Fix benchmarks

.idea/copyright/kmath.xml

@@ -1,6 +0,0 @@
-<component name="CopyrightManager">
-  <copyright>
-    <option name="notice" value="Copyright 2018-2021 KMath contributors.&#10;Use of this source code is governed by the Apache 2.0 license that can be found in the license/LICENSE.txt file." />
-    <option name="myName" value="kmath" />
-  </copyright>
-</component>

.idea/copyright/profiles_settings.xml

@@ -1,7 +0,0 @@
-<component name="CopyrightManager">
-  <settings default="kmath">
-    <module2copyright>
-      <element module="Project Files" copyright="kmath" />
-    </module2copyright>
-  </settings>
-</component>

CHANGELOG.md

@@ -22,6 +22,7 @@
 - Redesign advanced Chain API
 - Redesign MST. Remove MSTExpression.
 - Move MST to core
+- Separated benchmarks and examples
 
 ### Deprecated
 

benchmarks/build.gradle.kts

@@ -0,0 +1,147 @@
+/*
+ * Copyright 2018-2021 KMath contributors.
+ * Use of this source code is governed by the Apache 2.0 license that can be found in the license/LICENSE.txt file.
+ */
+
+import ru.mipt.npm.gradle.Maturity
+
+plugins {
+    kotlin("multiplatform")
+    kotlin("plugin.allopen")
+    id("org.jetbrains.kotlinx.benchmark")
+}
+
+allOpen.annotation("org.openjdk.jmh.annotations.State")
+sourceSets.register("benchmarks")
+
+
+
+repositories {
+    mavenCentral()
+    jcenter()
+    maven("https://repo.kotlin.link")
+    maven("https://clojars.org/repo")
+    maven("https://dl.bintray.com/egor-bogomolov/astminer/")
+    maven("https://dl.bintray.com/hotkeytlt/maven")
+    maven("https://jitpack.io")
+    maven {
+        setUrl("http://logicrunch.research.it.uu.se/maven/")
+        isAllowInsecureProtocol = true
+    }
+}
+
+kotlin {
+    jvm()
+
+    sourceSets {
+        val commonMain by getting {
+            dependencies {
+                implementation(project(":kmath-ast"))
+                implementation(project(":kmath-core"))
+                implementation(project(":kmath-coroutines"))
+                implementation(project(":kmath-complex"))
+                implementation(project(":kmath-stat"))
+                implementation(project(":kmath-dimensions"))
+                implementation(project(":kmath-for-real"))
+                implementation("org.jetbrains.kotlinx:kotlinx-benchmark-runtime:0.3.0")
+            }
+        }
+
+        val jvmMain by getting {
+            dependencies {
+                implementation(project(":kmath-commons"))
+                implementation(project(":kmath-ejml"))
+                implementation(project(":kmath-nd4j"))
+                implementation(project(":kmath-kotlingrad"))
+                implementation(project(":kmath-viktor"))
+                implementation("org.nd4j:nd4j-native:1.0.0-beta7")
+
+                //    uncomment if your system supports AVX2
+                //    val os = System.getProperty("os.name")
+                //
+                //    if (System.getProperty("os.arch") in arrayOf("x86_64", "amd64")) when {
+                //        os.startsWith("Windows") -> implementation("org.nd4j:nd4j-native:1.0.0-beta7:windows-x86_64-avx2")
+                //        os == "Linux" -> implementation("org.nd4j:nd4j-native:1.0.0-beta7:linux-x86_64-avx2")
+                //        os == "Mac OS X" -> implementation("org.nd4j:nd4j-native:1.0.0-beta7:macosx-x86_64-avx2")
+                //    } else
+                //    implementation("org.nd4j:nd4j-native-platform:1.0.0-beta7")
+            }
+        }
+    }
+}
+
+// Configure benchmark
+benchmark {
+    // Setup configurations
+    targets {
+        register("jvm")
+    }
+
+    configurations.register("buffer") {
+        warmups = 1 // number of warmup iterations
+        iterations = 3 // number of iterations
+        iterationTime = 500 // time in seconds per iteration
+        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
+        include("BufferBenchmark")
+    }
+
+    configurations.register("dot") {
+        warmups = 1 // number of warmup iterations
+        iterations = 3 // number of iterations
+        iterationTime = 500 // time in seconds per iteration
+        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
+        include("DotBenchmark")
+    }
+
+    configurations.register("expressions") {
+        warmups = 1 // number of warmup iterations
+        iterations = 3 // number of iterations
+        iterationTime = 500 // time in seconds per iteration
+        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
+        include("ExpressionsInterpretersBenchmark")
+    }
+
+    configurations.register("matrixInverse") {
+        warmups = 1 // number of warmup iterations
+        iterations = 3 // number of iterations
+        iterationTime = 500 // time in seconds per iteration
+        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
+        include("MatrixInverseBenchmark")
+    }
+
+    configurations.register("bigInt") {
+        warmups = 1 // number of warmup iterations
+        iterations = 3 // number of iterations
+        iterationTime = 500 // time in seconds per iteration
+        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
+        include("BigIntBenchmark")
+    }
+}
+
+// Fix kotlinx-benchmarks bug
+afterEvaluate {
+    val jvmBenchmarkJar by tasks.getting(org.gradle.jvm.tasks.Jar::class) {
+        duplicatesStrategy = org.gradle.api.file.DuplicatesStrategy.EXCLUDE
+    }
+}
+
+
+kotlin.sourceSets.all {
+    with(languageSettings) {
+        useExperimentalAnnotation("kotlin.contracts.ExperimentalContracts")
+        useExperimentalAnnotation("kotlin.ExperimentalUnsignedTypes")
+        useExperimentalAnnotation("space.kscience.kmath.misc.UnstableKMathAPI")
+    }
+}
+
+tasks.withType<org.jetbrains.kotlin.gradle.tasks.KotlinCompile> {
+    kotlinOptions {
+        jvmTarget = "11"
+        freeCompilerArgs = freeCompilerArgs + "-Xjvm-default=all"
+    }
+}
+
+
+readme {
+    maturity = Maturity.EXPERIMENTAL
+}

build.gradle.kts

@@ -25,7 +25,7 @@ allprojects {
     }
 
     group = "space.kscience"
-    version = "0.3.0-dev-6"
+    version = "0.3.0-dev-7"
 }
 
 subprojects {

examples/build.gradle.kts

@@ -8,29 +8,20 @@ import ru.mipt.npm.gradle.Maturity
 
 plugins {
     kotlin("jvm")
-    kotlin("plugin.allopen")
-    id("org.jetbrains.kotlinx.benchmark")
 }
 
-allOpen.annotation("org.openjdk.jmh.annotations.State")
-sourceSets.register("benchmarks")
-
 repositories {
+    mavenCentral()
     jcenter()
     maven("https://repo.kotlin.link")
     maven("https://clojars.org/repo")
     maven("https://dl.bintray.com/egor-bogomolov/astminer/")
     maven("https://dl.bintray.com/hotkeytlt/maven")
-    maven("https://dl.bintray.com/kotlin/kotlin-eap")
-    maven("https://dl.bintray.com/kotlin/kotlinx")
-    maven("https://dl.bintray.com/mipt-npm/dev")
-    maven("https://dl.bintray.com/mipt-npm/kscience")
     maven("https://jitpack.io")
     maven{
         setUrl("http://logicrunch.research.it.uu.se/maven/")
         isAllowInsecureProtocol = true
     }
-    mavenCentral()
 }
 
 dependencies {
@@ -48,7 +39,6 @@ dependencies {
 
     implementation(project(":kmath-for-real"))
 
-    implementation("org.deeplearning4j:deeplearning4j-core:1.0.0-beta7")
     implementation("org.nd4j:nd4j-native:1.0.0-beta7")
 
 //    uncomment if your system supports AVX2
@@ -61,62 +51,9 @@ dependencies {
 //    } else
     implementation("org.nd4j:nd4j-native-platform:1.0.0-beta7")
 
-    implementation("org.jetbrains.kotlinx:kotlinx-io:0.2.0-npm-dev-11")
-    implementation("org.jetbrains.kotlinx:kotlinx-benchmark-runtime:0.3.0")
     implementation("org.slf4j:slf4j-simple:1.7.30")
-
     // plotting
-    implementation("kscience.plotlykt:plotlykt-server:0.3.1-dev")
+    implementation("space.kscience:plotlykt-server:0.4.0-dev-2")
-
-    "benchmarksImplementation"("org.jetbrains.kotlinx:kotlinx.benchmark.runtime-jvm:0.2.0-dev-20")
-    "benchmarksImplementation"(sourceSets.main.get().output + sourceSets.main.get().runtimeClasspath)
-}
-
-// Configure benchmark
-benchmark {
-    // Setup configurations
-    targets.register("benchmarks")
-    // This one matches sourceSet name above
-
-    configurations.register("buffer") {
-        warmups = 1 // number of warmup iterations
-        iterations = 3 // number of iterations
-        iterationTime = 500 // time in seconds per iteration
-        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
-        include("BufferBenchmark")
-    }
-
-    configurations.register("dot") {
-        warmups = 1 // number of warmup iterations
-        iterations = 3 // number of iterations
-        iterationTime = 500 // time in seconds per iteration
-        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
-        include("DotBenchmark")
-    }
-
-    configurations.register("expressions") {
-        warmups = 1 // number of warmup iterations
-        iterations = 3 // number of iterations
-        iterationTime = 500 // time in seconds per iteration
-        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
-        include("ExpressionsInterpretersBenchmark")
-    }
-
-    configurations.register("matrixInverse") {
-        warmups = 1 // number of warmup iterations
-        iterations = 3 // number of iterations
-        iterationTime = 500 // time in seconds per iteration
-        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
-        include("MatrixInverseBenchmark")
-    }
-
-    configurations.register("bigInt") {
-        warmups = 1 // number of warmup iterations
-        iterations = 3 // number of iterations
-        iterationTime = 500 // time in seconds per iteration
-        iterationTimeUnit = "ms" // time unity for iterationTime, default is seconds
-        include("BigIntBenchmark")
-    }
 }
 
 kotlin.sourceSets.all {

examples/src/main/kotlin/space/kscience/kmath/commons/fit/fitWithAutoDiff.kt

@@ -7,9 +7,6 @@ package space.kscience.kmath.commons.fit
 
 import kotlinx.html.br
 import kotlinx.html.h3
-import kscience.plotly.*
-import kscience.plotly.models.ScatterMode
-import kscience.plotly.models.TraceValues
 import space.kscience.kmath.commons.optimization.chiSquared
 import space.kscience.kmath.commons.optimization.minimize
 import space.kscience.kmath.distributions.NormalDistribution
@@ -22,6 +19,9 @@ import space.kscience.kmath.real.step
 import space.kscience.kmath.stat.RandomGenerator
 import space.kscience.kmath.structures.asIterable
 import space.kscience.kmath.structures.toList
+import space.kscience.plotly.*
+import space.kscience.plotly.models.ScatterMode
+import space.kscience.plotly.models.TraceValues
 import kotlin.math.pow
 import kotlin.math.sqrt
 

kmath-complex/build.gradle.kts

@@ -12,10 +12,6 @@ plugins {
 }
 
 kotlin.sourceSets {
-    all {
-        languageSettings.useExperimentalAnnotation("kscience.kmath.misc.UnstableKMathAPI")
-    }
-
     commonMain {
         dependencies {
             api(project(":kmath-core"))

kmath-dimensions/build.gradle.kts

@@ -1,8 +1,3 @@
-/*
- * Copyright 2018-2021 KMath contributors.
- * Use of this source code is governed by the Apache 2.0 license that can be found in the license/LICENSE.txt file.
- */
-
 plugins {
     kotlin("multiplatform")
     id("ru.mipt.npm.gradle.common")

kmath-ejml/build.gradle.kts

@@ -1,10 +1,3 @@
-/*
- * Copyright 2018-2021 KMath contributors.
- * Use of this source code is governed by the Apache 2.0 license that can be found in the license/LICENSE.txt file.
- */
-
-import ru.mipt.npm.gradle.Maturity
-
 plugins {
     kotlin("jvm")
     id("ru.mipt.npm.gradle.common")
@@ -16,7 +9,7 @@ dependencies {
 }
 
 readme {
-    maturity = Maturity.PROTOTYPE
+    maturity = ru.mipt.npm.gradle.Maturity.PROTOTYPE
     propertyByTemplate("artifact", rootProject.file("docs/templates/ARTIFACT-TEMPLATE.md"))
 
     feature(

kmath-for-real/build.gradle.kts

@@ -1,10 +1,3 @@
-/*
- * Copyright 2018-2021 KMath contributors.
- * Use of this source code is governed by the Apache 2.0 license that can be found in the license/LICENSE.txt file.
- */
-
-import ru.mipt.npm.gradle.Maturity
-
 plugins {
     kotlin("multiplatform")
     id("ru.mipt.npm.gradle.common")
@@ -22,7 +15,7 @@ readme {
         All operations are specialized to work with `Double` numbers without declaring algebraic contexts.
         One can still use generic algebras though.
         """.trimIndent()
-    maturity = Maturity.EXPERIMENTAL
+    maturity = ru.mipt.npm.gradle.Maturity.EXPERIMENTAL
     propertyByTemplate("artifact", rootProject.file("docs/templates/ARTIFACT-TEMPLATE.md"))
 
     feature(

settings.gradle.kts

@@ -44,5 +44,6 @@ include(
     ":kmath-ast",
     ":kmath-ejml",
     ":kmath-kotlingrad",
-    ":examples"
+    ":examples",
+    ":benchmarks"
 )