CHANGELOG.md

@@ -12,6 +12,7 @@
 - A `Symbol` indexing scope.
 - Basic optimization API for Commons-math.
 - Chi squared optimization for array-like data in CM
+- `Fitting` utility object in prob/stat
 
 ### Changed
 - Package changed from `scientifik` to `kscience.kmath`.
@@ -21,6 +22,7 @@
 - Kotlin version: 1.3.72 -> 1.4.20-M1
 - `kmath-ast` doesn't depend on heavy `kotlin-reflect` library.
 - Full autodiff refactoring based on `Symbol`
+- `kmath-prob` renamed to `kmath-stat`
 
 ### Deprecated
 

README.md

@@ -99,7 +99,7 @@ can be used for a wide variety of purposes from high performance calculations to
 > - [buffers](kmath-core/src/commonMain/kotlin/kscience/kmath/structures/Buffers.kt) : One-dimensional structure
 > - [expressions](kmath-core/src/commonMain/kotlin/kscience/kmath/expressions) : Functional Expressions
 > - [domains](kmath-core/src/commonMain/kotlin/kscience/kmath/domains) : Domains
-> - [autodif](kmath-core/src/commonMain/kotlin/kscience/kmath/misc/AutoDiff.kt) : Automatic differentiation
+> - [autodif](kmath-core/src/commonMain/kotlin/kscience/kmath/expressions/SimpleAutoDiff.kt) : Automatic differentiation
 
 <hr/>
 
@@ -151,7 +151,7 @@ can be used for a wide variety of purposes from high performance calculations to
 > **Maturity**: EXPERIMENTAL
 <hr/>
 
-* ### [kmath-prob](kmath-prob)
+* ### [kmath-stat](kmath-stat)
 > 
 >
 > **Maturity**: EXPERIMENTAL
@@ -201,4 +201,4 @@ with the same artifact names.
 
 ## Contributing
 
-The project requires a lot of additional work. Please feel free to contribute in any way and propose new features.
+The project requires a lot of additional work. The most important thing we need is a feedback about what features are required the most. Feel free to open feature issues with requests. We are also welcome to code contributions, especially in issues marked as [waiting for a hero](https://github.com/mipt-npm/kmath/labels/waiting%20for%20a%20hero).

build.gradle.kts

@@ -2,7 +2,7 @@ plugins {
     id("ru.mipt.npm.project")
 }
 
-val kmathVersion: String by extra("0.2.0-dev-2")
+val kmathVersion: String by extra("0.2.0-dev-3")
 val bintrayRepo: String by extra("kscience")
 val githubProject: String by extra("kmath")
 

examples/build.gradle.kts

@@ -23,7 +23,7 @@ dependencies {
     implementation(project(":kmath-core"))
     implementation(project(":kmath-coroutines"))
     implementation(project(":kmath-commons"))
-    implementation(project(":kmath-prob"))
+    implementation(project(":kmath-stat"))
     implementation(project(":kmath-viktor"))
     implementation(project(":kmath-dimensions"))
     implementation(project(":kmath-ejml"))

examples/src/main/kotlin/kscience/kmath/commons/prob/DistributionBenchmark.kt

@@ -4,7 +4,7 @@ import kotlinx.coroutines.Dispatchers
 import kotlinx.coroutines.async
 import kotlinx.coroutines.runBlocking
 import kscience.kmath.chains.BlockingRealChain
-import kscience.kmath.prob.*
+import kscience.kmath.stat.*
 import org.apache.commons.rng.sampling.distribution.ZigguratNormalizedGaussianSampler
 import org.apache.commons.rng.simple.RandomSource
 import java.time.Duration

examples/src/main/kotlin/kscience/kmath/commons/prob/DistributionDemo.kt

@@ -3,9 +3,9 @@ package kscience.kmath.commons.prob
 import kotlinx.coroutines.runBlocking
 import kscience.kmath.chains.Chain
 import kscience.kmath.chains.collectWithState
-import kscience.kmath.prob.Distribution
+import kscience.kmath.stat.Distribution
-import kscience.kmath.prob.RandomGenerator
+import kscience.kmath.stat.RandomGenerator
-import kscience.kmath.prob.normal
+import kscience.kmath.stat.normal
 
 private data class AveragingChainState(var num: Int = 0, var value: Double = 0.0)
 

kmath-commons/build.gradle.kts

@@ -6,7 +6,7 @@ description = "Commons math binding for kmath"
 dependencies {
     api(project(":kmath-core"))
     api(project(":kmath-coroutines"))
-    api(project(":kmath-prob"))
+    api(project(":kmath-stat"))
     api(project(":kmath-functions"))
     api("org.apache.commons:commons-math3:3.6.1")
 }

kmath-commons/src/main/kotlin/kscience/kmath/commons/optimization/CMOptimizationProblem.kt

@@ -1,6 +1,10 @@
 package kscience.kmath.commons.optimization
 
 import kscience.kmath.expressions.*
+import kscience.kmath.stat.OptimizationFeature
+import kscience.kmath.stat.OptimizationProblem
+import kscience.kmath.stat.OptimizationProblemFactory
+import kscience.kmath.stat.OptimizationResult
 import org.apache.commons.math3.optim.*
 import org.apache.commons.math3.optim.nonlinear.scalar.GoalType
 import org.apache.commons.math3.optim.nonlinear.scalar.MultivariateOptimizer

kmath-commons/src/main/kotlin/kscience/kmath/commons/optimization/cmFit.kt

@@ -4,7 +4,9 @@ import kscience.kmath.commons.expressions.DerivativeStructureField
 import kscience.kmath.expressions.DifferentiableExpression
 import kscience.kmath.expressions.Expression
 import kscience.kmath.expressions.Symbol
-import kscience.kmath.prob.Fitting
+import kscience.kmath.stat.Fitting
+import kscience.kmath.stat.OptimizationResult
+import kscience.kmath.stat.optimizeWith
 import kscience.kmath.structures.Buffer
 import kscience.kmath.structures.asBuffer
 import org.apache.commons.math3.analysis.differentiation.DerivativeStructure

kmath-commons/src/main/kotlin/kscience/kmath/commons/random/CMRandomGeneratorWrapper.kt

@@ -1,6 +1,6 @@
 package kscience.kmath.commons.random
 
-import kscience.kmath.prob.RandomGenerator
+import kscience.kmath.stat.RandomGenerator
 
 public class CMRandomGeneratorWrapper(
     public val factory: (IntArray) -> RandomGenerator,

kmath-commons/src/test/kotlin/kscience/kmath/commons/optimization/OptimizeTest.kt

@@ -2,10 +2,10 @@ package kscience.kmath.commons.optimization
 
 import kscience.kmath.commons.expressions.DerivativeStructureExpression
 import kscience.kmath.expressions.symbol
-import kscience.kmath.prob.Distribution
+import kscience.kmath.stat.Distribution
-import kscience.kmath.prob.Fitting
+import kscience.kmath.stat.Fitting
-import kscience.kmath.prob.RandomGenerator
+import kscience.kmath.stat.RandomGenerator
-import kscience.kmath.prob.normal
+import kscience.kmath.stat.normal
 import kscience.kmath.structures.asBuffer
 import org.junit.jupiter.api.Test
 import kotlin.math.pow

kmath-core/README.md

@@ -7,7 +7,7 @@ The core features of KMath:
  - [buffers](src/commonMain/kotlin/kscience/kmath/structures/Buffers.kt) : One-dimensional structure
  - [expressions](src/commonMain/kotlin/kscience/kmath/expressions) : Functional Expressions
  - [domains](src/commonMain/kotlin/kscience/kmath/domains) : Domains
- - [autodif](src/commonMain/kotlin/kscience/kmath/misc/AutoDiff.kt) : Automatic differentiation
+ - [autodif](src/commonMain/kotlin/kscience/kmath/expressions/SimpleAutoDiff.kt) : Automatic differentiation
 
 
 > #### Artifact:

kmath-core/build.gradle.kts

@@ -41,6 +41,6 @@ readme {
     feature(
         id = "autodif",
         description = "Automatic differentiation",
-        ref = "src/commonMain/kotlin/kscience/kmath/misc/SimpleAutoDiff.kt"
+        ref = "src/commonMain/kotlin/kscience/kmath/expressions/SimpleAutoDiff.kt"
     )
 }

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/Distribution.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.chains.Chain
 import kscience.kmath.chains.collect

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/FactorizedDistribution.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.chains.Chain
 import kscience.kmath.chains.SimpleChain

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/Fitting.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.expressions.*
 import kscience.kmath.operations.ExtendedField

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/OptimizationProblem.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.commons.optimization
+package kscience.kmath.stat
 
 import kscience.kmath.expressions.DifferentiableExpression
 import kscience.kmath.expressions.Expression

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/RandomChain.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.chains.Chain
 

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/RandomGenerator.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kotlin.random.Random
 

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/SamplerAlgebra.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.chains.Chain
 import kscience.kmath.chains.ConstantChain

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/Statistic.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kotlinx.coroutines.CoroutineDispatcher
 import kotlinx.coroutines.Dispatchers

kmath-stat/src/commonMain/kotlin/kscience/kmath/stat/UniformDistribution.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.chains.Chain
 import kscience.kmath.chains.SimpleChain

kmath-stat/src/jvmMain/kotlin/kscience/kmath/stat/RandomSourceGenerator.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import org.apache.commons.rng.UniformRandomProvider
 import org.apache.commons.rng.simple.RandomSource

kmath-stat/src/jvmMain/kotlin/kscience/kmath/stat/distributions.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kscience.kmath.chains.BlockingIntChain
 import kscience.kmath.chains.BlockingRealChain

kmath-stat/src/jvmTest/kotlin/kscience/kmath/stat/CommonsDistributionsTest.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kotlinx.coroutines.flow.take
 import kotlinx.coroutines.flow.toList

kmath-stat/src/jvmTest/kotlin/kscience/kmath/stat/SamplerTest.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kotlinx.coroutines.runBlocking
 import kotlin.test.Test

kmath-stat/src/jvmTest/kotlin/kscience/kmath/stat/StatisticTest.kt

@@ -1,4 +1,4 @@
-package kscience.kmath.prob
+package kscience.kmath.stat
 
 import kotlinx.coroutines.flow.drop
 import kotlinx.coroutines.flow.first

settings.gradle.kts

@@ -34,7 +34,7 @@ include(
     ":kmath-histograms",
     ":kmath-commons",
     ":kmath-viktor",
-    ":kmath-prob",
+    ":kmath-stat",
     ":kmath-dimensions",
     ":kmath-for-real",
     ":kmath-geometry",