26 +00:00
Sebastien Brisard efe3c99df1 In the users guide, updated the accuracy of logBeta.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415971 13f79535-47bb-0310-9956-ffa450edef68
2012-12-01 10:32:30 +00:00
Gilles Sadowski de04366617 MATH-874
Deprecation.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415872 13f79535-47bb-0310-9956-ffa450edef68
2012-11-30 22:17:07 +00:00
Sebastien Brisard f64b6a906b MATH-738: New implementation of Beta.logBeta(double, double), based on the NSWC
library of mathematical functions.
  - increased accuracy
  - deprecation of Beta.logBeta(double, double, double, int) as the new
    implementation is no longer iterative.
  - some private methods are tested through reflection.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415853 13f79535-47bb-0310-9956-ffa450edef68
2012-11-30 21:02:23 +00:00
Gilles Sadowski 949ba2c539 MATH-874
Deprecation.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415454 13f79535-47bb-0310-9956-ffa450edef68
2012-11-29 23:26:00 +00:00
Gilles Sadowski ebae96965e Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415158 13f79535-47bb-0310-9956-ffa450edef68
2012-11-29 13:27:10 +00:00
Gilles Sadowski 2855cc309e Annotation.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415149 13f79535-47bb-0310-9956-ffa450edef68
2012-11-29 13:12:55 +00:00
Gilles Sadowski 4333489f68 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1415000 13f79535-47bb-0310-9956-ffa450edef68
2012-11-29 00:00:51 +00:00
Gilles Sadowski d7f652b816 MATH-897
Updated "changes.xml".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414848 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 18:13:32 +00:00
Sebastien Brisard 647b3b4dde Checkstyle: removed exception from signature, as this exception will never be raised.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414536 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:51:27 +00:00
Sebastien Brisard 6d9e72505e Checkstyle.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414535 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:48:50 +00:00
Sebastien Brisard a869a06efa In GammaTest: restored method checkRelativeError which was inadvertently removed in r1414527.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414531 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:39:39 +00:00
Sebastien Brisard 87d61c2a51 In changes.xml: Beta has not been changed yet.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414529 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:33:36 +00:00
Sebastien Brisard c080fd3c18 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414528 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:30:38 +00:00
Sebastien Brisard c1a2c4081c In class Gamma, removed auxiliary functions logGammaSum and
logGammaMinusLogGammaSum, as they are not ready to be included in version 3.1
of Commons-Math.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414527 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:27:27 +00:00
Sebastien Brisard 2fde62aff6 In class Beta, removed auxiliary function bcorr, as it is not ready to be
included in version 3.1 of Commons-Math.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414525 13f79535-47bb-0310-9956-ffa450edef68
2012-11-28 05:24:12 +00:00
Gilles Sadowski 2786244d09 Contents for the release notes.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414470 13f79535-47bb-0310-9956-ffa450edef68
2012-11-27 23:43:06 +00:00
Gilles Sadowski d580fb2ca8 MATH-895
Replaced deprecated method with alternative from "MathArrays".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414441 13f79535-47bb-0310-9956-ffa450edef68
2012-11-27 22:27:17 +00:00
Gilles Sadowski bc69c0088d MATH-910
Element-by-element basic operations on arrays.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1414435 13f79535-47bb-0310-9956-ffa450edef68
2012-11-27 22:19:36 +00:00
Gilles Sadowski 6844aba987 MATH-904.
Fixed wrong assumption in "pow" method.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413916 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 23:02:29 +00:00
Sebastien Brisard 4673043763 In classes o.a.c.m3.special.Gamma and o.a.c.m3.special.Beta, made some
auxiliary functions package private. It is very unlikely that these functions
should be used outside this package, and if necessary, it will always be
possible to increase their visibility (while the reverse would break
compatibility).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413807 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 19:55:07 +00:00
Sebastien Brisard fec7740958 MATH-849: Gamma.gamma(double) returns NaN if called on negative integer.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413802 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 19:45:52 +00:00
Gilles Sadowski f348a29e5f MATH-902
Update "changes.xml".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413695 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 16:01:55 +00:00
Gilles Sadowski dfc6a5c215 MATH-905
Update "changes.xml".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413604 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 13:29:18 +00:00
Gilles Sadowski 46ed0af1c2 MATH-905
Avoid overflow on the whole range covered by the equivalent functions in
the standard "Math" class.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413600 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 13:25:27 +00:00
Gilles Sadowski 9e75d6faa9 MATH-908
Added constructor.
Javadoc.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413594 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 13:16:39 +00:00
Sebastien Brisard 4d035b59a1 In class Beta, wrote DEFAULT_EPSILON in a less error-prone way (1E-14 instead
of 10e-15).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413555 13f79535-47bb-0310-9956-ffa450edef68
2012-11-26 11:22:02 +00:00
Thomas Neidhart 71e11fc375 Simplify hashCode/equals/toString methods by using appropriate methods from java.util.Arrays, similar to EuclideanDoublePoint.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413424 13f79535-47bb-0310-9956-ffa450edef68
2012-11-25 21:23:31 +00:00
Sebastien Brisard 17c50866e0 MATH-738: implementation of Beta.bcorr(double, double), an auxiliary function
for the computation of Beta.beta(double, double).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413369 13f79535-47bb-0310-9956-ffa450edef68
2012-11-25 16:44:39 +00:00
Sebastien Brisard e6dc431a6a Javadoc typo.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413368 13f79535-47bb-0310-9956-ffa450edef68
2012-11-25 16:25:29 +00:00
Sebastien Brisard 7cf359aab1 Further unit tests of Gamma.logGammaSum(double, double): preconditions.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413367 13f79535-47bb-0310-9956-ffa450edef68
2012-11-25 16:05:57 +00:00
Sebastien Brisard 27178b80c4 MATH-738: in class o.a.c.m3.special.Gamma, implemented function
logGammaMinusLogGammaSum(double, double),
which computes accurately log(Gamma(b)) - log(Gamma(a + b))
for a >= 0 and b >= 8. Based on the NSWC library.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413366 13f79535-47bb-0310-9956-ffa450edef68
2012-11-25 16:00:43 +00:00
Sebastien Brisard 1d25ac89e3 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413361 13f79535-47bb-0310-9956-ffa450edef68
2012-11-25 15:20:22 +00:00
Sebastien Brisard 87a2928ff5 MATH-849: updated changes.xml
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413245 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 19:12:14 +00:00
Gilles Sadowski eb889c8f9f Formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413186 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 13:47:59 +00:00
Gilles Sadowski 9a9b2d3153 Formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413172 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 11:15:12 +00:00
Gilles Sadowski ec46f40b0b MATH-902
Allow stopping condition based on the number of iterations (for "univariate"
optimizers).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413171 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 11:11:10 +00:00
Phil Steitz 53f44454dc Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413131 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 04:44:02 +00:00
Phil Steitz 9bcd29de47 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413127 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 04:37:30 +00:00
Phil Steitz a30bef00fb Fixed javadoc link.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413126 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 04:24:26 +00:00
Phil Steitz a42825bef5 Fixed javadoc tag.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1413125 13f79535-47bb-0310-9956-ffa450edef68
2012-11-24 04:18:00 +00:00
Phil Steitz 15560aaba5 Javadoc.
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2012-11-24 03:51:40 +00:00
Gilles Sadowski 3467a4bcd3 Using methods from JDK.
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2012-11-23 22:34:05 +00:00
Gilles Sadowski 1f51afc5a5 MATH-908
Added constructor to enable independent settings of the line search
tolerances. Updated unit tests.


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2012-11-23 22:10:55 +00:00
Gilles Sadowski 04c63b1630 MATH-902
Fixed Javadoc. Added unit tests.


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2012-11-22 23:17:49 +00:00
Gilles Sadowski ccf9403db5 MATH-902
"changes.xml" updated.


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2012-11-22 15:25:56 +00:00
Thomas Neidhart 0f6f0d8526 Remove unused import.
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2012-11-21 19:38:02 +00:00
Gilles Sadowski 0f8b842020 Javadoc.
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2012-11-21 11:49:00 +00:00
Thomas Neidhart 0073facaf9 [MATH-906] Use NaNStrategy.FAILED as default in NaturalRanking.
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2012-11-20 21:13:54 +00:00
Gilles Sadowski 4577812519 Unnecessary code removed.
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2012-11-20 19:33:17 +00:00
Gilles Sadowski 8da1dede24 MATH-902
Added a constructor in the custom checkers that enables normal termination
of an optimization algorithm (i.e. returning the curent best point after a
selected number of iterations have been performed).


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2012-11-20 19:29:16 +00:00
Gilles Sadowski a20e951321 License text.
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2012-11-20 19:23:02 +00:00
Sebastien Brisard cea5afed35 Javadoc.
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2012-11-19 20:12:57 +00:00
Sebastien Brisard ad7ba6374d In class Gamma, implementation of (a, b) -> log(Gamma(a + b)). See MATH-738.
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2012-11-19 20:07:25 +00:00
Gilles Sadowski ce126bdbc6 MATH-899
Fixed copy/paste bug.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1411009 13f79535-47bb-0310-9956-ffa450edef68
2012-11-18 22:48:05 +00:00
Gilles Sadowski 514492efd4 MATH-894
Deprecation.


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2012-11-18 22:04:54 +00:00
Gilles Sadowski cca05f0c71 MATH-899
Added wrapper class that allows thread-safe usage of any "RandomGenerator".


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2012-11-18 21:00:34 +00:00
Thomas Neidhart 2a75c2afdc [MATH-897] Add DBSCAN clustering algorithm, thanks to Reid Hochstedler.
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2012-11-18 12:49:49 +00:00
Gilles Sadowski f14e5102f2 MATH-894
Reflect type change in "hashCode".


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2012-11-17 01:20:08 +00:00
Gilles Sadowski 76ca9329ca MATH-894
Deprecated setter for fields that should be declared as "final".


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2012-11-17 01:13:37 +00:00
Gilles Sadowski 2536920734 MATH-894
Name change ("contractionCriteria" -> "contractionCriterion").


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2012-11-17 01:08:49 +00:00
Gilles Sadowski 4cd203f41e MATH-894
Changed type of "expansionFactor" and "contractionCriteria" from
"float" to "double" and deprecated methods and constructors that
use "float".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1410469 13f79535-47bb-0310-9956-ffa450edef68
2012-11-16 16:59:16 +00:00
Gilles Sadowski 5118f5376d MATH-900
License text moved to "LICENSE.txt".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1410460 13f79535-47bb-0310-9956-ffa450edef68
2012-11-16 16:49:38 +00:00
Gilles Sadowski 23166ac9c1 MATH-900
License information moved to "LICENSE.txt".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1410433 13f79535-47bb-0310-9956-ffa450edef68
2012-11-16 16:23:39 +00:00
Luc Maisonobe d3811b134b Replaced a character encoded in isolatin-1 in Javadoc.
As per current discussions on the dev list, we should go to UTF-8
entirely. For now, I have just used plain old html entities until we
make sure everything can be generated properly from UTF-8.

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2012-11-16 07:58:49 +00:00
Gilles Sadowski 166cfce47f By having "UnivariateStatistic" extend the new "MathArrays.Function"
interface, subclassing "ResizableDoubleArray" is not necessary to achieve
the required functionality (see MATH-894).


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2012-11-16 00:32:18 +00:00
Gilles Sadowski b7555df622 MATH-894
Introducing new interface for operating on a "double[]" (added in
the "MathArrays" class). Using this interface, operations can be
performed on the internal array of a "ResizeableDoubleArray" through
a new "compute" method. Thanks to Phil Steitz.



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2012-11-16 00:18:30 +00:00
Gilles Sadowski 4870a5d99d MATH-894
Removed "initialCapacity" field.


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2012-11-15 23:35:56 +00:00
Gilles Sadowski f2235a59a3 Javadoc typo.
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2012-11-14 23:25:05 +00:00
Gilles Sadowski b06f4a4ac6 Replaced calls to deprecated methods in "ResizeableDoubleArray" (see
MATH-894). Created subclass of "ResizeableDoubleArray" in order to
access to the object's internal array.


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2012-11-14 22:55:07 +00:00
Gilles Sadowski 615661c90f MATH-894
Added new "protected" (and not "synchronized") methods to allow access to
the internal array for subclasses only.
Javadoc formatting.


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2012-11-14 22:13:54 +00:00
Thomas Neidhart 586a9603ef Reduce sleep time in unit test to prevent possible race condition.
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2012-11-14 20:09:51 +00:00
Sebastien Brisard 245fbc7d13 New values of the accuracy of Beta.logBeta(double, double).
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2012-11-14 07:42:39 +00:00
Sebastien Brisard 3c8ba5e630 Further accuracy assessments of Beta.logBeta(double, double)
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2012-11-14 07:41:29 +00:00
Sebastien Brisard 4cb2a39629 Typo.
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2012-11-14 06:18:40 +00:00
Gilles Sadowski a7660837c3 MATH-894
Made the doc reflect the new behaviour of "clear()".


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2012-11-13 17:03:47 +00:00
Gilles Sadowski 32d47dd087 Use constructor chaining (in place of duplicate code).
Fixed Javadoc typos (expansion factor and contraction criterion default
values).
Javadoc formatting.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408830 13f79535-47bb-0310-9956-ffa450edef68
2012-11-13 16:53:13 +00:00
Gilles Sadowski ac5efee04b Avoid duplicate computation.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408805 13f79535-47bb-0310-9956-ffa450edef68
2012-11-13 15:55:26 +00:00
Gilles Sadowski 4b60e4262d MATH-894
Added new enum type to replace the integers used to represent the
expansion mode. Deprecated methods and contructor that use the old
representation.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408797 13f79535-47bb-0310-9956-ffa450edef68
2012-11-13 15:50:24 +00:00
Gilles Sadowski 674f552985 MATH-894
Removed the reallocation in method "clear()".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408735 13f79535-47bb-0310-9956-ffa450edef68
2012-11-13 14:13:46 +00:00
Gilles Sadowski 593be67923 MATH-894
Deprecated methods that exposed internal state.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408723 13f79535-47bb-0310-9956-ffa450edef68
2012-11-13 13:55:45 +00:00
Gilles Sadowski b324690406 Formatting, Javadoc, "final" keyword.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408340 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 16:03:36 +00:00
Phil Steitz 16926f74f1 Consistently use G for G Test.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408281 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 13:37:20 +00:00
Gilles Sadowski de9e8b8c78 MATH-894
New method "getCapacity". Deprecated "getInternalLength".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408280 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 13:33:26 +00:00
Gilles Sadowski 6080bc88a8 MATH-887
Changed "computeWeightedJacobian" to return exactly that, instead of the
weighted Jacobian matrix multiplied by -1. Changed subclasses accordingly.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408250 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 11:36:40 +00:00
Gilles Sadowski 00d309c45d Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408246 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 11:27:31 +00:00
Phil Steitz 368050bbe6 Added G-test. JIRA: MATH-878.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408174 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 04:33:11 +00:00
Phil Steitz c49c8c6667 Added G-test to TestUtils. JIRA: MATH-878
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408173 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 04:32:02 +00:00
Phil Steitz f1dac3079a Changed G-test method names to follow conventions in the inference package. JIRA: MATH-878.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1408172 13f79535-47bb-0310-9956-ffa450edef68
2012-11-12 04:29:46 +00:00
Thomas Neidhart 16acabd53f [MATH-893] Add new NaNStrategy FAILED, thanks to Patrick Meyer.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407852 13f79535-47bb-0310-9956-ffa450edef68
2012-11-10 17:14:51 +00:00
Thomas Neidhart def7381851 Fix typo.
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2012-11-10 16:58:59 +00:00
Thomas Neidhart ff96ac9292 [MATH-892] Add new ctor to SpearmansCorrelation, reordering of ctors.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407847 13f79535-47bb-0310-9956-ffa450edef68
2012-11-10 16:51:49 +00:00
Sebastien Brisard a170601629 In the users guide for special functions
- accuracy of current implementation of Beta.logBeta
  - standard deviation of error (in ulps) is now provided for all special
    functions that have already been evaluated.


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2012-11-09 19:03:28 +00:00
Sebastien Brisard 6687706d44 Script files for the validation of beta.logBeta(double, double)
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407592 13f79535-47bb-0310-9956-ffa450edef68
2012-11-09 18:59:21 +00:00
Gilles Sadowski b76ce72cf0 MATH-887
Removed usage of "protected" fields "cols" and "rows".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407501 13f79535-47bb-0310-9956-ffa450edef68
2012-11-09 15:48:56 +00:00
Gilles Sadowski 4ece62e101 MATH-894
Removed call to "contract" in "addElement".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407485 13f79535-47bb-0310-9956-ffa450edef68
2012-11-09 15:15:11 +00:00
Gilles Sadowski 3456d2a12a MATH-887
Renamed "computeJacobian" to "computeWeightedJacobian" to relect what is
actually done.
Made "setCost" a "protected" method (as it should only be modified according
to the optimum found by the subclass's algorithm (defined in "doOptimize()").


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407478 13f79535-47bb-0310-9956-ffa450edef68
2012-11-09 14:57:10 +00:00
Gilles Sadowski ca08d0e8b1 MATH-887
In "LevenbergMarquardtOptimizer", removed usage of deprecated fields and
methods from its base class.


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2012-11-09 14:30:49 +00:00
Sebastien Brisard a8045be9dd In shell script RealFunctionValidation.sh, pass command line argument to java
app.


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2012-11-09 08:50:04 +00:00
Sebastien Brisard e54d3237a3 Typo.
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2012-11-09 08:47:38 +00:00
Sebastien Brisard a6f3c8e178 Ignore *.dat files, which might be generated by the *.mac Maxima scripts.
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2012-11-09 08:29:00 +00:00
Sebastien Brisard d177a29813 Properties files to be used with RealFunctionValidation, for functions
Gamma.logGamma and Gamma.gamma.


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2012-11-09 08:24:16 +00:00
Sebastien Brisard b04b10ca6e Small java application for the accuracy assessment of implementations of real
functions in Commons Math. The accuracy is assessed through comparison with
reference values computed with multi-precision softwares.


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2012-11-09 08:13:18 +00:00
Gilles Sadowski 37791912c6 "final" keyword.
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2012-11-08 12:59:07 +00:00
Gilles Sadowski 2ce650bf54 MATH-887
Made "GaussNewtonOptimizer" use the new methods in base class
"AbstractLeastSquaresOptimizer" instead of modifying the (now
deprecated) protected fields.


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2012-11-08 12:48:54 +00:00
Gilles Sadowski 54cfc6ce0a MATH-887
Deprecated "protected" fields.
Created new methods (that take arguments and return a value) to
replace those that operate on protected fields.
Removed call to deprecated methods in unit tests.
Added public method "setCost" to replace the direct assignment to
a protected field.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1407010 13f79535-47bb-0310-9956-ffa450edef68
2012-11-08 10:50:34 +00:00
Gilles Sadowski b65cad05b9 MATH-887
First steps to enhance encapsulation (goal is to remove the "protected"
fields): used new API (MATH-874).
Replaced explicit loops with matrix operations.
Disabled a unit test that does not pass anymore.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1406010 13f79535-47bb-0310-9956-ffa450edef68
2012-11-05 23:41:05 +00:00
Gilles Sadowski 568404b6eb Typos.
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2012-11-05 23:32:15 +00:00
Luc Maisonobe c61b08e546 Fixed naming inconsistencies between Interval and IntervalsSet classes.
JIRA: MATH-890

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2012-11-05 08:43:38 +00:00
Luc Maisonobe 2a41e40c15 Added a method to check points in the Interval class.
JIRA: MATH-889

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2012-11-05 08:00:19 +00:00
Phil Steitz 387e7f9fa9 Reverting changes inadvertently committed in r1405634.
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2012-11-04 20:56:37 +00:00
Phil Steitz 6e40b488fd Javadoc fix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1405634 13f79535-47bb-0310-9956-ffa450edef68
2012-11-04 20:51:21 +00:00
Phil Steitz 0987ae5a20 Added G-test statistics. JIRA: MATH-878. Thanks to Radoslav Tsvetkov and Ted Dunning.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1405620 13f79535-47bb-0310-9956-ffa450edef68
2012-11-04 19:32:35 +00:00
Phil Steitz 1cfa9491a2 Javadoc fixes.
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2012-11-03 19:46:41 +00:00
Gilles Sadowski 18360735db Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1404085 13f79535-47bb-0310-9956-ffa450edef68
2012-10-31 10:45:09 +00:00
Luc Maisonobe d4b31ce8ff streamlined deserialization of DerivativeStructure
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2012-10-30 09:52:09 +00:00
Gilles Sadowski ea8e5c488d Use the "isSymmetric" utility method from "MatrixUtils" (copied from
"EigenDecomposition" in MATH-884).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1403591 13f79535-47bb-0310-9956-ffa450edef68
2012-10-30 00:38:44 +00:00
Gilles Sadowski 06c63da6c7 MATH-883
Added "getSquareRoot()" method. Implementation only supports symmetric,
diagonalizable matrices.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1403590 13f79535-47bb-0310-9956-ffa450edef68
2012-10-30 00:29:06 +00:00
Gilles Sadowski 4d12f0ca68 MATH-884
Added methods "isSymmetric" and "checkSymmetric".


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2012-10-30 00:21:20 +00:00
Phil Steitz e0f7ce9c7c Moved array argument validation methods from ChiSquareTest to MathArrays. JIRA: MATH-885.
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2012-10-29 04:06:14 +00:00
Thomas Neidhart 6f50c9e55d Completed javadoc.
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2012-10-27 14:31:26 +00:00
Gilles Sadowski 41aa1c40fd Removed quasi-duplicate code.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1402716 13f79535-47bb-0310-9956-ffa450edef68
2012-10-26 23:37:32 +00:00
Gilles Sadowski 4fe86d82eb MATH-874
I forgot to "svn add" classes (in revision 1402607).


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2012-10-26 18:27:34 +00:00
Gilles Sadowski d0d4760c97 MATH-874
First steps to upgrade the API of the classes in "o.a.c.m.optimization.general".
Please note the introduction of a "Weight" matrix (whereas the current code
assumes that the weights are given as an array).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1402607 13f79535-47bb-0310-9956-ffa450edef68
2012-10-26 18:19:40 +00:00
Gilles Sadowski 2796e77e2e MATH-874
Reduced number of overridden public "optimize" methods (replaced by protected
"optimizeInternal"): whenever the code is ready for 4.0, only the base class's
"optimize" method should define the public API (subclass specifics are handled
in overridden "optimizeInternal" which must call the base class's version to
handle the common setup).


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2012-10-25 00:20:24 +00:00
Gilles Sadowski 8964c7aa09 Updated "changes" file.
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2012-10-24 22:38:25 +00:00
Gilles Sadowski e0426dfbfb MATH-816
Using different seeds for the component distributions to avoid getting
the same sequence of random numbers for all of them. Update to the
"testSampling" unit test contributed by Jared Becksfort.


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2012-10-24 21:27:44 +00:00
Luc Maisonobe f5765cf99d Use the new differentation API for all optimizers.
The older API is still supported as of version 3.1, but is implemented
by wrapping the user function into the new API and then calling the new
code.

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2012-10-24 19:40:08 +00:00
Luc Maisonobe 7b5a64c0bb Added converters for multivariate functions.
The converters allow to convert back and forth between the older
and the newer differentiation API. They are considered temporary methods
for version 3.1 and will be removed in 4.0 as only the new API will
remain.

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2012-10-24 19:39:45 +00:00
Thomas Neidhart 3bae991455 Added missing closing action tag.
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2012-10-23 20:35:04 +00:00
Thomas Neidhart 477104bd09 Fix spelling.
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2012-10-23 19:30:09 +00:00
Sebastien Brisard 9dffcfd3be Maxima scripts to generate reference values for the gamma and logGamma
functions.


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2012-10-23 06:04:09 +00:00
Luc Maisonobe 6d5763c539 Removed unused exception.
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2012-10-22 19:32:03 +00:00
Luc Maisonobe 2a9cbbab46 Finalized fix for MATH-880.
This version should be much more robust on polygons computation than the
earlier ones. Note that the hyperplaneThickness parameter is a key
tuning parameter in difficult cases like the one involved in the issue.
As shown in the corresponding unit test, the value had to be raised to
1.0e-8 in order for the test to pass correctly.

JIRA: MATH-880

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2012-10-22 19:21:36 +00:00
Thomas Neidhart c2e855d6a0 [MATH-759] add resolution to changes.xml.
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2012-10-22 18:47:33 +00:00
Gilles Sadowski 3b6bbf6d2c Javadoc.
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2012-10-22 13:57:26 +00:00
Gilles Sadowski 7096dabffa MATH-854
Fill "throw" clauses.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1400850 13f79535-47bb-0310-9956-ffa450edef68
2012-10-22 11:57:17 +00:00
Luc Maisonobe b25f448d2f Improved polygons creation with a numerically more robust constructor.
This is only a partial fix for issue 880 because there are still some
glitches in the first polygon involved in the issue.

JIRA: MATH-880

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2012-10-21 20:08:32 +00:00
Thomas Neidhart 231b9a8905 Fix special characters in changes.xml.
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2012-10-21 17:43:08 +00:00
Thomas Neidhart 1d02ff125d [MATH-474] Added Frequency#merge method, thanks to patch from Dan Checkoway.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1400683 13f79535-47bb-0310-9956-ffa450edef68
2012-10-21 17:33:37 +00:00
Thomas Neidhart ec6f1c8270 Small fixes of javadoc @throws tags.
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2012-10-21 16:41:38 +00:00
Thomas Neidhart 8bada78845 Removed unneeded import in package-info.
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2012-10-21 16:34:40 +00:00
Thomas Neidhart bea6d09158 Fix checkstyle warnings, added missing javadoc.
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2012-10-21 16:32:30 +00:00
Thomas Neidhart 5b9302d5be [MATH-778] Allow unlimited input values for Dfp#multiply.
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2012-10-21 16:22:50 +00:00
Gilles Sadowski 0912bac520 MATH-868
MATH-879
"lambda" and "inputSigma" should be passed to "optimize" as arguments of
type "OptimizationData". Deprecated constructors. Updated unit tests.


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2012-10-19 14:20:16 +00:00
Gilles Sadowski ea138c2da2 MATH-816
Mixture model distribution.  Original code contributed by Jared Becksfort,
committed with changes as discussed on the JIRA page.


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2012-10-19 11:00:53 +00:00
Gilles Sadowski bdd5b45cf7 MATH-815
Added method that was missing in the original commit: "getDimensions()",
renamed to "getDimension()".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1400017 13f79535-47bb-0310-9956-ffa450edef68
2012-10-19 09:55:01 +00:00
Gilles Sadowski a355d8c20a MATH-881
Removed useless method.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1400010 13f79535-47bb-0310-9956-ffa450edef68
2012-10-19 09:30:44 +00:00
Gilles Sadowski 4a3a3eba60 MATH-881
Removed meaningless properties for multivariate distributions.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1399864 13f79535-47bb-0310-9956-ffa450edef68
2012-10-18 21:26:13 +00:00
Gilles Sadowski 41f74ba651 Inner class should have been "static".
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1399433 13f79535-47bb-0310-9956-ffa450edef68
2012-10-17 21:09:27 +00:00
Gilles Sadowski 3a874d8f01 Formatting.
"final" keyword.


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2012-10-15 22:30:30 +00:00
Gilles Sadowski ecc9690e26 Formatting.
Removed unnecessary decimal point on constants, and added explicit cast where
necessary.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1398297 13f79535-47bb-0310-9956-ffa450edef68
2012-10-15 14:09:32 +00:00
Gilles Sadowski ac094067cf MATH-873
Removed usage of "maximum number of evaluations" in a place where it altered
the algorithm's core behaviour (whereas it should only serve as a processing
time limit).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1398284 13f79535-47bb-0310-9956-ffa450edef68
2012-10-15 13:33:43 +00:00
Gilles Sadowski 91011db79d MATH-872
Sigma values expressed as a kind of "OptimizationData". Deprecated
constructors that were passed an "inputSigma" argument.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1398275 13f79535-47bb-0310-9956-ffa450edef68
2012-10-15 13:12:15 +00:00
Gilles Sadowski 652c6220cb MATH-874
Simple bounds expressed as a kind of "0ptimizationData".
The specification of simple bounds is handled in "BaseAbstractMultivariateOptimizer";
hence "BaseAbstractMultivariateSimpleBoundsOptimizer" is deprecated.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1398263 13f79535-47bb-0310-9956-ffa450edef68
2012-10-15 12:16:53 +00:00
Gilles Sadowski 2b40d7c36b MATH-874
New API allows to pass the simplex as an argument to "optimize".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1397759 13f79535-47bb-0310-9956-ffa450edef68
2012-10-13 01:12:58 +00:00
Gilles Sadowski 8bc689a30c MATH-874
New "optimize" method.


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2012-10-13 01:09:02 +00:00
Gilles Sadowski 91be760415 Replaced bit operator with logical operator.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1397106 13f79535-47bb-0310-9956-ffa450edef68
2012-10-11 15:18:07 +00:00
Gilles Sadowski d1ea9a6fb7 Javadoc. [After the MATH-867 fix, this warning is obsolete.]
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1395949 13f79535-47bb-0310-9956-ffa450edef68
2012-10-09 10:45:16 +00:00
Luc Maisonobe 4b7c9c9408 Fixed javadoc warnings.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1395937 13f79535-47bb-0310-9956-ffa450edef68
2012-10-09 10:04:36 +00:00
Sebastien Brisard 37f8de9542 MATH-875: deprecated sparseIterator() in the RealVector hierarchy, and replaced its use with iterator().
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1395455 13f79535-47bb-0310-9956-ffa450edef68
2012-10-08 05:54:21 +00:00
Sebastien Brisard d0e8a3587a MATH-854: FieldMatrix.setSubMatrix does *not* throw NumberIsTooSmallException.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1395453 13f79535-47bb-0310-9956-ffa450edef68
2012-10-08 05:19:50 +00:00
Sebastien Brisard 7cac883ba0 MATH-854: populated throws clause of BlockFieldMatrix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1395452 13f79535-47bb-0310-9956-ffa450edef68
2012-10-08 05:16:27 +00:00
Gilles Sadowski 3e10f8d478 Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1395181 13f79535-47bb-0310-9956-ffa450edef68
2012-10-06 22:17:12 +00:00
Phil Steitz 3084dd1e4a Made file character set explicit and added file loading tests.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1394882 13f79535-47bb-0310-9956-ffa450edef68
2012-10-06 01:05:06 +00:00
Phil Steitz 288558e48e Removed trailing spaces.
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2012-10-05 19:54:00 +00:00
Phil Steitz 955dda0258 Javadoc.
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2012-10-05 19:52:15 +00:00
Gilles Sadowski 52990bc644 Read bound values from base class instead of duplicating the data.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1393978 13f79535-47bb-0310-9956-ffa450edef68
2012-10-04 10:25:42 +00:00
Gilles Sadowski e41cea1e33 Improved Javadoc.
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2012-10-03 18:06:33 +00:00
Thomas Neidhart 8eb3bbaca4 Remove trailing spaces, added missing javadoc tags.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1393153 13f79535-47bb-0310-9956-ffa450edef68
2012-10-02 20:15:00 +00:00
Sebastien Brisard 3b5d0dd52c User's guide for special functions now reports accuracy of
Gamma.gamma(double).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1392751 13f79535-47bb-0310-9956-ffa450edef68
2012-10-02 06:09:03 +00:00
Sebastien Brisard bb0827cc81 MATH-854: populated throws clause of Array2DRowFieldMatrix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1392748 13f79535-47bb-0310-9956-ffa450edef68
2012-10-02 05:35:59 +00:00
Sebastien Brisard 72051d7f6d MATH-854: populated throws clause of AbstractFieldMatrix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1392743 13f79535-47bb-0310-9956-ffa450edef68
2012-10-02 05:21:51 +00:00
Sebastien Brisard 9f663a15e6 MATH-854: populated throws clause of FieldMatrix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1392742 13f79535-47bb-0310-9956-ffa450edef68
2012-10-02 05:14:38 +00:00
Sebastien Brisard d685138370 User's guide for special functions now reports accuracy of
Gamma.logGamma(double).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1392739 13f79535-47bb-0310-9956-ffa450edef68
2012-10-02 05:00:41 +00:00
Phil Steitz 57b0a07b9f Final keyword.
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2012-10-01 14:41:55 +00:00
Phil Steitz e055dcd21a Added missing throws declarations. JIRA: MATH-854.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1392342 13f79535-47bb-0310-9956-ffa450edef68
2012-10-01 14:08:52 +00:00
Gilles Sadowski bb60e51654 Indentation.
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2012-09-30 14:17:12 +00:00
Luc Maisonobe df92c3b6f1 Added distance to point to 2D Line and Segment.
Patch provided by Curtis Jensen applied with minor modifications.

JIRA: MATH-641

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2012-09-30 13:22:28 +00:00
Gilles Sadowski 3246e42006 Update "changes.xml".
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391928 13f79535-47bb-0310-9956-ffa450edef68
2012-09-30 00:14:32 +00:00
Gilles Sadowski 1ac0c79080 CheckStyle.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391927 13f79535-47bb-0310-9956-ffa450edef68
2012-09-30 00:03:30 +00:00
Gilles Sadowski bfbb156dfb MATH-867
Previous commit was missing a crucial modification (in the "repair" method),
an inconsistency which entailed the failing of some tests.
With that modification (thanks to Nikolaus Hansen), it was established that
the "encode" and "decode" steps were indeed useless. This commit thus removes
them, and all the code that was necessary only because of those two methods.
Finite and infinite can now be freely mixed.
Unit tests that depended on those limitations were also removed (thus also
the one that was added following MATH-865).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391908 13f79535-47bb-0310-9956-ffa450edef68
2012-09-29 22:18:18 +00:00
Gilles Sadowski 329cf9e8e6 MATH-867
Modified "encode" and "decode" methods. Unit test "testFitAccuracyDependsOnBoundary"
now passes and is thus enabled. Unit test "testConstrainedRosen" had to be modified
in order to not fail with the new code (starting point is set closer to the solution).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391840 13f79535-47bb-0310-9956-ffa450edef68
2012-09-29 16:58:18 +00:00
Gilles Sadowski 678377a1e8 MATH-867
Unit test showing the problem. It is disabled (with the "@Ignore" annotation)
because it fails with the current code.


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2012-09-28 14:06:19 +00:00
Luc Maisonobe 6129654bc2 Fixed some issues in nth root derivatives at 0.
The current behavior is correct with respect to infinities and NaN being
appropriately generated, but in some cases counter-intuitive.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391451 13f79535-47bb-0310-9956-ffa450edef68
2012-09-28 13:28:42 +00:00
Sebastien Brisard e1ed0b96ba User's Guide, Special Functions: changed the introduction, as special functions
should not be considered as a by-product of Commons-Math.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391304 13f79535-47bb-0310-9956-ffa450edef68
2012-09-28 05:25:06 +00:00
Sebastien Brisard 07f51c0dea User's guide for special functions now uses the APT format, instead of the XDOC
format.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1391302 13f79535-47bb-0310-9956-ffa450edef68
2012-09-28 05:14:10 +00:00
Sebastien Brisard 9462626718 MATH-854: filled the "throws" clause of BlockRealMatrix.
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2012-09-27 18:42:45 +00:00
Sebastien Brisard 2a32964f25 Populated throws clause of OpenMapRealMatrix (MATH-854).
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2012-09-27 05:04:10 +00:00
Sebastien Brisard 8708ef28f2 MATH-870: deprecated SparseFieldMatrix.
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2012-09-27 03:54:04 +00:00
Sebastien Brisard 3a3fec3bb2 MATH-870: deprecated SparseRealMatrix and OpenMapRealMatrix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1390831 13f79535-47bb-0310-9956-ffa450edef68
2012-09-27 03:52:34 +00:00
Sebastien Brisard 9cf853b3fc MATH-870: deprecated SparseFieldVector.
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2012-09-27 03:49:54 +00:00
Sebastien Brisard b894782174 MATH-870: javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1390828 13f79535-47bb-0310-9956-ffa450edef68
2012-09-27 03:48:44 +00:00
Sebastien Brisard e2bab1ae13 MATH-870: deprecated OpenMapRealVector, SparseRealVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1390684 13f79535-47bb-0310-9956-ffa450edef68
2012-09-26 19:17:29 +00:00
Gilles Sadowski dadeacc23e MATH-853
New exception intended to become, as of release 4.0, the base class for
all CM exceptions (except "NullArgumentException").


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1390354 13f79535-47bb-0310-9956-ffa450edef68
2012-09-26 09:39:19 +00:00
Sebastien Brisard 2ff6587c4e In AbstractRealMatrix, provided empty implementations to methods
- createMatrix(int, int),
  - copy(),
  - getEntry(int, int),
  - setEntry(int, int).
This allows the use of the @Override tag in classes Array2DRowRealMatrix, BlockRealMatrix,
OpenMapRealMatrix with java 5.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1390302 13f79535-47bb-0310-9956-ffa450edef68
2012-09-26 07:24:35 +00:00
Thomas Neidhart 774257e3a7 Javadoc fixes.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1389866 13f79535-47bb-0310-9956-ffa450edef68
2012-09-25 13:56:57 +00:00
Luc Maisonobe 282bb0eaa6 Typo.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1389858 13f79535-47bb-0310-9956-ffa450edef68
2012-09-25 13:29:16 +00:00
Phil Steitz ecd4748cdf Added tests confirming exception behavior for regress(double[]).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1389150 13f79535-47bb-0310-9956-ffa450edef68
2012-09-23 21:42:51 +00:00
Thomas Neidhart ad252a8ca3 [MATH-848] Fixed Schur transformation for certain input matrices, changed index parameter names to indicate their purpose.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1389129 13f79535-47bb-0310-9956-ffa450edef68
2012-09-23 19:34:02 +00:00
Gilles Sadowski eda482d9f9 Typo.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388766 13f79535-47bb-0310-9956-ffa450edef68
2012-09-22 10:02:53 +00:00
Gilles Sadowski f33f1fb501 MATH-860
Matrix "block inversion".


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388555 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 15:41:06 +00:00
Gilles Sadowski 5144e1d878 MATH-865
Update "changes" file.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388554 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 15:34:03 +00:00
Gilles Sadowski b55e020684 MATH-865
Early detection that overflow will occur in the variables normalization
procedure ("encode" method). Warning mentioned in the documentation.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388552 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 15:32:18 +00:00
Gilles Sadowski abe53a537b MATH-864
Fixed missing "repair" of a point that lies outside the boundaries. Thanks
to Frank Hessen for the report and for pinpointing the cause of the problem.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388517 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 14:17:37 +00:00
Gilles Sadowski ce118ef14a MATH-863
Patch provided by Julien Anxionnat:
 * method name change,
 * bug fix and unit test for "dotProduct" (instance method).


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388406 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 10:42:30 +00:00
Sebastien Brisard 9146a58024 In AbstractRealMatrix, removed orphan javadoc comment.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388298 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 01:56:06 +00:00
Sebastien Brisard 95bf9fb6cf In AbstractRealMatrix, removed empty abstract method copy() (specified in interface RealMatrix).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388296 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 01:53:28 +00:00
Sebastien Brisard d2258eff70 Removed some @Override tags, which have become illegal following some changes in r1388154.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388294 13f79535-47bb-0310-9956-ffa450edef68
2012-09-21 01:49:51 +00:00
Sebastien Brisard b2cea08e85 MATH-854
- filled the "throws" clause of Array2DRowRealMatrix,
  - corrected some method signatures in RealMatrix and AbstractRealMatrix accordingly,
  - in AbstractRealMatrix, removed "abstract implementations" of some methods specified in interface RealMatrix, as they serve no purpose.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388154 13f79535-47bb-0310-9956-ffa450edef68
2012-09-20 18:50:45 +00:00
Gilles Sadowski 7a74137904 MATH-863
New "Quaternion" class. Thanks to Julien Anxionnat.
After applying the original patch, the following changes were made:
* Renamed the "static" quaternion instances ("PLUS_" prefix removed).
* Removed some (syntactic sugar) methods; removed or modified corresponding
  unit tests.
* Made the redundant accessors call the "canonic" ones.
* Removed the default tolerance and added an explicit tolerance parameter
  in methods that depend on equality testing.
* When a "ZeroException" is thrown, the actual value of the norm is provided
  in the detailed message (as the implementation actually does not use a
  strict comparison with 0).
* Added "equals(Object)" and "hashCode" methods.
* Javadoc and formatting. Added license header.
* Removed "toString" documentation (as this representation should not be
  binding). Changed the representation to not use a comma.
* Renamed "scalarMultiply" to "multiply".
* More stringent tolerance used in the unit tests assertions, whenever
  possible.
* Added unit tests.



git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1388099 13f79535-47bb-0310-9956-ffa450edef68
2012-09-20 16:21:46 +00:00
Gilles Sadowski 600f00ba58 MATH-866
Method to test for equality with a given relative tolerance (due to
Yannick Tanguy and Julien Anxionnat). Original patch provided in
JIRA MATH-863 and committed with a few changes.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387941 13f79535-47bb-0310-9956-ffa450edef68
2012-09-20 10:09:37 +00:00
Thomas Neidhart b245e08d24 Removed exception from throws clause which is never thrown.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387637 13f79535-47bb-0310-9956-ffa450edef68
2012-09-19 15:21:57 +00:00
Thomas Neidhart 322fde4ec5 Javadoc formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387635 13f79535-47bb-0310-9956-ffa450edef68
2012-09-19 15:15:43 +00:00
Luc Maisonobe a20a890fa6 Typo.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387501 13f79535-47bb-0310-9956-ffa450edef68
2012-09-19 09:12:01 +00:00
Luc Maisonobe c390c53c22 Removed dead test code.
The code was never used and was an implementation of a now deprecated
interface.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387084 13f79535-47bb-0310-9956-ffa450edef68
2012-09-18 10:30:01 +00:00
Luc Maisonobe 5259df5f91 Fail early on wrong derivation order.
If the user asks for a derivation order that is too large for the number
of points in the finite differences algorithm, we now detect it before
the first call to the underlying function.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387064 13f79535-47bb-0310-9956-ffa450edef68
2012-09-18 09:07:54 +00:00
Sebastien Brisard 19c954cabc MATH-854: populated throws clause of AbstractRealMatrix.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1387002 13f79535-47bb-0310-9956-ffa450edef68
2012-09-18 06:38:33 +00:00
Luc Maisonobe 830cd9eeca Added a FiniteDifferencesDifferentiator class.
This class implements both UnivariateFunctionDifferentiator,
UnivariateVectorFunctionDifferentiator and
UnivariateMatrixFunctionDifferentiator. It is not limited in the
derivation order, but checks the order is consistent with the number of
points. Typically, attempting to extract 5th derivative from a 3 points
scheme will not work (a NumberIsTooLargeException will be thrown,
referencing the derivation order).

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1386745 13f79535-47bb-0310-9956-ffa450edef68
2012-09-17 17:42:47 +00:00
Luc Maisonobe 3876bd9bc4 Added a way to create DerivativeStructure from all derivatives.
In some cases, users may already have all the derivatives available at
once. It was impossible to use this knowledge and create the object, so
users had to user dirty tricks like adding together variables holding
value and zero derivative with variables holding derivatives and zero
value.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1386743 13f79535-47bb-0310-9956-ffa450edef68
2012-09-17 17:42:19 +00:00
Luc Maisonobe be26e43b98 Added differentiator interfaces for vector and matrix functions.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1386742 13f79535-47bb-0310-9956-ffa450edef68
2012-09-17 17:41:54 +00:00
Luc Maisonobe 69f087edcb Differentiable function can trigger any MathIllegalArgumentException.
One very important case corresponds to an unsupported derivation order.
The order is not enforced in the API, but is specified as the properties
of the DerivativeStructure argument, as well as the number of free
parameters. Some functions have no limitation on this order (typically
functions implemented using only the DerivativeStructure API), but some
functions may limit the derivation order to 1 or 2 as they implement the
differentiation themselves or through finite differences.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1386741 13f79535-47bb-0310-9956-ffa450edef68
2012-09-17 17:41:24 +00:00
Sebastien Brisard 06880f1138 Populated throws clause of RealMatrix (MATH-854); javadoc + formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1386486 13f79535-47bb-0310-9956-ffa450edef68
2012-09-17 06:48:04 +00:00
Phil Steitz dae4cf5da1 Added missing throws declarations and fixed javadoc to match what is actually thrown. JIRA: MATH-854.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385386 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 22:11:15 +00:00
Thomas Neidhart 0752ffec8f [MATH-666] added to changes.xml.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385318 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:54:20 +00:00
Thomas Neidhart 79f99111d5 [MATH-666] make FieldVector#getData() method deprecated in favor of toArray(), minor formatting, move implementation of SparseFieldVector#getData() to toArray().
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385316 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:50:32 +00:00
Thomas Neidhart 1f914f9917 Removed trailing spaces.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385315 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:37:34 +00:00
Thomas Neidhart b694b79c60 Javadoc formatting and fixes.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385314 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:35:49 +00:00
Thomas Neidhart be41bc2053 Removed unused imports.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385313 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:35:23 +00:00
Thomas Neidhart 7536672818 Javadoc cleanup of transform package, removed unnecessary paragraph tags.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385310 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:32:10 +00:00
Thomas Neidhart 75fe8b8b99 Javadoc cleanup of linear optimization package.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385307 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:19:55 +00:00
Thomas Neidhart 0a900fa692 Javadoc fixes.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385301 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:11:53 +00:00
Thomas Neidhart 9ad58f46b0 Replace deprecated method call.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385299 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:09:17 +00:00
Thomas Neidhart 497fe1c79b Remove trailing spaces in javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385298 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:09:00 +00:00
Thomas Neidhart 1a9e32ab8f [MATH-854] fill throws clause for genetics package.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385297 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 16:05:57 +00:00
Thomas Neidhart ef8beb8b2b Javadoc cleanup of genetics package.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385284 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 15:19:55 +00:00
Thomas Neidhart 6709b11f9e Javadoc fixes.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1385279 13f79535-47bb-0310-9956-ffa450edef68
2012-09-16 15:06:06 +00:00
Thomas Neidhart 51f446bf0c [MATH-789] Fixed rank calculation in case of dependant columns, added additional constructor that repaces small parameter.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384945 13f79535-47bb-0310-9956-ffa450edef68
2012-09-14 21:55:46 +00:00
Luc Maisonobe c8b8e61243 Use the new differentiation framework in optimization package.
As a temporary hack for backward compatibility, some optimizers do
provide "optimize" methods which accept the new functions signatures
(i.e. MultivariateDifferentiableXxxFunction), but they do *not*
advertise it in their "implements" clause. The reason for that is that
Java forbid implementing a parameterized interface with two different
parameters. These optimizers already implement the interface with the
older functions signatures, and this cannot be removed as of 3.1.

When 4.0 will be started, the old signatures will be removed, and the
"implements" declarations will be updated.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384907 13f79535-47bb-0310-9956-ffa450edef68
2012-09-14 20:17:00 +00:00
Luc Maisonobe 8bac3361f2 Fixed too large memory consumption in DSCompiler.
Prior to this correction, when at one point in a program a user needed a
derivative with 1 parameter and order 5, and at another point needed a
derivative with 30 parameters and order 1, all DSCompilers from 1x1 to
30x5 were created. As the compilation rules for 30 parameters and 5
order are huge, this failed with memory heap errors after several
gigabytes were consumed.

The fix is to simply build the necessary compilers, and let the array
contain null references for the compilers never used (these null
references will be populated later if the user ask for some intermediate
value that need them, of course).

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384905 13f79535-47bb-0310-9956-ffa450edef68
2012-09-14 20:16:05 +00:00
Sebastien Brisard 1c032ee454 - Populated throws clause of FieldVector, ArrayFieldVector, SparseFieldVector (MATH-854).
- Added some missing precondition checks.
  - Corrected some mistakes in javadoc.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384654 13f79535-47bb-0310-9956-ffa450edef68
2012-09-14 06:42:06 +00:00
Sebastien Brisard aa0b1cc788 MATH-854: in FieldVector and ArrayFieldVector, reverted to r1383770.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384471 13f79535-47bb-0310-9956-ffa450edef68
2012-09-13 19:00:51 +00:00
Thomas Neidhart 406a6ae49d Fixed typo and formatting in changes.xml.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384454 13f79535-47bb-0310-9956-ffa450edef68
2012-09-13 18:21:05 +00:00
Thomas Neidhart 70b769ec7f Fixed typo in changes.xml.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384451 13f79535-47bb-0310-9956-ffa450edef68
2012-09-13 18:18:36 +00:00
Luc Maisonobe 621bbb8fc7 Fixed an error in rectangular Cholesky decomposition.
JIRA: MATH-789

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384363 13f79535-47bb-0310-9956-ffa450edef68
2012-09-13 15:13:03 +00:00
Sebastien Brisard 8469bc496c MATH-854: document all exceptions in ArrayFieldVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384212 13f79535-47bb-0310-9956-ffa450edef68
2012-09-13 06:11:05 +00:00
Sebastien Brisard 10af7e2b2f MATH-854: in interface FieldVector, some more exceptions are *documented* (as recommendations), but not *specified*.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384211 13f79535-47bb-0310-9956-ffa450edef68
2012-09-13 06:10:06 +00:00
Sebastien Brisard 443f412728 MATH-854: in interface FieldVector, replaced throws statements with javadoc comments.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1384082 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 18:37:46 +00:00
Luc Maisonobe 84f92e1928 Added a wrapper class to compute Jacobian from differentiable function.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383886 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 11:23:23 +00:00
Luc Maisonobe 88678b58a4 Added a wrapper class to compute gradient from differentiable function.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383885 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 11:22:56 +00:00
Luc Maisonobe 6fe3ae0e6c Deprecated DifferentiableUnivariateMatrixFunction interface.
This interface is in fact never used in the library...

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383854 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 08:55:32 +00:00
Luc Maisonobe d2f23bba39 Fixed typo in interface name.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383853 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 08:55:13 +00:00
Luc Maisonobe b8de2704ac Deprecated DifferentiableUnivariateVectorFunction.
This interface is in fact never used in the library...

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383852 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 08:54:40 +00:00
Luc Maisonobe 85bab3ba61 Deprecated DifferentiableUnivariateFunction.
The interface and its implementations should be removed for 4.0. The
remaining uses in the library are only there for compatibility.
Everything else now use the new UnivariateDifferentiableFunction
interface and DerivativeStructure, which allow both arbitrary
differentiation order and arbitrary number of free parameters.

The next step for 3.1 is to replace the multidimensional functions (i.e.
multivariate functions, vector valued functions and matrix valued
functions).

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383845 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 08:34:10 +00:00
Sebastien Brisard 47e5bb380e Removed LocalizedFormats.ENTRY previously introduced in r1383747, as LocalizedFormats.INDEX will do nicely.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383770 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 04:43:38 +00:00
Sebastien Brisard f0921e844d MATH-854: fill the "throws" clause of FieldVector, ArrayFieldVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383760 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 04:27:47 +00:00
Sebastien Brisard b30425df87 Added new localized error message "entry {0}" to signal null entries in FieldVectors.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383747 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 03:46:31 +00:00
Sebastien Brisard ffe65f8eac MATH-854: fill the "throws" clause of RealVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383743 13f79535-47bb-0310-9956-ffa450edef68
2012-09-12 03:18:46 +00:00
Luc Maisonobe cc22b4d09b Added arbitrary differentiation order for Hermite interpolator.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383451 13f79535-47bb-0310-9956-ffa450edef68
2012-09-11 15:33:37 +00:00
Luc Maisonobe 76e8646b95 Added interfaces for differentiable multidimensional functions.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383450 13f79535-47bb-0310-9956-ffa450edef68
2012-09-11 15:33:10 +00:00
Luc Maisonobe f4cd0eec56 Renamed UnivariateDifferentiable into UnivariateDifferentiableFunction.
The "Function" part of the name was forgotten when this new interface
was created a few weeks ago, for replacing the older
DifferentiableUnivariateFunction.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383441 13f79535-47bb-0310-9956-ffa450edef68
2012-09-11 14:56:39 +00:00
Luc Maisonobe 226145f46d Added arbitrary order derivative for polynomials in Newton form.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383437 13f79535-47bb-0310-9956-ffa450edef68
2012-09-11 14:42:44 +00:00
Luc Maisonobe e0557c2c89 added a few UML diagrams.
The diagrams are not used in the documentation yet, they are only kept for reference and may be removed later.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383287 13f79535-47bb-0310-9956-ffa450edef68
2012-09-11 08:37:52 +00:00
Sebastien Brisard 5998035a9f MATH-854: fill the "throws" clause of ArrayFieldVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1383052 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 19:05:54 +00:00
Sebastien Brisard a70cb1668e Removed unused @throws Javadoc tag.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382998 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 17:42:53 +00:00
Sebastien Brisard 7146906696 MATH-854: fill the "throws" clause of FieldVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382993 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 17:31:51 +00:00
Luc Maisonobe 22bcab04fe Updated throws declarations for transform package.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382906 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 14:48:03 +00:00
Luc Maisonobe b883dcbc08 Updated throws declaration for random package (and part of
distribution).

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382904 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 14:47:45 +00:00
Luc Maisonobe 0955f5db17 Replaced factory using Object with type-safe version.
Only two types of adapters were used: double array and stream, in a
private internal factory. This has been suppressed so each adapter is
bioth type safe and returns only the exceptions it can trigger.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382902 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 14:47:19 +00:00
Luc Maisonobe e46f4c0c05 Removed too aggressive checks for impossible errors.
The checks were added recently as part of throws declaration updates. In
theses cases, the exception cannot be triggered. No throws declarations
are needed and in fact wrapping the impossible exceptions in
MathInternalError is simply too much.

git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382887 13f79535-47bb-0310-9956-ffa450edef68
2012-09-10 14:37:27 +00:00
Phil Steitz 9e69a34008 Added missing throws declarations. JIRA: MATH-854.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382537 13f79535-47bb-0310-9956-ffa450edef68
2012-09-09 16:43:27 +00:00
Gilles Sadowski f947c72da7 MATH-855
In case of tie, return the "oldest" point.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382441 13f79535-47bb-0310-9956-ffa450edef68
2012-09-09 10:40:55 +00:00
Phil Steitz 9e2e73e4ec Added missing throws declarations, suppressed warnings. JIRA: MATH-854.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382389 13f79535-47bb-0310-9956-ffa450edef68
2012-09-09 01:47:34 +00:00
Phil Steitz 11bc47878c Removed unused imports.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382382 13f79535-47bb-0310-9956-ffa450edef68
2012-09-08 22:56:11 +00:00
Phil Steitz 66dece126a Clarified definition of isSupportXxxBoundInclusive in RealDistribution interface,
made code consistent with the definition, and deprecated these methods, marking
for removal in 4.0.
JIRA: MATH-859


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382380 13f79535-47bb-0310-9956-ffa450edef68
2012-09-08 22:15:32 +00:00
Phil Steitz 2d2912e4a1 Eliminated no longer accurate implementation reference.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382335 13f79535-47bb-0310-9956-ffa450edef68
2012-09-08 17:48:08 +00:00
Phil Steitz ae26b9bf23 Added throws declarations, improved javadoc, made Kurtosis increment consistent with other moment statistics. JIRA: MATH-854.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382332 13f79535-47bb-0310-9956-ffa450edef68
2012-09-08 17:27:47 +00:00
Gilles Sadowski b8f2fb815f MATH-854
Populate "throws" clause.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382197 13f79535-47bb-0310-9956-ffa450edef68
2012-09-07 22:35:01 +00:00
Gilles Sadowski ac597cc172 MATH-855 (second take).
Best point must be returned.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1382070 13f79535-47bb-0310-9956-ffa450edef68
2012-09-07 15:43:40 +00:00
Sebastien Brisard ad923872f3 MATH-854: fill the "throws" clause of OpenMapRealVector.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381730 13f79535-47bb-0310-9956-ffa450edef68
2012-09-06 19:42:35 +00:00
Gilles Sadowski d3cfd50cfc Javadoc.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381410 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 21:52:42 +00:00
Thomas Neidhart 86321681e7 Add throw declarations for filter package, javadoc formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381332 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 20:06:07 +00:00
Thomas Neidhart 5082325771 Javadoc formatting cleanup.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381310 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 19:22:17 +00:00
Luc Maisonobe 366d796c36 Added throw declarations for package dfp.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381285 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 18:30:28 +00:00
Luc Maisonobe 54d00b13c6 Added throw declarations for package complex.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381284 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 18:30:08 +00:00
Luc Maisonobe 1dd611f794 Added throw declarations for package util.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381283 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 18:29:47 +00:00
Luc Maisonobe 003f022df4 Added throw declarations for FieldElements.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381282 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 18:23:54 +00:00
Gilles Sadowski 52582d8c45 Update for MATH-841 and MATH-855.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381212 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 14:51:46 +00:00
Gilles Sadowski 68fe06032a MATH-841
Performance improvement in method "gcd(int, int)" (~2 to 4 times faster than
the previous implementation). Thanks to Sebastien Riou.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381206 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 14:46:59 +00:00
Gilles Sadowski 350f726ce5 MATH-855
The best point is sometimes not the last one evaluated.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381195 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 14:22:44 +00:00
Phil Steitz 04b34cc1a5 Added density - cdf consistency test.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1381029 13f79535-47bb-0310-9956-ffa450edef68
2012-09-05 06:53:45 +00:00
Sebastien Brisard 8a0fef0fb7 MATH-854: fill the throws clause of all methods.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1380444 13f79535-47bb-0310-9956-ffa450edef68
2012-09-04 04:10:09 +00:00
Sebastien Brisard 4e7d797b1c MATH-854: fill the throws clause of all methods.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1380440 13f79535-47bb-0310-9956-ffa450edef68
2012-09-04 03:08:31 +00:00
Sebastien Brisard 56a22909a1 MATH-854: populate the throws clause in package o.a.c.m.linear.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1380122 13f79535-47bb-0310-9956-ffa450edef68
2012-09-03 03:54:23 +00:00
Luc Maisonobe 9e933debcb Populate throws declarations for geometry package.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379977 13f79535-47bb-0310-9956-ffa450edef68
2012-09-02 14:22:52 +00:00
Luc Maisonobe e8e94f5936 populate throws declaration for ODE package
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379975 13f79535-47bb-0310-9956-ffa450edef68
2012-09-02 14:21:00 +00:00
Luc Maisonobe 46d95b23ff Updated error message with new parameters.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379974 13f79535-47bb-0310-9956-ffa450edef68
2012-09-02 14:19:55 +00:00
Luc Maisonobe 449f2d4f79 Javadoc formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379973 13f79535-47bb-0310-9956-ffa450edef68
2012-09-02 14:19:10 +00:00
Gilles Sadowski 98e56e813d "final" keyword.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379905 13f79535-47bb-0310-9956-ffa450edef68
2012-09-01 23:56:50 +00:00
Gilles Sadowski aa79abed6d MATH-854
Populate "throws" clause.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379904 13f79535-47bb-0310-9956-ffa450edef68
2012-09-01 23:54:52 +00:00
Gilles Sadowski 0af91ecfbe MATH-854
Populate "throws" clause.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379560 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 19:40:30 +00:00
Sebastien Brisard 86f09b3e1f MATH-849: added new test in GammaDistributionTest to check that new
implementation of Gamma.logGamma does not compromise the resolution of
MATH-735.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379271 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 03:14:03 +00:00
Sebastien Brisard aa2da41c68 MATH-849: changed boundary case x = 8.0 in double Gamma.logGamma(double).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379270 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 03:12:16 +00:00
Sebastien Brisard 4a15003955 Formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379262 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 02:51:24 +00:00
Sebastien Brisard cf1f553dc6 MATH-849: implementation of double Gamma.gamma(double).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379261 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 02:48:29 +00:00
Sebastien Brisard c1c7da271b MATH-849: further tests of double Gamma.logGamma(double).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379256 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 02:13:25 +00:00
Sebastien Brisard c4f81a87ee MATH-849: unit tests for double Gamma.logGamma1p(double).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379255 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 02:01:11 +00:00
Sebastien Brisard 1398a16c7c Formatting (removed Eclipse tags @formatter:on, @formatter:off)
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379254 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 01:59:12 +00:00
Sebastien Brisard 99a9552531 MATH-849: unit tests for double Gamma.invGamma1pm1(double).
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379253 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 01:57:50 +00:00
Sebastien Brisard 8a3dd3725f Formatting.
git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379252 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 01:53:19 +00:00
Sebastien Brisard 74b5b44868 MATH-849: refined the test of logGamma(x) near x = 1.0, 2.0 and 3.0, which
were difficult zones in the previous (Lanczos) implementation.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379247 13f79535-47bb-0310-9956-ffa450edef68
2012-08-31 01:31:47 +00:00
Gilles Sadowski 8170e47c22 MATH-854
Populate "throws" clause.


git-svn-id: https://svn.apache.org/repos/asf/commons/proper/math/trunk@1379218 13f79535-47bb-0310-9956-ffa450edef68
2012-08-30 23:18:57 +00:00