kscience/kmath
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Moved to scientifik plugin. Removed depricated Vector

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This commit is contained in:
Alexander Nozik 2019-07-17 14:21:37 +03:00
parent d4cd4fd426
commit 7f3dd95e72
28 changed files with 136 additions and 521 deletions
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18
build.gradle.kts
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@ -1,9 +1,18 @@
val kmathVersion by extra("0.1.3")
plugins {
id("scientifik.mpp") version "0.1.3" apply false
id("scientifik.publish") version "0.1.3" apply false
id("kotlinx-atomicfu") version "0.12.9" apply false
}
val kmathVersion by extra("0.1.4-dev-1")
val bintrayRepo by extra("scientifik")
val githubProject by extra("kmath")
allprojects {
repositories {
jcenter()
maven("https://kotlin.bintray.com/kotlinx")
maven("https://dl.bintray.com/kotlin/kotlinx")
}
group = "scientifik"
@ -11,8 +20,7 @@ allprojects {
}
subprojects {
apply(plugin = "dokka-publish")
if (name.startsWith("kmath")) {
apply(plugin = "npm-publish")
apply(plugin = "scientifik.publish")
}
}
}

20
buildSrc/build.gradle.kts
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@ -1,20 +0,0 @@
plugins {
`kotlin-dsl`
}
repositories {
gradlePluginPortal()
jcenter()
}
val kotlinVersion = "1.3.31"
// Add plugins used in buildSrc as dependencies, also we should specify version only here
dependencies {
implementation("org.jetbrains.kotlin:kotlin-gradle-plugin:$kotlinVersion")
implementation("org.jfrog.buildinfo:build-info-extractor-gradle:4.9.6")
implementation("com.jfrog.bintray.gradle:gradle-bintray-plugin:1.8.4")
implementation("org.jetbrains.dokka:dokka-gradle-plugin:0.9.18")
implementation("com.moowork.gradle:gradle-node-plugin:1.3.1")
implementation("org.openjfx:javafx-plugin:0.0.7")
}

0
buildSrc/settings.gradle.kts
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9
buildSrc/src/main/kotlin/Versions.kt
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@ -1,9 +0,0 @@
// Instead of defining runtime properties and use them dynamically
// define version in buildSrc and have autocompletion and compile-time check
// Also dependencies itself can be moved here
object Versions {
val ioVersion = "0.1.8"
val coroutinesVersion = "1.2.1"
val atomicfuVersion = "0.12.6"
val serializationVersion = "0.11.0"
}

75
buildSrc/src/main/kotlin/dokka-publish.gradle.kts
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@ -1,75 +0,0 @@
import org.jetbrains.dokka.gradle.DokkaTask
import org.jetbrains.kotlin.gradle.dsl.KotlinJvmProjectExtension
import org.jetbrains.kotlin.gradle.dsl.KotlinMultiplatformExtension
plugins {
id("org.jetbrains.dokka")
`maven-publish`
}
afterEvaluate {
extensions.findByType<KotlinMultiplatformExtension>()?.apply{
val dokka by tasks.getting(DokkaTask::class) {
outputFormat = "html"
outputDirectory = "$buildDir/javadoc"
jdkVersion = 8
kotlinTasks {
// dokka fails to retrieve sources from MPP-tasks so we only define the jvm task
listOf(tasks.getByPath("compileKotlinJvm"))
}
sourceRoot {
// assuming only single source dir
path = sourceSets["commonMain"].kotlin.srcDirs.first().toString()
platforms = listOf("Common")
}
// although the JVM sources are now taken from the task,
// we still define the jvm source root to get the JVM marker in the generated html
sourceRoot {
// assuming only single source dir
path = sourceSets["jvmMain"].kotlin.srcDirs.first().toString()
platforms = listOf("JVM")
}
}
val kdocJar by tasks.registering(Jar::class) {
group = JavaBasePlugin.DOCUMENTATION_GROUP
dependsOn(dokka)
archiveClassifier.set("javadoc")
from("$buildDir/javadoc")
}
configure<PublishingExtension> {
targets.all {
val publication = publications.findByName(name) as MavenPublication
// Patch publications with fake javadoc
publication.artifact(kdocJar.get())
}
}
}
extensions.findByType<KotlinJvmProjectExtension>()?.apply{
val dokka by tasks.getting(DokkaTask::class) {
outputFormat = "html"
outputDirectory = "$buildDir/javadoc"
jdkVersion = 8
}
val kdocJar by tasks.registering(Jar::class) {
group = JavaBasePlugin.DOCUMENTATION_GROUP
dependsOn(dokka)
archiveClassifier.set("javadoc")
from("$buildDir/javadoc")
}
configure<PublishingExtension> {
publications.filterIsInstance<MavenPublication>().forEach { publication ->
publication.artifact(kdocJar.get())
}
}
}
}

44
buildSrc/src/main/kotlin/js-test.gradle.kts
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@ -1,44 +0,0 @@
import com.moowork.gradle.node.npm.NpmTask
import com.moowork.gradle.node.task.NodeTask
import org.gradle.kotlin.dsl.*
import org.jetbrains.kotlin.gradle.tasks.Kotlin2JsCompile
plugins {
id("com.moowork.node")
kotlin("multiplatform")
}
node {
nodeModulesDir = file("$buildDir/node_modules")
}
val compileKotlinJs by tasks.getting(Kotlin2JsCompile::class)
val compileTestKotlinJs by tasks.getting(Kotlin2JsCompile::class)
val populateNodeModules by tasks.registering(Copy::class) {
dependsOn(compileKotlinJs)
from(compileKotlinJs.destinationDir)
kotlin.js().compilations["test"].runtimeDependencyFiles.forEach {
if (it.exists() && !it.isDirectory) {
from(zipTree(it.absolutePath).matching { include("*.js") })
}
}
into("$buildDir/node_modules")
}
val installMocha by tasks.registering(NpmTask::class) {
setWorkingDir(buildDir)
setArgs(listOf("install", "mocha"))
}
val runMocha by tasks.registering(NodeTask::class) {
dependsOn(compileTestKotlinJs, populateNodeModules, installMocha)
setScript(file("$buildDir/node_modules/mocha/bin/mocha"))
setArgs(listOf(compileTestKotlinJs.outputFile))
}
tasks["jsTest"].dependsOn(runMocha)

103
buildSrc/src/main/kotlin/npm-multiplatform.gradle.kts
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@ -1,103 +0,0 @@
import com.jfrog.bintray.gradle.tasks.BintrayUploadTask
import org.gradle.api.publish.maven.internal.artifact.FileBasedMavenArtifact
import org.jfrog.gradle.plugin.artifactory.task.ArtifactoryTask
plugins {
kotlin("multiplatform")
`maven-publish`
}
kotlin {
jvm {
compilations.all {
kotlinOptions {
jvmTarget = "1.8"
}
}
}
js {
compilations.all {
kotlinOptions {
metaInfo = true
sourceMap = true
sourceMapEmbedSources = "always"
moduleKind = "commonjs"
}
}
compilations.named("main") {
kotlinOptions {
main = "call"
}
}
}
sourceSets {
val commonMain by getting {
dependencies {
api(kotlin("stdlib"))
}
}
val commonTest by getting {
dependencies {
implementation(kotlin("test-common"))
implementation(kotlin("test-annotations-common"))
}
}
val jvmMain by getting {
dependencies {
api(kotlin("stdlib-jdk8"))
}
}
val jvmTest by getting {
dependencies {
implementation(kotlin("test"))
implementation(kotlin("test-junit"))
}
}
val jsMain by getting {
dependencies {
api(kotlin("stdlib-js"))
}
}
val jsTest by getting {
dependencies {
implementation(kotlin("test-js"))
}
}
}
targets.all {
sourceSets.all {
languageSettings.progressiveMode = true
languageSettings.enableLanguageFeature("InlineClasses")
}
}
// Apply JS test configuration
val runJsTests by ext(false)
if (runJsTests) {
apply(plugin = "js-test")
}
}
//workaround for bintray and artifactory
project.tasks.filter { it is ArtifactoryTask || it is BintrayUploadTask }.forEach {
it.doFirst {
project.configure<PublishingExtension> {
publications.filterIsInstance<MavenPublication>()
.forEach { publication ->
val moduleFile = project.buildDir.resolve("publications/${publication.name}/module.json")
if (moduleFile.exists()) {
publication.artifact(object : FileBasedMavenArtifact(moduleFile) {
override fun getDefaultExtension() = "module"
})
}
}
}
}
}

120
buildSrc/src/main/kotlin/npm-publish.gradle.kts
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@ -1,120 +0,0 @@
@file:Suppress("UnstableApiUsage")
import com.jfrog.bintray.gradle.tasks.BintrayUploadTask
import groovy.lang.GroovyObject
import org.gradle.api.publish.maven.internal.artifact.FileBasedMavenArtifact
import org.jfrog.gradle.plugin.artifactory.dsl.PublisherConfig
import org.jfrog.gradle.plugin.artifactory.dsl.ResolverConfig
// Old bintray.gradle script converted to real Gradle plugin (precompiled script plugin)
// It now has own dependencies and support type safe accessors
// Syntax is pretty close to what we had in Groovy
// (excluding Property.set and bintray dynamic configs)
plugins {
`maven-publish`
id("com.jfrog.bintray")
id("com.jfrog.artifactory")
}
val vcs = "https://github.com/mipt-npm/kmath"
val bintrayRepo = "https://bintray.com/mipt-npm/scientifik"
// Configure publishing
publishing {
repositories {
maven(bintrayRepo)
}
// Process each publication we have in this project
publications.filterIsInstance<MavenPublication>().forEach { publication ->
// use type safe pom config GSL instead of old dynamic
publication.pom {
name.set(project.name)
description.set(project.description)
url.set(vcs)
licenses {
license {
name.set("The Apache Software License, Version 2.0")
url.set("http://www.apache.org/licenses/LICENSE-2.0.txt")
distribution.set("repo")
}
}
developers {
developer {
id.set("MIPT-NPM")
name.set("MIPT nuclear physics methods laboratory")
organization.set("MIPT")
organizationUrl.set("http://npm.mipt.ru")
}
}
scm {
url.set(vcs)
}
}
}
}
bintray {
user = findProperty("bintrayUser") as? String ?: System.getenv("BINTRAY_USER")
key = findProperty("bintrayApiKey") as? String? ?: System.getenv("BINTRAY_API_KEY")
publish = true
override = true // for multi-platform Kotlin/Native publishing
// We have to use delegateClosureOf because bintray supports only dynamic groovy syntax
// this is a problem of this plugin
pkg.apply {
userOrg = "mipt-npm"
repo = "scientifik"
name = project.name
issueTrackerUrl = "$vcs/issues"
setLicenses("Apache-2.0")
vcsUrl = vcs
version.apply {
name = project.version.toString()
vcsTag = project.version.toString()
released = java.util.Date().toString()
}
}
//workaround bintray bug
afterEvaluate {
setPublications(*publishing.publications.names.toTypedArray())
}
tasks {
bintrayUpload {
dependsOn(publishToMavenLocal)
}
}
}
artifactory {
val artifactoryUser: String? by project
val artifactoryPassword: String? by project
val artifactoryContextUrl = "http://npm.mipt.ru:8081/artifactory"
setContextUrl(artifactoryContextUrl)//The base Artifactory URL if not overridden by the publisher/resolver
publish(delegateClosureOf<PublisherConfig> {
repository(delegateClosureOf<GroovyObject> {
setProperty("repoKey", "gradle-dev-local")
setProperty("username", artifactoryUser)
setProperty("password", artifactoryPassword)
})
defaults(delegateClosureOf<GroovyObject> {
invokeMethod("publications", arrayOf("jvm", "js", "kotlinMultiplatform", "metadata"))
})
})
resolve(delegateClosureOf<ResolverConfig> {
repository(delegateClosureOf<GroovyObject> {
setProperty("repoKey", "gradle-dev")
setProperty("username", artifactoryUser)
setProperty("password", artifactoryPassword)
})
})
}

17
examples/build.gradle.kts
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@ -1,12 +1,11 @@
import org.jetbrains.gradle.benchmarks.JvmBenchmarkTarget
import org.jetbrains.kotlin.allopen.gradle.AllOpenExtension
import org.jetbrains.kotlin.gradle.tasks.KotlinCompile
plugins {
java
kotlin("jvm")
kotlin("plugin.allopen") version "1.3.31"
id("org.jetbrains.gradle.benchmarks.plugin") version "0.1.7-dev-24"
kotlin("plugin.allopen") version "1.3.41"
id("kotlinx.benchmark") version "0.2.0-dev-2"
}
configure<AllOpenExtension> {
@ -16,7 +15,8 @@ configure<AllOpenExtension> {
repositories {
maven("https://dl.bintray.com/kotlin/kotlin-eap")
maven("http://dl.bintray.com/kyonifer/maven")
maven("https://dl.bintray.com/orangy/maven")
maven ("https://dl.bintray.com/orangy/maven")
mavenCentral()
}
@ -30,9 +30,9 @@ dependencies {
implementation(project(":kmath-commons"))
implementation(project(":kmath-koma"))
implementation("com.kyonifer:koma-core-ejml:0.12")
implementation("org.jetbrains.kotlinx:kotlinx-io-jvm:0.1.5")
implementation("org.jetbrains.kotlinx:kotlinx-io-jvm:${Scientifik.ioVersion}")
implementation("org.jetbrains.gradle.benchmarks:runtime:0.1.7-dev-24")
implementation("org.jetbrains.kotlinx:kotlinx.benchmark.runtime:0.2.0-dev-2")
"benchmarksCompile"(sourceSets.main.get().compileClasspath)
@ -43,10 +43,7 @@ benchmark {
// Setup configurations
targets {
// This one matches sourceSet name above
register("benchmarks") {
this as JvmBenchmarkTarget
jmhVersion = "1.21"
}
register("benchmarks")
}
configurations {

2
gradle/wrapper/gradle-wrapper.properties vendored
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@ -1,5 +1,5 @@
distributionBase=GRADLE_USER_HOME
distributionPath=wrapper/dists
distributionUrl=https\://services.gradle.org/distributions/gradle-5.4-bin.zip
distributionUrl=https\://services.gradle.org/distributions/gradle-5.5.1-bin.zip
zipStoreBase=GRADLE_USER_HOME
zipStorePath=wrapper/dists

2
gradlew vendored
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@ -7,7 +7,7 @@
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,

2
gradlew.bat vendored
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@ -5,7 +5,7 @@
@rem you may not use this file except in compliance with the License.
@rem You may obtain a copy of the License at
@rem
@rem http://www.apache.org/licenses/LICENSE-2.0
@rem https://www.apache.org/licenses/LICENSE-2.0
@rem
@rem Unless required by applicable law or agreed to in writing, software
@rem distributed under the License is distributed on an "AS IS" BASIS,

2
kmath-core/build.gradle.kts
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@ -1,5 +1,5 @@
plugins {
`npm-multiplatform`
id("scientifik.mpp")
}
kotlin.sourceSets {

2
kmath-core/src/commonMain/kotlin/scientifik/kmath/linear/LUPDecomposition.kt
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@ -183,7 +183,7 @@ fun <T : Any> LUPDecomposition<T>.solve(type: KClass<T>, matrix: Matrix<T>): Mat
elementContext.run {
// Apply permutations to b
val bp = create { i, j -> zero }
val bp = create { _, _ -> zero }
for (row in 0 until pivot.size) {
val bpRow = bp.row(row)

16
kmath-core/src/commonMain/kotlin/scientifik/kmath/linear/LinearAlgrebra.kt
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@ -3,10 +3,12 @@ package scientifik.kmath.linear
import scientifik.kmath.operations.Field
import scientifik.kmath.operations.Norm
import scientifik.kmath.operations.RealField
import scientifik.kmath.structures.Buffer
import scientifik.kmath.structures.Matrix
import scientifik.kmath.structures.VirtualBuffer
import scientifik.kmath.structures.asSequence
typealias Point<T> = Buffer<T>
/**
* A group of methods to resolve equation A dot X = B, where A and B are matrices or vectors
@ -17,20 +19,6 @@ interface LinearSolver<T : Any> {
fun inverse(a: Matrix<T>): Matrix<T>
}
/**
* Convert vector to array (copying content of array)
*/
fun <T : Any> Array<T>.toVector(field: Field<T>) = Vector.generic(size, field) { this[it] }
fun DoubleArray.toVector() = Vector.real(this.size) { this[it] }
fun List<Double>.toVector() = Vector.real(this.size) { this[it] }
object VectorL2Norm : Norm<Point<out Number>, Double> {
override fun norm(arg: Point<out Number>): Double =
kotlin.math.sqrt(arg.asSequence().sumByDouble { it.toDouble() })
}
typealias RealVector = Vector<Double, RealField>
typealias RealMatrix = Matrix<Double>
/**

48
kmath-core/src/commonMain/kotlin/scientifik/kmath/linear/RealVector.kt Normal file
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@ -0,0 +1,48 @@
package scientifik.kmath.linear
import scientifik.kmath.operations.Field
import scientifik.kmath.operations.Norm
import scientifik.kmath.operations.RealField
import scientifik.kmath.operations.SpaceElement
import scientifik.kmath.structures.Buffer
import scientifik.kmath.structures.DoubleBuffer
import scientifik.kmath.structures.asBuffer
import scientifik.kmath.structures.asSequence
fun DoubleArray.asVector() = RealVector(this.asBuffer())
fun List<Double>.asVector() = RealVector(this.asBuffer())
object VectorL2Norm : Norm<Point<out Number>, Double> {
override fun norm(arg: Point<out Number>): Double =
kotlin.math.sqrt(arg.asSequence().sumByDouble { it.toDouble() })
}
inline class RealVector(val point: Point<Double>) :
SpaceElement<Point<Double>, RealVector, VectorSpace<Double, RealField>>, Point<Double> {
override val context: VectorSpace<Double, RealField> get() = space(point.size)
override fun unwrap(): Point<Double> = point
override fun Point<Double>.wrap(): RealVector = RealVector(this)
override val size: Int get() = point.size
override fun get(index: Int): Double = point[index]
override fun iterator(): Iterator<Double> = point.iterator()
companion object {
private val spaceCache = HashMap<Int, BufferVectorSpace<Double, RealField>>()
inline operator fun invoke(dim:Int, initalizer: (Int)-> Double) = RealVector(DoubleBuffer(dim, initalizer))
operator fun invoke(vararg values: Double) = values.asVector()
fun space(dim: Int) =
spaceCache.getOrPut(dim) {
BufferVectorSpace(dim, RealField) { size, init -> Buffer.real(size, init) }
}
}
}

71
kmath-core/src/commonMain/kotlin/scientifik/kmath/linear/Vector.kt
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@ -1,71 +0,0 @@
package scientifik.kmath.linear
import scientifik.kmath.operations.RealField
import scientifik.kmath.operations.Space
import scientifik.kmath.operations.SpaceElement
import scientifik.kmath.structures.Buffer
import scientifik.kmath.structures.asSequence
import kotlin.jvm.JvmName
typealias Point<T> = Buffer<T>
fun <T : Any, S : Space<T>> BufferVectorSpace<T, S>.produceElement(initializer: (Int) -> T): Vector<T, S> =
BufferVector(this, produce(initializer))
@JvmName("produceRealElement")
fun BufferVectorSpace<Double, RealField>.produceElement(initializer: (Int) -> Double): Vector<Double, RealField> =
BufferVector(this, produce(initializer))
/**
* A point coupled to the linear space
*/
@Deprecated("Use VectorContext instead")
interface Vector<T : Any, S : Space<T>> : SpaceElement<Point<T>, Vector<T, S>, VectorSpace<T, S>>, Point<T> {
override val size: Int get() = context.size
override operator fun plus(b: Point<T>): Vector<T, S> = context.add(this, b).wrap()
override operator fun minus(b: Point<T>): Vector<T, S> = context.add(this, context.multiply(b, -1.0)).wrap()
override operator fun times(k: Number): Vector<T, S> = context.multiply(this, k.toDouble()).wrap()
override operator fun div(k: Number): Vector<T, S> = context.multiply(this, 1.0 / k.toDouble()).wrap()
companion object {
/**
* Create vector with custom field
*/
fun <T : Any, S : Space<T>> generic(size: Int, field: S, initializer: (Int) -> T): Vector<T, S> =
VectorSpace.buffered(size, field).produceElement(initializer)
fun real(size: Int, initializer: (Int) -> Double): Vector<Double, RealField> =
VectorSpace.real(size).produceElement(initializer)
fun ofReal(vararg elements: Double): Vector<Double, RealField> =
VectorSpace.real(elements.size).produceElement { elements[it] }
}
}
@Deprecated("Use VectorContext instead")
data class BufferVector<T : Any, S : Space<T>>(override val context: VectorSpace<T, S>, val buffer: Buffer<T>) :
Vector<T, S> {
init {
if (context.size != buffer.size) {
error("Array dimension mismatch")
}
}
override fun get(index: Int): T {
return buffer[index]
}
override fun unwrap(): Point<T> = this
override fun Point<T>.wrap(): Vector<T, S> = BufferVector(context, this)
override fun iterator(): Iterator<T> = (0 until size).map { buffer[it] }.iterator()
override fun toString(): String =
this.asSequence().joinToString(prefix = "[", postfix = "]", separator = ", ") { it.toString() }
}

10
kmath-core/src/commonTest/kotlin/scientifik/kmath/linear/MatrixTest.kt
View File

@ -8,15 +8,15 @@ class MatrixTest {
@Test
fun testSum() {
val vector1 = Vector.real(5) { it.toDouble() }
val vector2 = Vector.real(5) { 5 - it.toDouble() }
val vector1 = RealVector(5) { it.toDouble() }
val vector2 = RealVector(5) { 5 - it.toDouble() }
val sum = vector1 + vector2
assertEquals(5.0, sum[2])
}
@Test
fun testVectorToMatrix() {
val vector = Vector.real(5) { it.toDouble() }
val vector = RealVector(5) { it.toDouble() }
val matrix = vector.asMatrix()
assertEquals(4.0, matrix[4, 0])
}
@ -31,8 +31,8 @@ class MatrixTest {
@Test
fun testDot() {
val vector1 = Vector.real(5) { it.toDouble() }
val vector2 = Vector.real(5) { 5 - it.toDouble() }
val vector1 = RealVector(5) { it.toDouble() }
val vector2 = RealVector(5) { 5 - it.toDouble() }
val matrix1 = vector1.asMatrix()
val matrix2 = vector2.asMatrix().transpose()

16
kmath-coroutines/build.gradle.kts
View File

@ -1,26 +1,26 @@
plugins {
`npm-multiplatform`
id("kotlinx-atomicfu") version Versions.atomicfuVersion
id("scientifik.mpp")
id("kotlinx-atomicfu")
}
kotlin.sourceSets {
commonMain {
dependencies {
api(project(":kmath-core"))
api("org.jetbrains.kotlinx:kotlinx-coroutines-core-common:${Versions.coroutinesVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu-common:${Versions.atomicfuVersion}")
api("org.jetbrains.kotlinx:kotlinx-coroutines-core-common:${Scientifik.coroutinesVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu-common:${Scientifik.atomicfuVersion}")
}
}
jvmMain {
dependencies {
api("org.jetbrains.kotlinx:kotlinx-coroutines-core:${Versions.coroutinesVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu:${Versions.atomicfuVersion}")
api("org.jetbrains.kotlinx:kotlinx-coroutines-core:${Scientifik.coroutinesVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu:${Scientifik.atomicfuVersion}")
}
}
jsMain {
dependencies {
api("org.jetbrains.kotlinx:kotlinx-coroutines-core-js:${Versions.coroutinesVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu-js:${Versions.atomicfuVersion}")
api("org.jetbrains.kotlinx:kotlinx-coroutines-core-js:${Scientifik.coroutinesVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu-js:${Scientifik.atomicfuVersion}")
}
}
}

37
kmath-coroutines/src/commonMain/kotlin/scientifik/kmath/chains/Chain.kt
View File

@ -20,6 +20,8 @@ import kotlinx.atomicfu.atomic
import kotlinx.atomicfu.updateAndGet
import kotlinx.coroutines.FlowPreview
import kotlinx.coroutines.flow.Flow
import kotlinx.coroutines.sync.Mutex
import kotlinx.coroutines.sync.withLock
/**
@ -64,16 +66,22 @@ class SimpleChain<out R>(private val gen: suspend () -> R) : Chain<R> {
*/
class MarkovChain<out R : Any>(private val seed: suspend () -> R, private val gen: suspend (R) -> R) : Chain<R> {
constructor(seedValue: R, gen: suspend (R) -> R) : this({ seedValue }, gen)
//constructor(seedValue: R, gen: suspend (R) -> R) : this({ seedValue }, gen)
private val value = atomic<R?>(null)
private val mutex = Mutex()
private var value: R? = null
override suspend fun next(): R {
return value.updateAndGet { prev -> gen(prev ?: seed()) }!!
mutex.withLock {
val newValue = gen(value ?: seed())
value = newValue
return newValue
}
}
override fun fork(): Chain<R> {
return MarkovChain(seed = { value.value ?: seed() }, gen = gen)
return MarkovChain(seed = { value ?: seed() }, gen = gen)
}
}
@ -89,17 +97,22 @@ class StatefulChain<S, out R>(
private val gen: suspend S.(R) -> R
) : Chain<R> {
constructor(state: S, seedValue: R, forkState: ((S) -> S), gen: suspend S.(R) -> R) : this(
state,
{ seedValue },
forkState,
gen
)
// constructor(state: S, seedValue: R, forkState: ((S) -> S), gen: suspend S.(R) -> R) : this(
// state,
// { seedValue },
// forkState,
// gen
// )
private val mutex = Mutex()
private val atomicValue = atomic<R?>(null)
private var value: R? = null
override suspend fun next(): R {
return atomicValue.updateAndGet { prev -> state.gen(prev ?: state.seed()) }!!
mutex.withLock {
val newValue = state.gen(value ?: state.seed())
value = newValue
return newValue
}
}
override fun fork(): Chain<R> {

2
kmath-histograms/build.gradle.kts
View File

@ -1,5 +1,5 @@
plugins {
`npm-multiplatform`
id("scientifik.mpp")
}
kotlin.sourceSets.commonMain {

6
kmath-histograms/src/commonMain/kotlin/scientifik/kmath/histogram/RealHistogram.kt
View File

@ -1,7 +1,7 @@
package scientifik.kmath.histogram
import scientifik.kmath.linear.Point
import scientifik.kmath.linear.toVector
import scientifik.kmath.linear.asVector
import scientifik.kmath.operations.SpaceOperations
import scientifik.kmath.structures.*
import kotlin.math.floor
@ -132,8 +132,8 @@ class RealHistogram(
*/
fun fromRanges(vararg ranges: ClosedFloatingPointRange<Double>): RealHistogram {
return RealHistogram(
ranges.map { it.start }.toVector(),
ranges.map { it.endInclusive }.toVector()
ranges.map { it.start }.asVector(),
ranges.map { it.endInclusive }.asVector()
)
}

10
kmath-histograms/src/commonTest/kotlin/scietifik/kmath/histogram/MultivariateHistogramTest.kt
View File

@ -3,7 +3,7 @@ package scietifik.kmath.histogram
import scientifik.kmath.histogram.RealHistogram
import scientifik.kmath.histogram.fill
import scientifik.kmath.histogram.put
import scientifik.kmath.linear.Vector
import scientifik.kmath.linear.RealVector
import kotlin.random.Random
import kotlin.test.Test
import kotlin.test.assertEquals
@ -19,9 +19,9 @@ class MultivariateHistogramTest {
)
histogram.put(0.55, 0.55)
val bin = histogram.find { it.value.toInt() > 0 }!!
assertTrue { bin.contains(Vector.ofReal(0.55, 0.55)) }
assertTrue { bin.contains(Vector.ofReal(0.6, 0.5)) }
assertFalse { bin.contains(Vector.ofReal(-0.55, 0.55)) }
assertTrue { bin.contains(RealVector(0.55, 0.55)) }
assertTrue { bin.contains(RealVector(0.6, 0.5)) }
assertFalse { bin.contains(RealVector(-0.55, 0.55)) }
}
@Test
@ -39,7 +39,7 @@ class MultivariateHistogramTest {
histogram.fill {
repeat(n) {
yield(Vector.ofReal(nextDouble(), nextDouble(), nextDouble()))
yield(RealVector(nextDouble(), nextDouble(), nextDouble()))
}
}
assertEquals(n, histogram.sumBy { it.value.toInt() })

4
kmath-histograms/src/jvmMain/kotlin/scientifik/kmath/histogram/UnivariateHistogram.kt
View File

@ -1,7 +1,7 @@
package scientifik.kmath.histogram
import scientifik.kmath.linear.RealVector
import scientifik.kmath.linear.toVector
import scientifik.kmath.linear.asVector
import scientifik.kmath.structures.Buffer
import java.util.*
import kotlin.math.floor
@ -12,7 +12,7 @@ class UnivariateBin(val position: Double, val size: Double, val counter: LongCou
//TODO add weighting
override val value: Number get() = counter.sum()
override val center: RealVector get() = doubleArrayOf(position).toVector()
override val center: RealVector get() = doubleArrayOf(position).asVector()
operator fun contains(value: Double): Boolean = value in (position - size / 2)..(position + size / 2)

2
kmath-koma/build.gradle.kts
View File

@ -1,5 +1,5 @@
plugins {
`npm-multiplatform`
id("scientifik.mpp")
}
repositories {

2
kmath-memory/build.gradle.kts
View File

@ -1,3 +1,3 @@
plugins {
`npm-multiplatform`
id("scientifik.mpp")
}

10
kmath-prob/build.gradle.kts
View File

@ -1,25 +1,25 @@
plugins {
`npm-multiplatform`
id("kotlinx-atomicfu") version Versions.atomicfuVersion
id("scientifik.mpp")
id("kotlinx-atomicfu")
}
kotlin.sourceSets {
commonMain {
dependencies {
api(project(":kmath-coroutines"))
compileOnly("org.jetbrains.kotlinx:atomicfu-common:${Versions.atomicfuVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu-common:${Scientifik.atomicfuVersion}")
}
}
jvmMain {
dependencies {
// https://mvnrepository.com/artifact/org.apache.commons/commons-rng-simple
//api("org.apache.commons:commons-rng-sampling:1.2")
compileOnly("org.jetbrains.kotlinx:atomicfu:${Versions.atomicfuVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu:${Scientifik.atomicfuVersion}")
}
}
jsMain {
dependencies {
compileOnly("org.jetbrains.kotlinx:atomicfu-js:${Versions.atomicfuVersion}")
compileOnly("org.jetbrains.kotlinx:atomicfu-js:${Scientifik.atomicfuVersion}")
}
}

7
settings.gradle.kts
View File

@ -1,9 +1,11 @@
pluginManagement {
repositories {
mavenLocal()
jcenter()
gradlePluginPortal()
maven("https://dl.bintray.com/kotlin/kotlin-eap")
maven("https://dl.bintray.com/orangy/maven")
maven("https://dl.bintray.com/mipt-npm/scientifik")
maven("https://dl.bintray.com/kotlin/kotlinx")
}
resolutionStrategy {
eachPlugin {
@ -11,7 +13,8 @@ pluginManagement {
"kotlinx-atomicfu" -> useModule("org.jetbrains.kotlinx:atomicfu-gradle-plugin:${requested.version}")
"kotlin-multiplatform" -> useModule("org.jetbrains.kotlin:kotlin-gradle-plugin:${requested.version}")
"kotlin2js" -> useModule("org.jetbrains.kotlin:kotlin-gradle-plugin:${requested.version}")
//"org.jetbrains.kotlin.frontend" -> useModule("org.jetbrains.kotlin:kotlin-frontend-plugin:0.0.45")
"org.jetbrains.kotlin.frontend" -> useModule("org.jetbrains.kotlin:kotlin-frontend-plugin:0.0.45")
"scientifik.mpp", "scientifik.publish" -> useModule("scientifik:gradle-tools:${requested.version}")
}
}
}