Delete GSL module
This commit is contained in:
Iaroslav Postovalov
parent
2a325b4bc8
commit
e8de7c5fb3
@ -1,9 +0,0 @@
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plugins {
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`kotlin-dsl`
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}
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repositories.jcenter()
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dependencies {
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implementation(kotlin("compiler-embeddable", "1.4.30"))
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}
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@ -1,73 +0,0 @@
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package kscience.kmath.gsl.codegen
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import org.jetbrains.kotlin.com.intellij.openapi.util.text.StringUtil
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import org.jetbrains.kotlin.com.intellij.psi.PsiFile
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import org.jetbrains.kotlin.com.intellij.psi.impl.DebugUtil
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import org.jetbrains.kotlin.com.intellij.psi.impl.source.PsiFileImpl
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import org.jetbrains.kotlin.com.intellij.testFramework.LightVirtualFile
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import org.jetbrains.kotlin.psi.KtFile
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import java.util.regex.Pattern
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import kotlin.math.min
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private val EOL_SPLIT_DONT_TRIM_PATTERN: Pattern = Pattern.compile("(\r|\n|\r\n)+")
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internal fun splitByLinesDontTrim(string: String): Array<String> = EOL_SPLIT_DONT_TRIM_PATTERN.split(string)
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internal object PsiTestUtil {
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fun checkFileStructure(file: KtFile) {
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compareFromAllRoots(file) { f -> DebugUtil.psiTreeToString(f, false) }
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}
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private fun compareFromAllRoots(
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file: KtFile,
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function: (PsiFile) -> String
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) {
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val dummyFile = createDummyCopy(file)
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val psiTree = StringUtil.join(
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file.viewProvider.allFiles,
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{ param -> function(param) },
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"\n"
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)
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val reparsedTree = StringUtil.join(
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dummyFile.viewProvider.allFiles,
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{ param -> function(param) },
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"\n"
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)
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assertPsiTextTreeConsistency(psiTree, reparsedTree)
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}
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private fun assertPsiTextTreeConsistency(psiTree: String, reparsedTree: String) {
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var psiTreeMutable = psiTree
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var reparsedTreeMutable = reparsedTree
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if (psiTreeMutable != reparsedTreeMutable) {
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val psiLines = splitByLinesDontTrim(psiTreeMutable)
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val reparsedLines = splitByLinesDontTrim(reparsedTreeMutable)
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var i = 0
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while (true) {
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if (i >= psiLines.size || i >= reparsedLines.size || psiLines[i] != reparsedLines[i]) {
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psiLines[min(i, psiLines.size - 1)] += " // in PSI structure"
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reparsedLines[min(i, reparsedLines.size - 1)] += " // re-created from text"
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break
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}
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i++
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}
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psiTreeMutable = StringUtil.join(*psiLines, "\n")
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reparsedTreeMutable = StringUtil.join(*reparsedLines, "\n")
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assert(reparsedTreeMutable == psiTreeMutable)
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}
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}
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private fun createDummyCopy(file: KtFile): PsiFile {
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val copy = LightVirtualFile(file.name, file.text)
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copy.originalFile = file.viewProvider.virtualFile
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val dummyCopy = requireNotNull(file.manager.findFile(copy))
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if (dummyCopy is PsiFileImpl) dummyCopy.originalFile = file
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return dummyCopy
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}
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}
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@ -1,70 +0,0 @@
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package kscience.kmath.gsl.codegen
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import org.jetbrains.kotlin.cli.common.CLIConfigurationKeys
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import org.jetbrains.kotlin.cli.common.messages.MessageCollector
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import org.jetbrains.kotlin.cli.jvm.compiler.EnvironmentConfigFiles
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import org.jetbrains.kotlin.cli.jvm.compiler.KotlinCoreEnvironment
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import org.jetbrains.kotlin.com.intellij.mock.MockProject
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import org.jetbrains.kotlin.com.intellij.openapi.extensions.ExtensionPoint
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import org.jetbrains.kotlin.com.intellij.openapi.extensions.Extensions
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import org.jetbrains.kotlin.com.intellij.openapi.util.UserDataHolderBase
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import org.jetbrains.kotlin.com.intellij.pom.PomModel
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import org.jetbrains.kotlin.com.intellij.pom.PomModelAspect
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import org.jetbrains.kotlin.com.intellij.pom.PomTransaction
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import org.jetbrains.kotlin.com.intellij.pom.impl.PomTransactionBase
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import org.jetbrains.kotlin.com.intellij.pom.tree.TreeAspect
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import org.jetbrains.kotlin.com.intellij.psi.PsiElement
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import org.jetbrains.kotlin.com.intellij.psi.impl.source.tree.TreeCopyHandler
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import org.jetbrains.kotlin.config.CompilerConfiguration
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import sun.reflect.ReflectionFactory
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internal fun createProject(): MockProject {
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val project = KotlinCoreEnvironment.createForProduction(
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{},
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CompilerConfiguration().apply { put(CLIConfigurationKeys.MESSAGE_COLLECTOR_KEY, MessageCollector.NONE) },
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EnvironmentConfigFiles.JVM_CONFIG_FILES
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).project as MockProject
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val extensionPoint = "org.jetbrains.kotlin.com.intellij.treeCopyHandler"
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arrayOf(project.extensionArea, Extensions.getRootArea())
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.asSequence()
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.filterNot { it.hasExtensionPoint(extensionPoint) }
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.forEach {
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it.registerExtensionPoint(extensionPoint, TreeCopyHandler::class.java.name, ExtensionPoint.Kind.INTERFACE)
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}
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project.registerService(PomModel::class.java, object : UserDataHolderBase(), PomModel {
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override fun runTransaction(transaction: PomTransaction) = (transaction as PomTransactionBase).run()
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@Suppress("UNCHECKED_CAST")
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override fun <T : PomModelAspect> getModelAspect(aspect: Class<T>): T? {
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if (aspect == TreeAspect::class.java) {
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val constructor = ReflectionFactory.getReflectionFactory().newConstructorForSerialization(
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aspect,
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Any::class.java.getDeclaredConstructor(*arrayOfNulls(0))
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)
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return constructor.newInstance() as T
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}
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return null
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}
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})
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return project
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}
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internal operator fun PsiElement.plusAssign(e: PsiElement) {
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add(e)
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}
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internal fun fn(pattern: String, type: String): String {
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if (type == "double") return pattern.replace("R", "_")
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return pattern.replace("R", "_${type}_")
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}
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internal fun sn(pattern: String, type: String): String {
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if (type == "double") return pattern.replace("R", "")
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return pattern.replace("R", "_$type")
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}
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@ -1,106 +0,0 @@
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package kscience.kmath.gsl.codegen
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import org.intellij.lang.annotations.Language
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import org.jetbrains.kotlin.com.intellij.openapi.project.Project
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import org.jetbrains.kotlin.name.FqName
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import org.jetbrains.kotlin.psi.KtFile
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import org.jetbrains.kotlin.psi.KtPsiFactory
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import org.jetbrains.kotlin.resolve.ImportPath
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import java.io.File
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private fun KtPsiFactory.createMatrixClass(
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f: KtFile,
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cTypeName: String,
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kotlinTypeName: String,
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kotlinTypeAlias: String = kotlinTypeName
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) {
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fun fn(pattern: String) = fn(pattern, cTypeName)
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val className = "Gsl${kotlinTypeAlias}Matrix"
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val structName = sn("gsl_matrixR", cTypeName)
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@Language("kotlin") val text = """internal class $className(
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override val rawNativeHandle: CPointer<$structName>,
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scope: AutofreeScope,
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owned: Boolean,
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) : GslMatrix<$kotlinTypeName, $structName>(scope, owned) {
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override val rowNum: Int
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get() = nativeHandle.pointed.size1.toInt()
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override val colNum: Int
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get() = nativeHandle.pointed.size2.toInt()
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override val rows: Buffer<Buffer<$kotlinTypeName>>
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get() = VirtualBuffer(rowNum) { r ->
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Gsl${kotlinTypeAlias}Vector(
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${fn("gsl_matrixRrow")}(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
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scope,
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false,
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)
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}
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override val columns: Buffer<Buffer<$kotlinTypeName>>
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get() = VirtualBuffer(rowNum) { c ->
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Gsl${kotlinTypeAlias}Vector(
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${fn("gsl_matrixRcolumn")}(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
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scope,
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false,
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)
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}
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override operator fun get(i: Int, j: Int): $kotlinTypeName =
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${fn("gsl_matrixRget")}(nativeHandle, i.toULong(), j.toULong())
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override operator fun set(i: Int, j: Int, value: ${kotlinTypeName}): Unit =
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${fn("gsl_matrixRset")}(nativeHandle, i.toULong(), j.toULong(), value)
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override fun copy(): $className {
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val new = checkNotNull(${fn("gsl_matrixRalloc")}(rowNum.toULong(), colNum.toULong()))
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${fn("gsl_matrixRmemcpy")}(new, nativeHandle)
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return $className(new, scope, true)
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}
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override fun close(): Unit = ${fn("gsl_matrixRfree")}(nativeHandle)
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override fun equals(other: Any?): Boolean {
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if (other is $className)
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return ${fn("gsl_matrixRequal")}(nativeHandle, other.nativeHandle) == 1
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return super.equals(other)
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}
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}"""
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f += createClass(text)
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f += createNewLine(2)
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}
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/**
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* Generates matrices source code for kmath-gsl.
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*/
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fun matricesCodegen(outputFile: String, project: Project = createProject()) {
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val f = KtPsiFactory(project, true).run {
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createFile("").also { f ->
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f += createPackageDirective(FqName("kscience.kmath.gsl"))
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f += createNewLine(2)
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f += createImportDirective(ImportPath.fromString("kotlinx.cinterop.*"))
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f += createNewLine(1)
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f += createImportDirective(ImportPath.fromString("kscience.kmath.structures.*"))
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f += createNewLine(1)
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f += createImportDirective(ImportPath.fromString("org.gnu.gsl.*"))
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f += createNewLine(2)
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createMatrixClass(f, "double", "Double", "Real")
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createMatrixClass(f, "float", "Float")
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createMatrixClass(f, "short", "Short")
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createMatrixClass(f, "ushort", "UShort")
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createMatrixClass(f, "long", "Long")
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createMatrixClass(f, "ulong", "ULong")
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createMatrixClass(f, "int", "Int")
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createMatrixClass(f, "uint", "UInt")
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}
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}
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PsiTestUtil.checkFileStructure(f)
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File(outputFile).apply {
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parentFile.mkdirs()
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writeText(f.text)
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}
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}
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@ -1,80 +0,0 @@
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package kscience.kmath.gsl.codegen
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import org.intellij.lang.annotations.Language
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import org.jetbrains.kotlin.com.intellij.openapi.project.Project
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import org.jetbrains.kotlin.name.FqName
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import org.jetbrains.kotlin.psi.KtFile
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import org.jetbrains.kotlin.psi.KtPsiFactory
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import org.jetbrains.kotlin.resolve.ImportPath
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import java.io.File
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private fun KtPsiFactory.createVectorClass(
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f: KtFile,
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cTypeName: String,
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kotlinTypeName: String,
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kotlinTypeAlias: String = kotlinTypeName
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) {
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fun fn(pattern: String) = fn(pattern, cTypeName)
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val className = "Gsl${kotlinTypeAlias}Vector"
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val structName = sn("gsl_vectorR", cTypeName)
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@Language("kotlin") val text =
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"""internal class $className(
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override val rawNativeHandle: CPointer<$structName>,
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scope: AutofreeScope,
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owned: Boolean,
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) : GslVector<$kotlinTypeName, $structName>(scope, owned) {
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override val size: Int get() = nativeHandle.pointed.size.toInt()
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override operator fun get(index: Int): $kotlinTypeName = ${fn("gsl_vectorRget")}(nativeHandle, index.toULong())
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override operator fun set(index: Int, value: $kotlinTypeName): Unit = ${fn("gsl_vectorRset")}(nativeHandle, index.toULong(), value)
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override fun copy(): $className {
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val new = checkNotNull(${fn("gsl_vectorRalloc")}(size.toULong()))
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${fn("gsl_vectorRmemcpy")}(new, nativeHandle)
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return ${className}(new, scope, true)
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}
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override fun equals(other: Any?): Boolean {
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if (other is $className)
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return ${fn("gsl_vectorRequal")}(nativeHandle, other.nativeHandle) == 1
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return super.equals(other)
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}
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override fun close(): Unit = ${fn("gsl_vectorRfree")}(nativeHandle)
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}"""
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f += createClass(text)
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f += createNewLine(2)
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}
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/**
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* Generates vectors source code for kmath-gsl.
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*/
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fun vectorsCodegen(outputFile: String, project: Project = createProject()) {
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val f = KtPsiFactory(project, true).run {
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createFile("").also { f ->
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f += createPackageDirective(FqName("kscience.kmath.gsl"))
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f += createNewLine(2)
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f += createImportDirective(ImportPath.fromString("kotlinx.cinterop.*"))
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f += createNewLine(1)
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f += createImportDirective(ImportPath.fromString("org.gnu.gsl.*"))
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f += createNewLine(2)
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createVectorClass(f, "double", "Double", "Real")
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createVectorClass(f, "float", "Float")
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createVectorClass(f, "short", "Short")
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createVectorClass(f, "ushort", "UShort")
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createVectorClass(f, "long", "Long")
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createVectorClass(f, "ulong", "ULong")
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createVectorClass(f, "int", "Int")
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createVectorClass(f, "uint", "UInt")
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}
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}
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PsiTestUtil.checkFileStructure(f)
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File(outputFile).apply {
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parentFile.mkdirs()
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writeText(f.text)
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}
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}
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@ -1,44 +0,0 @@
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# GNU Scientific Library Integration (`kmath-core`)
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This subproject implements the following features:
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- [matrix-contexts](src/nativeMain/kotlin/kscience/kmath/gsl/GslMatrixContext.kt) : Matrix Contexts over Double, Float and Complex implemented with GSL
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> #### Artifact:
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>
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> This module artifact: `kscience.kmath:kmath-gsl:0.2.0-dev-6`.
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>
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> Bintray release version: [  ](https://bintray.com/mipt-npm/kscience/kmath-gsl/_latestVersion)
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>
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> Bintray development version: [  ](https://bintray.com/mipt-npm/dev/kmath-gsl/_latestVersion)
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>
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> **Gradle:**
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>
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> ```gradle
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> repositories {
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> maven { url "https://dl.bintray.com/kotlin/kotlin-eap" }
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> maven { url 'https://dl.bintray.com/mipt-npm/kscience' }
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> maven { url 'https://dl.bintray.com/mipt-npm/dev' }
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> maven { url 'https://dl.bintray.com/hotkeytlt/maven' }
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>
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> }
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>
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> dependencies {
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> implementation 'kscience.kmath:kmath-gsl:0.2.0-dev-6'
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> }
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> ```
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> **Gradle Kotlin DSL:**
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>
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> ```kotlin
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> repositories {
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> maven("https://dl.bintray.com/kotlin/kotlin-eap")
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> maven("https://dl.bintray.com/mipt-npm/kscience")
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> maven("https://dl.bintray.com/mipt-npm/dev")
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> maven("https://dl.bintray.com/hotkeytlt/maven")
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> }
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>
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> dependencies {
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> implementation("kscience.kmath:kmath-gsl:0.2.0-dev-6")
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> }
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> ```
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@ -1,73 +0,0 @@
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@file:Suppress("UNUSED_VARIABLE")
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import kscience.kmath.gsl.codegen.matricesCodegen
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import kscience.kmath.gsl.codegen.vectorsCodegen
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import ru.mipt.npm.gradle.Maturity
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plugins {
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id("ru.mipt.npm.mpp")
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id("de.undercouch.download")
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}
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kotlin {
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explicitApiWarning()
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data class DownloadLinks(val gsl: String)
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lateinit var downloadLinks: DownloadLinks
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val nativeTarget = when (System.getProperty("os.name")) {
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// "Mac OS X" -> macosX64()
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"Linux" -> {
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downloadLinks = DownloadLinks(gsl = "")
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linuxX64()
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}
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else -> {
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logger.warn("Current OS cannot build any of kmath-gsl targets.")
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return@kotlin
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}
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}
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val main by nativeTarget.compilations.getting {
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cinterops {
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val libgsl by creating
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}
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}
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val test by nativeTarget.compilations.getting
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sourceSets {
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val nativeMain by creating {
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val codegen by tasks.creating {
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matricesCodegen(kotlin.srcDirs.first().absolutePath + "/kscience/kmath/gsl/_Matrices.kt")
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vectorsCodegen(kotlin.srcDirs.first().absolutePath + "/kscience/kmath/gsl/_Vectors.kt")
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}
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kotlin.srcDirs(files().builtBy(codegen))
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dependencies {
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api(project(":kmath-complex"))
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api(project(":kmath-core"))
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}
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}
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val nativeTest by creating {
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dependsOn(nativeMain)
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||||
}
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||||
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main.defaultSourceSet.dependsOn(nativeMain)
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||||
test.defaultSourceSet.dependsOn(nativeTest)
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||||
}
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||||
}
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readme {
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description = "Linear Algebra classes implemented with GNU Scientific Library"
|
||||
maturity = Maturity.PROTOTYPE
|
||||
propertyByTemplate("artifact", rootProject.file("docs/templates/ARTIFACT-TEMPLATE.md"))
|
||||
|
||||
feature(
|
||||
id = "matrix-contexts",
|
||||
description = "Matrix Contexts over Double, Float and Complex implemented with GSL",
|
||||
ref = "src/nativeMain/kotlin/kscience/kmath/gsl/GslMatrixContext.kt"
|
||||
)
|
||||
}
|
||||
@ -1,7 +0,0 @@
|
||||
# GNU Scientific Library Integration (`kmath-core`)
|
||||
|
||||
This subproject implements the following features:
|
||||
|
||||
${features}
|
||||
|
||||
${artifact}
|
||||
@ -1,6 +0,0 @@
|
||||
package=org.gnu.gsl
|
||||
headers=gsl/gsl_blas.h gsl/gsl_linalg.h gsl/gsl_permute_matrix.h
|
||||
compilerOpts.linux=-I/usr/include
|
||||
compilerOpts.osx=-I/usr/local -I/usr/local/include
|
||||
linkerOpts.linux=-L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -lgsl
|
||||
linkerOpts.osx=-L/opt/local/lib -L/usr/local/lib -lgsl
|
||||
@ -1,89 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.*
|
||||
import kscience.kmath.complex.Complex
|
||||
import kscience.kmath.structures.Buffer
|
||||
import kscience.kmath.structures.VirtualBuffer
|
||||
import org.gnu.gsl.*
|
||||
|
||||
internal fun CValue<gsl_complex>.toKMath(): Complex = useContents { Complex(dat[0], dat[1]) }
|
||||
|
||||
internal fun Complex.toGsl(): CValue<gsl_complex> = cValue {
|
||||
dat[0] = re
|
||||
dat[1] = im
|
||||
}
|
||||
|
||||
internal class GslComplexMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_complex>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<Complex, gsl_matrix_complex>(scope, owned) {
|
||||
override val rowNum: Int get() = nativeHandle.pointed.size1.toInt()
|
||||
override val colNum: Int get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<Complex>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslComplexVector(
|
||||
gsl_matrix_complex_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<Complex>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslComplexVector(
|
||||
gsl_matrix_complex_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): Complex =
|
||||
gsl_matrix_complex_get(nativeHandle, i.toULong(), j.toULong()).toKMath()
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: Complex): Unit =
|
||||
gsl_matrix_complex_set(nativeHandle, i.toULong(), j.toULong(), value.toGsl())
|
||||
|
||||
override fun copy(): GslComplexMatrix {
|
||||
val new = checkNotNull(gsl_matrix_complex_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_complex_memcpy(new, nativeHandle)
|
||||
return GslComplexMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_complex_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslComplexMatrix)
|
||||
return gsl_matrix_complex_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslComplexVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_complex>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<Complex, gsl_vector_complex>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override fun get(index: Int): Complex = gsl_vector_complex_get(nativeHandle, index.toULong()).toKMath()
|
||||
|
||||
override fun set(index: Int, value: Complex): Unit =
|
||||
gsl_vector_complex_set(nativeHandle, index.toULong(), value.toGsl())
|
||||
|
||||
override fun copy(): GslComplexVector {
|
||||
val new = checkNotNull(gsl_vector_complex_alloc(size.toULong()))
|
||||
gsl_vector_complex_memcpy(new, nativeHandle)
|
||||
return GslComplexVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslComplexVector)
|
||||
return gsl_vector_complex_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_complex_free(nativeHandle)
|
||||
}
|
||||
@ -1,73 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.staticCFunction
|
||||
import kotlinx.cinterop.toKString
|
||||
import org.gnu.gsl.gsl_set_error_handler
|
||||
import org.gnu.gsl.gsl_set_error_handler_off
|
||||
import kotlin.native.concurrent.AtomicInt
|
||||
|
||||
private object Container {
|
||||
val isKmathHandlerRegistered = AtomicInt(0)
|
||||
}
|
||||
|
||||
internal enum class GslErrnoValue(val code: Int, val text: String) {
|
||||
GSL_SUCCESS(org.gnu.gsl.GSL_SUCCESS, ""),
|
||||
GSL_FAILURE(org.gnu.gsl.GSL_FAILURE, ""),
|
||||
GSL_CONTINUE(org.gnu.gsl.GSL_CONTINUE, "iteration has not converged"),
|
||||
GSL_EDOM(org.gnu.gsl.GSL_EDOM, "input domain error, e.g sqrt(-1)"),
|
||||
GSL_ERANGE(org.gnu.gsl.GSL_ERANGE, "output range error, e.g. exp(1e100)"),
|
||||
GSL_EFAULT(org.gnu.gsl.GSL_EFAULT, "invalid pointer"),
|
||||
GSL_EINVAL(org.gnu.gsl.GSL_EINVAL, "invalid argument supplied by user"),
|
||||
GSL_EFAILED(org.gnu.gsl.GSL_EFAILED, "generic failure"),
|
||||
GSL_EFACTOR(org.gnu.gsl.GSL_EFACTOR, "factorization failed"),
|
||||
GSL_ESANITY(org.gnu.gsl.GSL_ESANITY, "sanity check failed - shouldn't happen"),
|
||||
GSL_ENOMEM(org.gnu.gsl.GSL_ENOMEM, "malloc failed"),
|
||||
GSL_EBADFUNC(org.gnu.gsl.GSL_EBADFUNC, "problem with user-supplied function"),
|
||||
GSL_ERUNAWAY(org.gnu.gsl.GSL_ERUNAWAY, "iterative process is out of control"),
|
||||
GSL_EMAXITER(org.gnu.gsl.GSL_EMAXITER, "exceeded max number of iterations"),
|
||||
GSL_EZERODIV(org.gnu.gsl.GSL_EZERODIV, "tried to divide by zero"),
|
||||
GSL_EBADTOL(org.gnu.gsl.GSL_EBADTOL, "user specified an invalid tolerance"),
|
||||
GSL_ETOL(org.gnu.gsl.GSL_ETOL, "failed to reach the specified tolerance"),
|
||||
GSL_EUNDRFLW(org.gnu.gsl.GSL_EUNDRFLW, "underflow"),
|
||||
GSL_EOVRFLW(org.gnu.gsl.GSL_EOVRFLW, "overflow"),
|
||||
GSL_ELOSS(org.gnu.gsl.GSL_ELOSS, "loss of accuracy"),
|
||||
GSL_EROUND(org.gnu.gsl.GSL_EROUND, "failed because of roundoff error"),
|
||||
GSL_EBADLEN(org.gnu.gsl.GSL_EBADLEN, "matrix, vector lengths are not conformant"),
|
||||
GSL_ENOTSQR(org.gnu.gsl.GSL_ENOTSQR, "matrix not square"),
|
||||
GSL_ESING(org.gnu.gsl.GSL_ESING, "apparent singularity detected"),
|
||||
GSL_EDIVERGE(org.gnu.gsl.GSL_EDIVERGE, "integral or series is divergent"),
|
||||
GSL_EUNSUP(org.gnu.gsl.GSL_EUNSUP, "requested feature is not supported by the hardware"),
|
||||
GSL_EUNIMPL(org.gnu.gsl.GSL_EUNIMPL, "requested feature not (yet) implemented"),
|
||||
GSL_ECACHE(org.gnu.gsl.GSL_ECACHE, "cache limit exceeded"),
|
||||
GSL_ETABLE(org.gnu.gsl.GSL_ETABLE, "table limit exceeded"),
|
||||
GSL_ENOPROG(org.gnu.gsl.GSL_ENOPROG, "iteration is not making progress towards solution"),
|
||||
GSL_ENOPROGJ(org.gnu.gsl.GSL_ENOPROGJ, "jacobian evaluations are not improving the solution"),
|
||||
GSL_ETOLF(org.gnu.gsl.GSL_ETOLF, "cannot reach the specified tolerance in F"),
|
||||
GSL_ETOLX(org.gnu.gsl.GSL_ETOLX, "cannot reach the specified tolerance in X"),
|
||||
GSL_ETOLG(org.gnu.gsl.GSL_ETOLG, "cannot reach the specified tolerance in gradient"),
|
||||
GSL_EOF(org.gnu.gsl.GSL_EOF, "end of file");
|
||||
|
||||
override fun toString(): String = "${name}('$text')"
|
||||
|
||||
companion object {
|
||||
fun valueOf(code: Int): GslErrnoValue? = values().find { it.code == code }
|
||||
}
|
||||
}
|
||||
|
||||
/**
|
||||
* Wraps all the errors reported by GSL.
|
||||
*/
|
||||
public class GslException internal constructor(file: String, line: Int, reason: String, errno: Int) :
|
||||
RuntimeException("$file:$line: $reason. errno - $errno, ${GslErrnoValue.valueOf(errno)}") {
|
||||
}
|
||||
|
||||
internal fun ensureHasGslErrorHandler() {
|
||||
if (Container.isKmathHandlerRegistered.value == 1) return
|
||||
gsl_set_error_handler_off()
|
||||
|
||||
gsl_set_error_handler(staticCFunction { reason, file, line, errno ->
|
||||
throw GslException(checkNotNull(file).toKString(), line, checkNotNull(reason).toKString(), errno)
|
||||
})
|
||||
|
||||
Container.isKmathHandlerRegistered.value = 1
|
||||
}
|
||||
@ -1,40 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.AutofreeScope
|
||||
import kotlinx.cinterop.CStructVar
|
||||
import kscience.kmath.linear.Matrix
|
||||
import kscience.kmath.nd.NDStructure
|
||||
import kscience.kmath.structures.asSequence
|
||||
|
||||
/**
|
||||
* Wraps gsl_matrix_* objects from GSL.
|
||||
*/
|
||||
public abstract class GslMatrix<T : Any, H : CStructVar> internal constructor(scope: AutofreeScope, owned: Boolean) :
|
||||
GslObject<H>(scope, owned), Matrix<T> {
|
||||
internal abstract operator fun set(i: Int, j: Int, value: T)
|
||||
internal abstract fun copy(): GslMatrix<T, H>
|
||||
|
||||
public override fun equals(other: Any?): Boolean {
|
||||
return NDStructure.contentEquals(this, other as? NDStructure<*> ?: return false)
|
||||
}
|
||||
|
||||
public override fun hashCode(): Int {
|
||||
var ret = 7
|
||||
ret = ret * 31 + rowNum
|
||||
ret = ret * 31 + colNum
|
||||
|
||||
for (row in 0 until rowNum)
|
||||
for (col in 0 until colNum)
|
||||
ret = ret * 31 + (11 * (row + 1) + 17 * (col + 1)) * this[row, col].hashCode()
|
||||
|
||||
return ret
|
||||
}
|
||||
|
||||
public override fun toString(): String = if (rowNum <= 5 && colNum <= 5)
|
||||
"Matrix(rowsNum = $rowNum, colNum = $colNum)\n" +
|
||||
rows.asSequence().joinToString(prefix = "(", postfix = ")", separator = "\n ") { buffer ->
|
||||
buffer.asSequence().joinToString(separator = "\t") { it.toString() }
|
||||
}
|
||||
else
|
||||
"Matrix(rowsNum = $rowNum, colNum = $colNum)"
|
||||
}
|
||||
@ -1,417 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.*
|
||||
import kscience.kmath.linear.*
|
||||
import kscience.kmath.misc.UnstableKMathAPI
|
||||
import kscience.kmath.complex.Complex
|
||||
import kscience.kmath.complex.ComplexField
|
||||
import kscience.kmath.complex.toComplex
|
||||
import org.gnu.gsl.*
|
||||
import kotlin.math.min
|
||||
import kotlin.reflect.KClass
|
||||
import kotlin.reflect.cast
|
||||
|
||||
internal inline fun <T : Any, H : CStructVar> GslMatrix<T, H>.fill(initializer: (Int, Int) -> T): GslMatrix<T, H> =
|
||||
apply {
|
||||
for (row in 0 until rowNum) {
|
||||
for (col in 0 until colNum) this[row, col] = initializer(row, col)
|
||||
}
|
||||
}
|
||||
|
||||
internal inline fun <T : Any, H : CStructVar> GslVector<T, H>.fill(initializer: (Int) -> T): GslVector<T, H> =
|
||||
apply {
|
||||
for (index in 0 until size) this[index] = initializer(index)
|
||||
}
|
||||
|
||||
/**
|
||||
* Represents matrix context implementing where all the operations are delegated to GSL.
|
||||
*/
|
||||
public abstract class GslMatrixContext<T : Any, H1 : CStructVar, H2 : CStructVar> : MatrixContext<T, GslMatrix<T, H1>> {
|
||||
init {
|
||||
ensureHasGslErrorHandler()
|
||||
}
|
||||
|
||||
/**
|
||||
* Converts this matrix to GSL one.
|
||||
*/
|
||||
@Suppress("UNCHECKED_CAST")
|
||||
public fun Matrix<T>.toGsl(): GslMatrix<T, H1> = if (this is GslMatrix<*, *>)
|
||||
this as GslMatrix<T, H1>
|
||||
else
|
||||
produce(rowNum, colNum) { i, j -> this[i, j] }
|
||||
|
||||
/**
|
||||
* Converts this point to GSL one.
|
||||
*/
|
||||
@Suppress("UNCHECKED_CAST")
|
||||
public fun Point<T>.toGsl(): GslVector<T, H2> =
|
||||
(if (this is GslVector<*, *>) this as GslVector<T, H2> else produceDirtyVector(size).fill { this[it] }).copy()
|
||||
|
||||
internal abstract fun produceDirtyMatrix(rows: Int, columns: Int): GslMatrix<T, H1>
|
||||
internal abstract fun produceDirtyVector(size: Int): GslVector<T, H2>
|
||||
|
||||
public override fun produce(rows: Int, columns: Int, initializer: (i: Int, j: Int) -> T): GslMatrix<T, H1> =
|
||||
produceDirtyMatrix(rows, columns).fill(initializer)
|
||||
|
||||
public override fun point(size: Int, initializer: (Int) -> T): GslVector<T, H2> =
|
||||
produceDirtyVector(size).fill(initializer)
|
||||
}
|
||||
|
||||
/**
|
||||
* Represents [Double] matrix context implementing where all the operations are delegated to GSL.
|
||||
*/
|
||||
public class GslRealMatrixContext(internal val scope: AutofreeScope) :
|
||||
GslMatrixContext<Double, gsl_matrix, gsl_vector>() {
|
||||
override fun produceDirtyMatrix(rows: Int, columns: Int): GslMatrix<Double, gsl_matrix> = GslRealMatrix(
|
||||
rawNativeHandle = checkNotNull(gsl_matrix_alloc(rows.toULong(), columns.toULong())),
|
||||
scope = scope,
|
||||
owned = true,
|
||||
)
|
||||
|
||||
override fun produceDirtyVector(size: Int): GslVector<Double, gsl_vector> =
|
||||
GslRealVector(rawNativeHandle = checkNotNull(gsl_vector_alloc(size.toULong())), scope = scope, owned = true)
|
||||
|
||||
public override fun Matrix<Double>.dot(other: Matrix<Double>): GslMatrix<Double, gsl_matrix> {
|
||||
val x = toGsl().nativeHandle
|
||||
val a = other.toGsl().nativeHandle
|
||||
val result = checkNotNull(gsl_matrix_calloc(a.pointed.size1, a.pointed.size2))
|
||||
gsl_blas_dgemm(CblasNoTrans, CblasNoTrans, 1.0, x, a, 1.0, result)
|
||||
return GslRealMatrix(rawNativeHandle = result, scope = scope, owned = true)
|
||||
}
|
||||
|
||||
public override fun Matrix<Double>.dot(vector: Point<Double>): GslVector<Double, gsl_vector> {
|
||||
val x = toGsl().nativeHandle
|
||||
val a = vector.toGsl().nativeHandle
|
||||
val result = checkNotNull(gsl_vector_calloc(a.pointed.size))
|
||||
gsl_blas_dgemv(CblasNoTrans, 1.0, x, a, 1.0, result)
|
||||
return GslRealVector(rawNativeHandle = result, scope = scope, owned = true)
|
||||
}
|
||||
|
||||
public override fun Matrix<Double>.times(value: Double): GslMatrix<Double, gsl_matrix> {
|
||||
val g1 = toGsl().copy()
|
||||
gsl_matrix_scale(g1.nativeHandle, value)
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun add(a: Matrix<Double>, b: Matrix<Double>): GslMatrix<Double, gsl_matrix> {
|
||||
val g1 = a.toGsl().copy()
|
||||
gsl_matrix_add(g1.nativeHandle, b.toGsl().nativeHandle)
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun multiply(a: Matrix<Double>, k: Number): GslMatrix<Double, gsl_matrix> {
|
||||
val g1 = a.toGsl().copy()
|
||||
gsl_matrix_scale(g1.nativeHandle, k.toDouble())
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun Matrix<Double>.minus(b: Matrix<Double>): Matrix<Double> {
|
||||
val g1 = toGsl().copy()
|
||||
gsl_matrix_sub(g1.nativeHandle, b.toGsl().nativeHandle)
|
||||
return g1
|
||||
}
|
||||
|
||||
@Suppress("IMPLICIT_CAST_TO_ANY")
|
||||
@UnstableKMathAPI
|
||||
public override fun <F : Any> getFeature(m: Matrix<Double>, type: KClass<F>): F? = when (type) {
|
||||
LupDecompositionFeature::class, DeterminantFeature::class -> object : LupDecompositionFeature<Double>,
|
||||
DeterminantFeature<Double>, InverseMatrixFeature<Double> {
|
||||
private val lups by lazy {
|
||||
val lu = m.toGsl().copy()
|
||||
val n = m.rowNum
|
||||
|
||||
val perm = GslPermutation(
|
||||
rawNativeHandle = checkNotNull(gsl_permutation_alloc(n.toULong())),
|
||||
scope = scope,
|
||||
owned = true,
|
||||
)
|
||||
|
||||
val signum = memScoped {
|
||||
val i = alloc<IntVar>()
|
||||
gsl_linalg_LU_decomp(lu.nativeHandle, perm.nativeHandle, i.ptr)
|
||||
i.value
|
||||
}
|
||||
|
||||
Triple(lu, perm, signum)
|
||||
}
|
||||
|
||||
override val p by lazy {
|
||||
val n = m.rowNum
|
||||
val one = produce(n, n) { i, j -> if (i == j) 1.0 else 0.0 }
|
||||
val perm = produce(n, n) { _, _ -> 0.0 }
|
||||
|
||||
for (j in 0 until lups.second.size)
|
||||
gsl_matrix_set_col(perm.nativeHandle, j.toULong(), one.columns[lups.second[j]].toGsl().nativeHandle)
|
||||
|
||||
perm
|
||||
}
|
||||
|
||||
override val l by lazy {
|
||||
VirtualMatrix(lups.first.shape[0], lups.first.shape[1]) { i, j ->
|
||||
when {
|
||||
j < i -> lups.first[i, j]
|
||||
j == i -> 1.0
|
||||
else -> 0.0
|
||||
}
|
||||
} + LFeature
|
||||
}
|
||||
|
||||
override val u by lazy {
|
||||
VirtualMatrix(
|
||||
lups.first.shape[0],
|
||||
lups.first.shape[1],
|
||||
) { i, j -> if (j >= i) lups.first[i, j] else 0.0 } + UFeature
|
||||
}
|
||||
|
||||
override val determinant by lazy { gsl_linalg_LU_det(lups.first.nativeHandle, lups.third) }
|
||||
|
||||
override val inverse by lazy {
|
||||
val inv = lups.first.copy()
|
||||
gsl_linalg_LU_invx(inv.nativeHandle, lups.second.nativeHandle)
|
||||
inv
|
||||
}
|
||||
}
|
||||
|
||||
CholeskyDecompositionFeature::class -> object : CholeskyDecompositionFeature<Double> {
|
||||
override val l: Matrix<Double> by lazy {
|
||||
val chol = m.toGsl().copy()
|
||||
gsl_linalg_cholesky_decomp(chol.nativeHandle)
|
||||
chol
|
||||
}
|
||||
}
|
||||
|
||||
QRDecompositionFeature::class -> object : QRDecompositionFeature<Double> {
|
||||
private val qr by lazy {
|
||||
val a = m.toGsl().copy()
|
||||
val q = produce(m.rowNum, m.rowNum) { _, _ -> 0.0 }
|
||||
val r = produce(m.rowNum, m.colNum) { _, _ -> 0.0 }
|
||||
|
||||
if (m.rowNum < m.colNum) {
|
||||
val tau = point(min(m.rowNum, m.colNum)) { 0.0 }
|
||||
gsl_linalg_QR_decomp(a.nativeHandle, tau.nativeHandle)
|
||||
gsl_linalg_QR_unpack(a.nativeHandle, tau.nativeHandle, q.nativeHandle, r.nativeHandle)
|
||||
} else {
|
||||
val t = produce(m.colNum, m.colNum) { _, _ -> 0.0 }
|
||||
gsl_linalg_QR_decomp_r(a.nativeHandle, t.nativeHandle)
|
||||
gsl_linalg_QR_unpack_r(a.nativeHandle, t.nativeHandle, q.nativeHandle, r.nativeHandle)
|
||||
}
|
||||
|
||||
q to r
|
||||
}
|
||||
|
||||
override val q: Matrix<Double> get() = qr.first
|
||||
override val r: Matrix<Double> get() = qr.second
|
||||
}
|
||||
|
||||
else -> super.getFeature(m, type)
|
||||
}?.let(type::cast)
|
||||
}
|
||||
|
||||
/**
|
||||
* Invokes [block] inside newly created [GslRealMatrixContext] which is disposed when the block is invoked.
|
||||
*/
|
||||
public fun <R> GslRealMatrixContext(block: GslRealMatrixContext.() -> R): R =
|
||||
memScoped { GslRealMatrixContext(this).block() }
|
||||
|
||||
/**
|
||||
* Represents [Float] matrix context implementing where all the operations are delegated to GSL.
|
||||
*/
|
||||
public class GslFloatMatrixContext(internal val scope: AutofreeScope) :
|
||||
GslMatrixContext<Float, gsl_matrix_float, gsl_vector_float>() {
|
||||
override fun produceDirtyMatrix(rows: Int, columns: Int): GslMatrix<Float, gsl_matrix_float> = GslFloatMatrix(
|
||||
rawNativeHandle = checkNotNull(gsl_matrix_float_alloc(rows.toULong(), columns.toULong())),
|
||||
scope = scope,
|
||||
owned = true,
|
||||
)
|
||||
|
||||
override fun produceDirtyVector(size: Int): GslVector<Float, gsl_vector_float> = GslFloatVector(
|
||||
rawNativeHandle = checkNotNull(value = gsl_vector_float_alloc(size.toULong())),
|
||||
scope = scope,
|
||||
owned = true,
|
||||
)
|
||||
|
||||
public override fun Matrix<Float>.dot(other: Matrix<Float>): GslMatrix<Float, gsl_matrix_float> {
|
||||
val x = toGsl().nativeHandle
|
||||
val a = other.toGsl().nativeHandle
|
||||
val result = checkNotNull(gsl_matrix_float_calloc(a.pointed.size1, a.pointed.size2))
|
||||
gsl_blas_sgemm(CblasNoTrans, CblasNoTrans, 1f, x, a, 1f, result)
|
||||
return GslFloatMatrix(rawNativeHandle = result, scope = scope, owned = true)
|
||||
}
|
||||
|
||||
public override fun Matrix<Float>.dot(vector: Point<Float>): GslVector<Float, gsl_vector_float> {
|
||||
val x = toGsl().nativeHandle
|
||||
val a = vector.toGsl().nativeHandle
|
||||
val result = checkNotNull(gsl_vector_float_calloc(a.pointed.size))
|
||||
gsl_blas_sgemv(CblasNoTrans, 1f, x, a, 1f, result)
|
||||
return GslFloatVector(rawNativeHandle = result, scope = scope, owned = true)
|
||||
}
|
||||
|
||||
public override fun Matrix<Float>.times(value: Float): GslMatrix<Float, gsl_matrix_float> {
|
||||
val g1 = toGsl().copy()
|
||||
gsl_matrix_float_scale(g1.nativeHandle, value.toDouble())
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun add(a: Matrix<Float>, b: Matrix<Float>): GslMatrix<Float, gsl_matrix_float> {
|
||||
val g1 = a.toGsl().copy()
|
||||
gsl_matrix_float_add(g1.nativeHandle, b.toGsl().nativeHandle)
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun multiply(a: Matrix<Float>, k: Number): GslMatrix<Float, gsl_matrix_float> {
|
||||
val g1 = a.toGsl().copy()
|
||||
gsl_matrix_float_scale(g1.nativeHandle, k.toDouble())
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun Matrix<Float>.minus(b: Matrix<Float>): Matrix<Float> {
|
||||
val g1 = toGsl().copy()
|
||||
gsl_matrix_float_sub(g1.nativeHandle, b.toGsl().nativeHandle)
|
||||
return g1
|
||||
}
|
||||
}
|
||||
|
||||
/**
|
||||
* Invokes [block] inside newly created [GslFloatMatrixContext] which is disposed when the block is invoked.
|
||||
*/
|
||||
public fun <R> GslFloatMatrixContext(block: GslFloatMatrixContext.() -> R): R =
|
||||
memScoped { GslFloatMatrixContext(this).block() }
|
||||
|
||||
/**
|
||||
* Represents [Complex] matrix context implementing where all the operations are delegated to GSL.
|
||||
*/
|
||||
public class GslComplexMatrixContext(internal val scope: AutofreeScope) :
|
||||
GslMatrixContext<Complex, gsl_matrix_complex, gsl_vector_complex>() {
|
||||
override fun produceDirtyMatrix(rows: Int, columns: Int): GslMatrix<Complex, gsl_matrix_complex> = GslComplexMatrix(
|
||||
rawNativeHandle = checkNotNull(gsl_matrix_complex_alloc(rows.toULong(), columns.toULong())),
|
||||
scope = scope,
|
||||
owned = true,
|
||||
)
|
||||
|
||||
override fun produceDirtyVector(size: Int): GslVector<Complex, gsl_vector_complex> =
|
||||
GslComplexVector(
|
||||
rawNativeHandle = checkNotNull(gsl_vector_complex_alloc(size.toULong())),
|
||||
scope = scope,
|
||||
owned = true,
|
||||
)
|
||||
|
||||
public override fun Matrix<Complex>.dot(other: Matrix<Complex>): GslMatrix<Complex, gsl_matrix_complex> {
|
||||
val x = toGsl().nativeHandle
|
||||
val a = other.toGsl().nativeHandle
|
||||
val result = checkNotNull(gsl_matrix_complex_calloc(a.pointed.size1, a.pointed.size2))
|
||||
gsl_blas_zgemm(CblasNoTrans, CblasNoTrans, ComplexField.one.toGsl(), x, a, ComplexField.one.toGsl(), result)
|
||||
return GslComplexMatrix(rawNativeHandle = result, scope = scope, owned = true)
|
||||
}
|
||||
|
||||
public override fun Matrix<Complex>.dot(vector: Point<Complex>): GslVector<Complex, gsl_vector_complex> {
|
||||
val x = toGsl().nativeHandle
|
||||
val a = vector.toGsl().nativeHandle
|
||||
val result = checkNotNull(gsl_vector_complex_calloc(a.pointed.size))
|
||||
gsl_blas_zgemv(CblasNoTrans, ComplexField.one.toGsl(), x, a, ComplexField.one.toGsl(), result)
|
||||
return GslComplexVector(rawNativeHandle = result, scope = scope, owned = true)
|
||||
}
|
||||
|
||||
public override fun Matrix<Complex>.times(value: Complex): GslMatrix<Complex, gsl_matrix_complex> {
|
||||
val g1 = toGsl().copy()
|
||||
gsl_matrix_complex_scale(g1.nativeHandle, value.toGsl())
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun add(a: Matrix<Complex>, b: Matrix<Complex>): GslMatrix<Complex, gsl_matrix_complex> {
|
||||
val g1 = a.toGsl().copy()
|
||||
gsl_matrix_complex_add(g1.nativeHandle, b.toGsl().nativeHandle)
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun multiply(a: Matrix<Complex>, k: Number): GslMatrix<Complex, gsl_matrix_complex> {
|
||||
val g1 = a.toGsl().copy()
|
||||
gsl_matrix_complex_scale(g1.nativeHandle, k.toComplex().toGsl())
|
||||
return g1
|
||||
}
|
||||
|
||||
public override fun Matrix<Complex>.minus(b: Matrix<Complex>): Matrix<Complex> {
|
||||
val g1 = toGsl().copy()
|
||||
gsl_matrix_complex_sub(g1.nativeHandle, b.toGsl().nativeHandle)
|
||||
return g1
|
||||
}
|
||||
|
||||
@Suppress("IMPLICIT_CAST_TO_ANY")
|
||||
@UnstableKMathAPI
|
||||
public override fun <F : Any> getFeature(m: Matrix<Complex>, type: KClass<F>): F? = when (type) {
|
||||
LupDecompositionFeature::class, DeterminantFeature::class -> object : LupDecompositionFeature<Complex>,
|
||||
DeterminantFeature<Complex>, InverseMatrixFeature<Complex> {
|
||||
private val lups by lazy {
|
||||
val lu = m.toGsl().copy()
|
||||
val n = m.rowNum
|
||||
|
||||
val perm = GslPermutation(rawNativeHandle = checkNotNull(gsl_permutation_alloc(n.toULong())),
|
||||
scope = scope,
|
||||
owned = true)
|
||||
|
||||
val signum = memScoped {
|
||||
val i = alloc<IntVar>()
|
||||
gsl_linalg_complex_LU_decomp(lu.nativeHandle, perm.nativeHandle, i.ptr)
|
||||
i.value
|
||||
}
|
||||
|
||||
Triple(lu, perm, signum)
|
||||
}
|
||||
|
||||
override val p by lazy {
|
||||
val n = m.rowNum
|
||||
val one = produce(n, n) { i, j -> if (i == j) 1.0.toComplex() else 0.0.toComplex() }
|
||||
val perm = produce(n, n) { _, _ -> 0.0.toComplex() }
|
||||
|
||||
for (j in 0 until lups.second.size)
|
||||
gsl_matrix_complex_set_col(perm.nativeHandle,
|
||||
j.toULong(),
|
||||
one.columns[lups.second[j]].toGsl().nativeHandle)
|
||||
|
||||
perm
|
||||
}
|
||||
|
||||
override val l by lazy {
|
||||
VirtualMatrix(lups.first.shape[0], lups.first.shape[1]) { i, j ->
|
||||
when {
|
||||
j < i -> lups.first[i, j]
|
||||
j == i -> 1.0.toComplex()
|
||||
else -> 0.0.toComplex()
|
||||
}
|
||||
} + LFeature
|
||||
}
|
||||
|
||||
override val u by lazy {
|
||||
VirtualMatrix(
|
||||
lups.first.shape[0],
|
||||
lups.first.shape[1],
|
||||
) { i, j -> if (j >= i) lups.first[i, j] else 0.0.toComplex() } + UFeature
|
||||
}
|
||||
|
||||
override val determinant by lazy {
|
||||
gsl_linalg_complex_LU_det(lups.first.nativeHandle, lups.third).toKMath()
|
||||
}
|
||||
|
||||
override val inverse by lazy {
|
||||
val inv = lups.first.copy()
|
||||
gsl_linalg_complex_LU_invx(inv.nativeHandle, lups.second.nativeHandle)
|
||||
inv
|
||||
}
|
||||
}
|
||||
|
||||
CholeskyDecompositionFeature::class -> object : CholeskyDecompositionFeature<Complex> {
|
||||
override val l by lazy {
|
||||
val chol = m.toGsl().copy()
|
||||
gsl_linalg_complex_cholesky_decomp(chol.nativeHandle)
|
||||
chol
|
||||
}
|
||||
}
|
||||
|
||||
else -> super.getFeature(m, type)
|
||||
}?.let(type::cast)
|
||||
}
|
||||
|
||||
/**
|
||||
* Invokes [block] inside newly created [GslComplexMatrixContext] which is disposed when the block is invoked.
|
||||
*/
|
||||
public fun <R> GslComplexMatrixContext(block: GslComplexMatrixContext.() -> R): R =
|
||||
memScoped { GslComplexMatrixContext(this).block() }
|
||||
@ -1,36 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.AutofreeScope
|
||||
import kotlinx.cinterop.CPointer
|
||||
import kotlinx.cinterop.CStructVar
|
||||
import kotlinx.cinterop.DeferScope
|
||||
|
||||
/**
|
||||
* Represents managed native GSL object. The only property this class holds is pointer to the GSL object. In order to be
|
||||
* freed this class's object must be added to [DeferScope].
|
||||
*
|
||||
* The objects of this type shouldn't be used after being disposed by the scope.
|
||||
*
|
||||
* @param scope the scope where this object is declared.
|
||||
*/
|
||||
public abstract class GslObject<H : CStructVar> internal constructor(internal val scope: AutofreeScope, internal val owned: Boolean) {
|
||||
internal abstract val rawNativeHandle: CPointer<H>
|
||||
private var isClosed: Boolean = false
|
||||
|
||||
internal val nativeHandle: CPointer<H>
|
||||
get() {
|
||||
check(!isClosed) { "The use of GSL object that is closed." }
|
||||
return rawNativeHandle
|
||||
}
|
||||
|
||||
init {
|
||||
ensureHasGslErrorHandler()
|
||||
|
||||
scope.defer {
|
||||
if (owned) close()
|
||||
isClosed = true
|
||||
}
|
||||
}
|
||||
|
||||
internal abstract fun close()
|
||||
}
|
||||
@ -1,19 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.AutofreeScope
|
||||
import kotlinx.cinterop.CPointer
|
||||
import kotlinx.cinterop.pointed
|
||||
import org.gnu.gsl.gsl_permutation
|
||||
import org.gnu.gsl.gsl_permutation_free
|
||||
import org.gnu.gsl.gsl_permutation_get
|
||||
|
||||
internal class GslPermutation(
|
||||
override val rawNativeHandle: CPointer<gsl_permutation>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslObject<gsl_permutation>(scope, owned) {
|
||||
val size get() = nativeHandle.pointed.size.toInt()
|
||||
|
||||
operator fun get(i: Int) = gsl_permutation_get(nativeHandle, i.toULong()).toInt()
|
||||
override fun close() = gsl_permutation_free(nativeHandle)
|
||||
}
|
||||
@ -1,25 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.AutofreeScope
|
||||
import kotlinx.cinterop.CStructVar
|
||||
import kscience.kmath.linear.Point
|
||||
|
||||
/**
|
||||
* Wraps gsl_vector_* objects from GSL.
|
||||
*/
|
||||
public abstract class GslVector<T, H : CStructVar> internal constructor(scope: AutofreeScope, owned: Boolean) :
|
||||
GslObject<H>(scope, owned), Point<T> {
|
||||
internal abstract operator fun set(index: Int, value: T)
|
||||
internal abstract fun copy(): GslVector<T, H>
|
||||
|
||||
public final override fun iterator(): Iterator<T> = object : Iterator<T> {
|
||||
private var cursor = 0
|
||||
|
||||
override fun hasNext(): Boolean = cursor < size
|
||||
|
||||
override fun next(): T {
|
||||
cursor++
|
||||
return this@GslVector[cursor - 1]
|
||||
}
|
||||
}
|
||||
}
|
||||
@ -1,414 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.*
|
||||
import kscience.kmath.structures.*
|
||||
import org.gnu.gsl.*
|
||||
|
||||
internal class GslRealMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<Double, gsl_matrix>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<Double>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslRealVector(
|
||||
gsl_matrix_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<Double>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslRealVector(
|
||||
gsl_matrix_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): Double =
|
||||
gsl_matrix_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: Double): Unit =
|
||||
gsl_matrix_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslRealMatrix {
|
||||
val new = checkNotNull(gsl_matrix_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_memcpy(new, nativeHandle)
|
||||
return GslRealMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslRealMatrix)
|
||||
return gsl_matrix_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslFloatMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_float>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<Float, gsl_matrix_float>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<Float>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslFloatVector(
|
||||
gsl_matrix_float_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<Float>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslFloatVector(
|
||||
gsl_matrix_float_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): Float =
|
||||
gsl_matrix_float_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: Float): Unit =
|
||||
gsl_matrix_float_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslFloatMatrix {
|
||||
val new = checkNotNull(gsl_matrix_float_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_float_memcpy(new, nativeHandle)
|
||||
return GslFloatMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_float_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslFloatMatrix)
|
||||
return gsl_matrix_float_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslShortMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_short>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<Short, gsl_matrix_short>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<Short>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslShortVector(
|
||||
gsl_matrix_short_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<Short>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslShortVector(
|
||||
gsl_matrix_short_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): Short =
|
||||
gsl_matrix_short_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: Short): Unit =
|
||||
gsl_matrix_short_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslShortMatrix {
|
||||
val new = checkNotNull(gsl_matrix_short_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_short_memcpy(new, nativeHandle)
|
||||
return GslShortMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_short_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslShortMatrix)
|
||||
return gsl_matrix_short_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslUShortMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_ushort>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<UShort, gsl_matrix_ushort>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<UShort>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslUShortVector(
|
||||
gsl_matrix_ushort_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<UShort>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslUShortVector(
|
||||
gsl_matrix_ushort_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): UShort =
|
||||
gsl_matrix_ushort_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: UShort): Unit =
|
||||
gsl_matrix_ushort_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslUShortMatrix {
|
||||
val new = checkNotNull(gsl_matrix_ushort_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_ushort_memcpy(new, nativeHandle)
|
||||
return GslUShortMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_ushort_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslUShortMatrix)
|
||||
return gsl_matrix_ushort_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslLongMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_long>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<Long, gsl_matrix_long>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<Long>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslLongVector(
|
||||
gsl_matrix_long_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<Long>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslLongVector(
|
||||
gsl_matrix_long_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): Long =
|
||||
gsl_matrix_long_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: Long): Unit =
|
||||
gsl_matrix_long_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslLongMatrix {
|
||||
val new = checkNotNull(gsl_matrix_long_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_long_memcpy(new, nativeHandle)
|
||||
return GslLongMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_long_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslLongMatrix)
|
||||
return gsl_matrix_long_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslULongMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_ulong>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<ULong, gsl_matrix_ulong>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<ULong>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslULongVector(
|
||||
gsl_matrix_ulong_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<ULong>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslULongVector(
|
||||
gsl_matrix_ulong_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): ULong =
|
||||
gsl_matrix_ulong_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: ULong): Unit =
|
||||
gsl_matrix_ulong_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslULongMatrix {
|
||||
val new = checkNotNull(gsl_matrix_ulong_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_ulong_memcpy(new, nativeHandle)
|
||||
return GslULongMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_ulong_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslULongMatrix)
|
||||
return gsl_matrix_ulong_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslIntMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_int>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<Int, gsl_matrix_int>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<Int>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslIntVector(
|
||||
gsl_matrix_int_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<Int>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslIntVector(
|
||||
gsl_matrix_int_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): Int =
|
||||
gsl_matrix_int_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: Int): Unit =
|
||||
gsl_matrix_int_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslIntMatrix {
|
||||
val new = checkNotNull(gsl_matrix_int_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_int_memcpy(new, nativeHandle)
|
||||
return GslIntMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_int_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslIntMatrix)
|
||||
return gsl_matrix_int_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
internal class GslUIntMatrix(
|
||||
override val rawNativeHandle: CPointer<gsl_matrix_uint>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslMatrix<UInt, gsl_matrix_uint>(scope, owned) {
|
||||
override val rowNum: Int
|
||||
get() = nativeHandle.pointed.size1.toInt()
|
||||
|
||||
override val colNum: Int
|
||||
get() = nativeHandle.pointed.size2.toInt()
|
||||
|
||||
override val rows: Buffer<Buffer<UInt>>
|
||||
get() = VirtualBuffer(rowNum) { r ->
|
||||
GslUIntVector(
|
||||
gsl_matrix_uint_row(nativeHandle, r.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override val columns: Buffer<Buffer<UInt>>
|
||||
get() = VirtualBuffer(rowNum) { c ->
|
||||
GslUIntVector(
|
||||
gsl_matrix_uint_column(nativeHandle, c.toULong()).placeTo(scope).pointed.vector.ptr,
|
||||
scope,
|
||||
false,
|
||||
)
|
||||
}
|
||||
|
||||
override operator fun get(i: Int, j: Int): UInt =
|
||||
gsl_matrix_uint_get(nativeHandle, i.toULong(), j.toULong())
|
||||
|
||||
override operator fun set(i: Int, j: Int, value: UInt): Unit =
|
||||
gsl_matrix_uint_set(nativeHandle, i.toULong(), j.toULong(), value)
|
||||
|
||||
override fun copy(): GslUIntMatrix {
|
||||
val new = checkNotNull(gsl_matrix_uint_alloc(rowNum.toULong(), colNum.toULong()))
|
||||
gsl_matrix_uint_memcpy(new, nativeHandle)
|
||||
return GslUIntMatrix(new, scope, true)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_matrix_uint_free(nativeHandle)
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslUIntMatrix)
|
||||
return gsl_matrix_uint_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
}
|
||||
|
||||
@ -1,205 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kotlinx.cinterop.*
|
||||
import org.gnu.gsl.*
|
||||
|
||||
internal class GslRealVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<Double, gsl_vector>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): Double = gsl_vector_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: Double): Unit = gsl_vector_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslRealVector {
|
||||
val new = checkNotNull(gsl_vector_alloc(size.toULong()))
|
||||
gsl_vector_memcpy(new, nativeHandle)
|
||||
return GslRealVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslRealVector)
|
||||
return gsl_vector_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslFloatVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_float>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<Float, gsl_vector_float>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): Float = gsl_vector_float_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: Float): Unit = gsl_vector_float_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslFloatVector {
|
||||
val new = checkNotNull(gsl_vector_float_alloc(size.toULong()))
|
||||
gsl_vector_float_memcpy(new, nativeHandle)
|
||||
return GslFloatVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslFloatVector)
|
||||
return gsl_vector_float_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_float_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslShortVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_short>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<Short, gsl_vector_short>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): Short = gsl_vector_short_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: Short): Unit = gsl_vector_short_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslShortVector {
|
||||
val new = checkNotNull(gsl_vector_short_alloc(size.toULong()))
|
||||
gsl_vector_short_memcpy(new, nativeHandle)
|
||||
return GslShortVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslShortVector)
|
||||
return gsl_vector_short_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_short_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslUShortVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_ushort>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<UShort, gsl_vector_ushort>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): UShort = gsl_vector_ushort_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: UShort): Unit = gsl_vector_ushort_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslUShortVector {
|
||||
val new = checkNotNull(gsl_vector_ushort_alloc(size.toULong()))
|
||||
gsl_vector_ushort_memcpy(new, nativeHandle)
|
||||
return GslUShortVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslUShortVector)
|
||||
return gsl_vector_ushort_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_ushort_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslLongVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_long>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<Long, gsl_vector_long>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): Long = gsl_vector_long_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: Long): Unit = gsl_vector_long_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslLongVector {
|
||||
val new = checkNotNull(gsl_vector_long_alloc(size.toULong()))
|
||||
gsl_vector_long_memcpy(new, nativeHandle)
|
||||
return GslLongVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslLongVector)
|
||||
return gsl_vector_long_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_long_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslULongVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_ulong>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<ULong, gsl_vector_ulong>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): ULong = gsl_vector_ulong_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: ULong): Unit = gsl_vector_ulong_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslULongVector {
|
||||
val new = checkNotNull(gsl_vector_ulong_alloc(size.toULong()))
|
||||
gsl_vector_ulong_memcpy(new, nativeHandle)
|
||||
return GslULongVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslULongVector)
|
||||
return gsl_vector_ulong_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_ulong_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslIntVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_int>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<Int, gsl_vector_int>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): Int = gsl_vector_int_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: Int): Unit = gsl_vector_int_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslIntVector {
|
||||
val new = checkNotNull(gsl_vector_int_alloc(size.toULong()))
|
||||
gsl_vector_int_memcpy(new, nativeHandle)
|
||||
return GslIntVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslIntVector)
|
||||
return gsl_vector_int_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_int_free(nativeHandle)
|
||||
}
|
||||
|
||||
internal class GslUIntVector(
|
||||
override val rawNativeHandle: CPointer<gsl_vector_uint>,
|
||||
scope: AutofreeScope,
|
||||
owned: Boolean,
|
||||
) : GslVector<UInt, gsl_vector_uint>(scope, owned) {
|
||||
override val size: Int get() = nativeHandle.pointed.size.toInt()
|
||||
override operator fun get(index: Int): UInt = gsl_vector_uint_get(nativeHandle, index.toULong())
|
||||
override operator fun set(index: Int, value: UInt): Unit = gsl_vector_uint_set(nativeHandle, index.toULong(), value)
|
||||
|
||||
override fun copy(): GslUIntVector {
|
||||
val new = checkNotNull(gsl_vector_uint_alloc(size.toULong()))
|
||||
gsl_vector_uint_memcpy(new, nativeHandle)
|
||||
return GslUIntVector(new, scope, true)
|
||||
}
|
||||
|
||||
override fun equals(other: Any?): Boolean {
|
||||
if (other is GslUIntVector)
|
||||
return gsl_vector_uint_equal(nativeHandle, other.nativeHandle) == 1
|
||||
|
||||
return super.equals(other)
|
||||
}
|
||||
|
||||
override fun close(): Unit = gsl_vector_uint_free(nativeHandle)
|
||||
}
|
||||
|
||||
@ -1,32 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import org.gnu.gsl.gsl_block_calloc
|
||||
import kotlin.test.Test
|
||||
import kotlin.test.assertFailsWith
|
||||
|
||||
internal class ErrorsHandlingTest {
|
||||
@Test
|
||||
fun blockAllocation() {
|
||||
assertFailsWith<GslException> {
|
||||
ensureHasGslErrorHandler()
|
||||
gsl_block_calloc(ULong.MAX_VALUE)
|
||||
}
|
||||
}
|
||||
|
||||
@Test
|
||||
fun matrixAllocation() {
|
||||
assertFailsWith<GslException> {
|
||||
GslRealMatrixContext { produce(Int.MAX_VALUE, Int.MAX_VALUE) { _, _ -> 0.0 } }
|
||||
}
|
||||
}
|
||||
|
||||
@Test
|
||||
fun useOfClosedObject() {
|
||||
val mat = GslRealMatrixContext { produce(1, 1) { _, _ -> 0.0 } }
|
||||
assertFailsWith<IllegalStateException> { mat.colNum }
|
||||
assertFailsWith<IllegalStateException> { mat.rowNum }
|
||||
assertFailsWith<IllegalStateException> { mat[0, 0] }
|
||||
assertFailsWith<IllegalStateException> { mat.copy() }
|
||||
assertFailsWith<IllegalStateException> { println(mat == mat) }
|
||||
}
|
||||
}
|
||||
@ -1,62 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kscience.kmath.linear.Matrix
|
||||
import kscience.kmath.linear.RealMatrixContext
|
||||
import kscience.kmath.operations.invoke
|
||||
import kscience.kmath.structures.asIterable
|
||||
import kscience.kmath.structures.toList
|
||||
import kotlin.random.Random
|
||||
import kotlin.test.Test
|
||||
import kotlin.test.assertEquals
|
||||
|
||||
internal class GslMatrixRealTest {
|
||||
@Test
|
||||
fun dimensions() = GslRealMatrixContext {
|
||||
val mat = produce(42, 24) { _, _ -> 0.0 }
|
||||
assertEquals(42, mat.rowNum)
|
||||
assertEquals(24, mat.colNum)
|
||||
}
|
||||
|
||||
@Test
|
||||
fun get() = GslRealMatrixContext {
|
||||
val mat = produce(1, 1) { _, _ -> 42.0 }
|
||||
assertEquals(42.0, mat[0, 0])
|
||||
}
|
||||
|
||||
@Test
|
||||
fun copy() = GslRealMatrixContext {
|
||||
val mat = produce(1, 1) { _, _ -> 42.0 }
|
||||
assertEquals(mat, mat.copy())
|
||||
}
|
||||
|
||||
@Test
|
||||
fun equals() = GslRealMatrixContext {
|
||||
var rng = Random(0)
|
||||
val mat: Matrix<Double> = produce(2, 2) { _, _ -> rng.nextDouble() }
|
||||
rng = Random(0)
|
||||
val mat2: Matrix<Double> = RealMatrixContext { produce(2, 2) { _, _ -> rng.nextDouble() } }
|
||||
rng = Random(0)
|
||||
val mat3: Matrix<Double> = produce(2, 2) { _, _ -> rng.nextDouble() }
|
||||
assertEquals(mat, mat2)
|
||||
assertEquals(mat, mat3)
|
||||
assertEquals(mat2, mat3)
|
||||
}
|
||||
|
||||
@Test
|
||||
fun rows() = GslRealMatrixContext {
|
||||
val mat = produce(2, 2) { i, j -> i.toDouble() + j }
|
||||
|
||||
mat.rows.asIterable().zip(listOf(listOf(0.0, 1.0), listOf(1.0, 2.0))).forEach { (a, b) ->
|
||||
assertEquals(a.toList(), b)
|
||||
}
|
||||
}
|
||||
|
||||
@Test
|
||||
fun columns() = GslRealMatrixContext {
|
||||
val mat = produce(2, 2) { i, j -> i.toDouble() + j }
|
||||
|
||||
mat.columns.asIterable().zip(listOf(listOf(0.0, 1.0), listOf(1.0, 2.0))).forEach { (a, b) ->
|
||||
assertEquals(a.toList(), b)
|
||||
}
|
||||
}
|
||||
}
|
||||
@ -1,58 +0,0 @@
|
||||
package kscience.kmath.gsl
|
||||
|
||||
import kscience.kmath.linear.Matrix
|
||||
import kscience.kmath.linear.RealMatrixContext
|
||||
import kscience.kmath.operations.invoke
|
||||
import kscience.kmath.structures.RealBuffer
|
||||
import kscience.kmath.structures.asSequence
|
||||
import kotlin.random.Random
|
||||
import kotlin.test.Test
|
||||
import kotlin.test.assertEquals
|
||||
import kotlin.test.assertTrue
|
||||
import kotlin.time.measureTime
|
||||
|
||||
internal class GslRealMatrixContextTest {
|
||||
@Test
|
||||
fun testScale() = GslRealMatrixContext {
|
||||
val ma = produce(10, 10) { _, _ -> 0.1 }
|
||||
val mb = ma * 20.0
|
||||
assertEquals(mb[0, 1], 2.0)
|
||||
}
|
||||
|
||||
@Test
|
||||
fun testDotOfMatrixAndVector() = GslRealMatrixContext {
|
||||
val ma = produce(2, 2) { _, _ -> 100.0 }
|
||||
val vb = RealBuffer(2) { 0.1 }
|
||||
val res1 = ma dot vb
|
||||
val res2 = RealMatrixContext { ma dot vb }
|
||||
println(res1.asSequence().toList())
|
||||
println(res2.asSequence().toList())
|
||||
assertTrue(res1.contentEquals(res2))
|
||||
}
|
||||
|
||||
@Test
|
||||
fun testDotOfMatrixAndMatrix() = GslRealMatrixContext {
|
||||
val ma = produce(2, 2) { _, _ -> 100.0 }
|
||||
val mb = produce(2, 2) { _, _ -> 100.0 }
|
||||
val res1: Matrix<Double> = ma dot mb
|
||||
val res2: Matrix<Double> = RealMatrixContext { ma dot mb }
|
||||
assertEquals(res1, res2)
|
||||
}
|
||||
|
||||
@Test
|
||||
fun testManyCalls() = GslRealMatrixContext {
|
||||
val expected: Matrix<Double> = RealMatrixContext {
|
||||
val rng = Random(0)
|
||||
var prod = produce(20, 20) { _, _ -> rng.nextDouble() }
|
||||
val mult = produce(20, 20) { _, _ -> rng.nextDouble() }
|
||||
measureTime { repeat(100) { prod = prod dot mult } }.also(::println)
|
||||
prod
|
||||
}
|
||||
|
||||
val rng = Random(0)
|
||||
var prod: Matrix<Double> = produce(20, 20) { _, _ -> rng.nextDouble() }
|
||||
val mult = produce(20, 20) { _, _ -> rng.nextDouble() }
|
||||
measureTime { repeat(100) { prod = prod dot mult } }.also(::println)
|
||||
assertEquals(expected, prod)
|
||||
}
|
||||
}
|
||||
@ -41,6 +41,5 @@ include(
|
||||
":kmath-ast",
|
||||
":kmath-ejml",
|
||||
":kmath-kotlingrad",
|
||||
":kmath-gsl",
|
||||
":examples"
|
||||
)
|
||||
|
||||
Loading…
Reference in New Issue
Block a user