Basic matrix inversion
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@ -1,3 +0,0 @@
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package scientifik.kmath.commons
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//val solver: DecompositionSolver
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@ -1,44 +1,12 @@
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package scientifik.kmath.linear
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import scientifik.kmath.operations.Field
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import scientifik.kmath.structures.MutableNDArray
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import scientifik.kmath.structures.NDArray
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import scientifik.kmath.structures.NDArrays
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import kotlin.math.absoluteValue
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/**
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* Calculates the LUP-decomposition of a square matrix.
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*
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* The LUP-decomposition of a matrix A consists of three matrices L, U and
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* P that satisfy: PA = LU. L is lower triangular (with unit
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* diagonal terms), U is upper triangular and P is a permutation matrix. All
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* matrices are mm.
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*
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* As shown by the presence of the P matrix, this decomposition is
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* implemented using partial pivoting.
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*
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* This class is based on the class with similar name from the
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* [JAMA](http://math.nist.gov/javanumerics/jama/) library.
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*
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* * a [getP][.getP] method has been added,
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* * the `det` method has been renamed as [ getDeterminant][.getDeterminant],
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* * the `getDoublePivot` method has been removed (but the int based
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* [getPivot][.getPivot] method has been kept),
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* * the `solve` and `isNonSingular` methods have been replaced
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* by a [getSolver][.getSolver] method and the equivalent methods
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* provided by the returned [DecompositionSolver].
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*
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*
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* @see [MathWorld](http://mathworld.wolfram.com/LUDecomposition.html)
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*
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* @see [Wikipedia](http://en.wikipedia.org/wiki/LU_decomposition)
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*
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* @since 2.0 (changed to concrete class in 3.0)
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*
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* @param matrix The matrix to decompose.
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* @param singularityThreshold threshold (based on partial row norm)
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* under which a matrix is considered singular
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* @throws NonSquareMatrixException if matrix is not square
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* Implementation copier from Apache common-maths
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*/
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abstract class LUDecomposition<T : Comparable<T>>(val matrix: Matrix<T>) {
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@ -51,7 +19,7 @@ abstract class LUDecomposition<T : Comparable<T>>(val matrix: Matrix<T>) {
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private var even: Boolean = false
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init {
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val pair = matrix.context.field.calculateLU()
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val pair = calculateLU()
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lu = pair.first
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pivot = pair.second
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}
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@ -134,72 +102,76 @@ abstract class LUDecomposition<T : Comparable<T>>(val matrix: Matrix<T>) {
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abstract fun isSingular(value: T): Boolean
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private fun Field<T>.calculateLU(): Pair<NDArray<T>, IntArray> {
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private fun abs(value: T) = if (value > matrix.context.field.zero) value else with(matrix.context.field) { -value }
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private fun calculateLU(): Pair<NDArray<T>, IntArray> {
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if (matrix.rows != matrix.columns) {
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error("LU decomposition supports only square matrices")
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}
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fun T.abs() = if (this > zero) this else -this
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val m = matrix.columns
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val pivot = IntArray(matrix.rows)
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//TODO fix performance
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val lu: MutableNDArray<T> = NDArrays.createMutable(matrix.context.field, listOf(matrix.rows, matrix.columns)) { index -> matrix[index[0], index[1]] }
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// Initialize permutation array and parity
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for (row in 0 until m) {
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pivot[row] = row
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}
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even = true
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// Loop over columns
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for (col in 0 until m) {
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// upper
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for (row in 0 until col) {
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var sum = lu[row, col]
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for (i in 0 until row) {
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sum -= lu[row, i] * lu[i, col]
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}
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lu[row, col] = sum
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with(matrix.context.field) {
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// Initialize permutation array and parity
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for (row in 0 until m) {
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pivot[row] = row
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}
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even = true
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// lower
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val max = (col until m).maxBy { row ->
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var sum = lu[row, col]
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for (i in 0 until col) {
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sum -= lu[row, i] * lu[i, col]
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// Loop over columns
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for (col in 0 until m) {
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// upper
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for (row in 0 until col) {
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var sum = lu[row, col]
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for (i in 0 until row) {
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sum -= lu[row, i] * lu[i, col]
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}
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lu[row, col] = sum
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}
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//luRow[col] = sum
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lu[row, col] = sum
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sum.abs()
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} ?: col
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// lower
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val max = (col until m).maxBy { row ->
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var sum = lu[row, col]
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for (i in 0 until col) {
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sum -= lu[row, i] * lu[i, col]
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}
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//luRow[col] = sum
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lu[row, col] = sum
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// Singularity check
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if (isSingular(lu[max, col].abs())) {
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error("Singular matrix")
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}
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abs(sum)
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} ?: col
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// Pivot if necessary
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if (max != col) {
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//var tmp = zero
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//val luMax = lu[max]
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//val luCol = lu[col]
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for (i in 0 until m) {
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lu[max, i] = lu[col, i]
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lu[col, i] = lu[max, i]
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// Singularity check
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if (isSingular(lu[max, col])) {
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error("Singular matrix")
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}
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val temp = pivot[max]
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pivot[max] = pivot[col]
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pivot[col] = temp
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even = !even
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}
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// Divide the lower elements by the "winning" diagonal elt.
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val luDiag = lu[col, col]
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for (row in col + 1 until m) {
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lu[row, col] /= luDiag
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// Pivot if necessary
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if (max != col) {
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//var tmp = zero
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//val luMax = lu[max]
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//val luCol = lu[col]
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for (i in 0 until m) {
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lu[max, i] = lu[col, i]
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lu[col, i] = lu[max, i]
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}
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val temp = pivot[max]
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pivot[max] = pivot[col]
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pivot[col] = temp
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even = !even
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}
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// Divide the lower elements by the "winning" diagonal elt.
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val luDiag = lu[col, col]
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for (row in col + 1 until m) {
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lu[row, col] = lu[row, col] / luDiag
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// lu[row, col] /= luDiag
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}
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}
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}
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return Pair(lu, pivot)
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@ -214,21 +186,22 @@ abstract class LUDecomposition<T : Comparable<T>>(val matrix: Matrix<T>) {
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return pivot.copyOf()
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}
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}
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class RealLUDecomposition(matrix: Matrix<Double>, private val singularityThreshold: Double = DEFAULT_TOO_SMALL) : LUDecomposition<Double>(matrix) {
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override fun isSingular(value: Double): Boolean {
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return value.absoluteValue < singularityThreshold
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}
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companion object {
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/** Default bound to determine effective singularity in LU decomposition. */
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private const val DEFAULT_TOO_SMALL = 1e-11
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}
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}
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class RealLUDecomposition(matrix: Matrix<Double>, private val singularityThreshold: Double = 1e-11) : LUDecomposition<Double>(matrix) {
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override fun isSingular(value: Double): Boolean {
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return value < singularityThreshold
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}
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}
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/** Specialized solver. */
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class RealLUSolver : LinearSolver<Double> {
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object RealLUSolver : LinearSolver<Double> {
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//
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// /** {@inheritDoc} */
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@ -14,31 +14,31 @@ import scientifik.kmath.structures.realNDFieldFactory
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* @param T type of individual element of the vector or matrix
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* @param V the type of vector space element
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*/
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abstract class LinearSpace<T : Any, V : Matrix<T>>(val rows: Int, val columns: Int, val field: Field<T>) : Space<V> {
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abstract class MatrixSpace<T : Any>(val rows: Int, val columns: Int, val field: Field<T>) : Space<Matrix<T>> {
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/**
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* Produce the element of this space
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*/
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abstract fun produce(initializer: (Int, Int) -> T): V
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abstract fun produce(initializer: (Int, Int) -> T): Matrix<T>
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/**
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* Produce new linear space with given dimensions. The space produced could be raised from cache since [LinearSpace] does not have mutable elements
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* Produce new matrix space with given dimensions. The space produced could be raised from cache since [MatrixSpace] does not have mutable elements
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*/
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abstract fun produceSpace(rows: Int, columns: Int): LinearSpace<T, V>
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abstract fun produceSpace(rows: Int, columns: Int): MatrixSpace<T>
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override val zero: V by lazy {
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override val zero: Matrix<T> by lazy {
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produce { _, _ -> field.zero }
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}
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val one: V by lazy {
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produce { i, j -> if (i == j) field.one else field.zero }
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}
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// val one: Matrix<T> by lazy {
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// produce { i, j -> if (i == j) field.one else field.zero }
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// }
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override fun add(a: V, b: V): V {
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override fun add(a: Matrix<T>, b: Matrix<T>): Matrix<T> {
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return produce { i, j -> with(field) { a[i, j] + b[i, j] } }
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}
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override fun multiply(a: V, k: Double): V {
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override fun multiply(a: Matrix<T>, k: Double): Matrix<T> {
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//TODO it is possible to implement scalable linear elements which normed values and adjustable scale to save memory and processing poser
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return produce { i, j -> with(field) { a[i, j] * k } }
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}
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@ -46,29 +46,23 @@ abstract class LinearSpace<T : Any, V : Matrix<T>>(val rows: Int, val columns: I
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/**
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* Dot product. Throws exception on dimension mismatch
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*/
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fun multiply(a: V, b: V): V {
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fun multiply(a: Matrix<T>, b: Matrix<T>): Matrix<T> {
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if (a.rows != b.columns) {
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//TODO replace by specific exception
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error("Dimension mismatch in linear structure dot product: [${a.rows},${a.columns}]*[${b.rows},${b.columns}]")
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}
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return produceSpace(a.rows, b.columns).produce { i, j ->
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(0..a.columns).asSequence().map { k -> field.multiply(a[i, k], b[k, j]) }.reduce { first, second -> field.add(first, second) }
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(0 until a.columns).asSequence().map { k -> field.multiply(a[i, k], b[k, j]) }.reduce { first, second -> field.add(first, second) }
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}
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}
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infix fun V.dot(b: V): V = multiply(this, b)
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}
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/**
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* A specialized [LinearSpace] which works with vectors
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*/
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abstract class VectorSpace<T : Any, V : Vector<T>>(size: Int, field: Field<T>) : LinearSpace<T, V>(size, 1, field)
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infix fun <T : Any> Matrix<T>.dot(b: Matrix<T>): Matrix<T> = this.context.multiply(this, b)
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/**
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* A matrix-like structure
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*/
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interface Matrix<T : Any> {
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val context: LinearSpace<T, out Matrix<T>>
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interface Matrix<T : Any> : SpaceElement<Matrix<T>, MatrixSpace<T>> {
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/**
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* Number of rows
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*/
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@ -83,34 +77,58 @@ interface Matrix<T : Any> {
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*/
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operator fun get(i: Int, j: Int): T
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override val self: Matrix<T>
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get() = this
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fun transpose(): Matrix<T> {
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return object : Matrix<T> {
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override val context: LinearSpace<T, out Matrix<T>> = this@Matrix.context
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override val context: MatrixSpace<T> = this@Matrix.context
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override val rows: Int = this@Matrix.columns
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override val columns: Int = this@Matrix.rows
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override fun get(i: Int, j: Int): T = this@Matrix[j, i]
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}
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}
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companion object {
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fun <T : Any> one(rows: Int, columns: Int, field: Field<T>): Matrix<T> {
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return matrix(rows, columns, field) { i, j -> if (i == j) field.one else field.zero }
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}
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}
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}
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interface Vector<T : Any> : Matrix<T> {
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override val context: VectorSpace<T, Vector<T>>
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override val columns: Int
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get() = 1
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operator fun get(i: Int) = get(i, 0)
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/**
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* A linear space for vectors
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*/
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abstract class VectorSpace<T : Any>(val size: Int, val field: Field<T>) : Space<Vector<T>> {
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abstract fun produce(initializer: (Int) -> T): Vector<T>
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override val zero: Vector<T> by lazy { produce { field.zero } }
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override fun add(a: Vector<T>, b: Vector<T>): Vector<T> = produce { with(field) { a[it] + b[it] } }
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override fun multiply(a: Vector<T>, k: Double): Vector<T> = produce { with(field) { a[it] * k } }
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}
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interface Vector<T : Any> : SpaceElement<Vector<T>, VectorSpace<T>> {
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val size: Int
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get() = context.size
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operator fun get(i: Int): T
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}
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/**
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* NDArray-based implementation of vector space. By default uses slow [SimpleNDField], but could be overridden with custom [NDField] factory.
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*/
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class ArraySpace<T : Any>(
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class ArrayMatrixSpace<T : Any>(
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rows: Int,
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columns: Int,
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field: Field<T>,
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val ndFactory: NDFieldFactory<T> = createFactory(field)
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) : LinearSpace<T, Matrix<T>>(rows, columns, field) {
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) : MatrixSpace<T>(rows, columns, field) {
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val ndField by lazy {
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ndFactory(listOf(rows, columns))
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@ -118,8 +136,8 @@ class ArraySpace<T : Any>(
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override fun produce(initializer: (Int, Int) -> T): Matrix<T> = ArrayMatrix(this, initializer)
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override fun produceSpace(rows: Int, columns: Int): ArraySpace<T> {
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return ArraySpace(rows, columns, field, ndFactory)
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override fun produceSpace(rows: Int, columns: Int): ArrayMatrixSpace<T> {
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return ArrayMatrixSpace(rows, columns, field, ndFactory)
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}
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}
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@ -127,26 +145,20 @@ class ArrayVectorSpace<T : Any>(
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size: Int,
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field: Field<T>,
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val ndFactory: NDFieldFactory<T> = createFactory(field)
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) : VectorSpace<T, Vector<T>>(size, field) {
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) : VectorSpace<T>(size, field) {
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val ndField by lazy {
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ndFactory(listOf(size))
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}
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override fun produce(initializer: (Int, Int) -> T): Vector<T> = produceVector { i -> initializer(i, 0) }
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fun produceVector(initializer: (Int) -> T): Vector<T> = ArrayVector(this, initializer)
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override fun produceSpace(rows: Int, columns: Int): LinearSpace<T, Vector<T>> {
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TODO("not implemented") //To change body of created functions use File | Settings | File Templates.
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}
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override fun produce(initializer: (Int) -> T): Vector<T> = ArrayVector(this, initializer)
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}
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/**
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* Member of [ArraySpace] which wraps 2-D array
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* Member of [ArrayMatrixSpace] which wraps 2-D array
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*/
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class ArrayMatrix<T : Any> internal constructor(override val context: ArraySpace<T>, val array: NDArray<T>) : Matrix<T>, SpaceElement<Matrix<T>, ArraySpace<T>> {
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class ArrayMatrix<T : Any> internal constructor(override val context: ArrayMatrixSpace<T>, val array: NDArray<T>) : Matrix<T> {
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constructor(context: ArraySpace<T>, initializer: (Int, Int) -> T) : this(context, context.ndField.produce { list -> initializer(list[0], list[1]) })
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constructor(context: ArrayMatrixSpace<T>, initializer: (Int, Int) -> T) : this(context, context.ndField.produce { list -> initializer(list[0], list[1]) })
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override val rows: Int get() = context.rows
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@ -160,32 +172,21 @@ class ArrayMatrix<T : Any> internal constructor(override val context: ArraySpace
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}
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class ArrayVector<T : Any> internal constructor(override val context: ArrayVectorSpace<T>, val array: NDArray<T>) : Vector<T>, SpaceElement<Vector<T>, ArrayVectorSpace<T>> {
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class ArrayVector<T : Any> internal constructor(override val context: ArrayVectorSpace<T>, val array: NDArray<T>) : Vector<T> {
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constructor(context: ArrayVectorSpace<T>, initializer: (Int) -> T) : this(context, context.ndField.produce { list -> initializer(list[0]) })
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init {
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if (context.columns != 1) {
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error("Vector must have single column")
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}
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if (context.rows != array.shape[0]) {
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if (context.size != array.shape[0]) {
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error("Array dimension mismatch")
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}
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}
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//private val array = context.ndField.produce { list -> initializer(list[0]) }
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override val rows: Int get() = context.rows
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override val columns: Int = 1
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override fun get(i: Int, j: Int): T {
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override fun get(i: Int): T {
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return array[i]
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}
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override val self: ArrayVector<T> get() = this
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}
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/**
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@ -193,8 +194,8 @@ class ArrayVector<T : Any> internal constructor(override val context: ArrayVecto
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*/
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interface LinearSolver<T : Any> {
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fun solve(a: Matrix<T>, b: Matrix<T>): Matrix<T>
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fun solve(a: Matrix<T>, b: Vector<T>): Vector<T> = solve(a, b as Matrix<T>).toVector()
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fun inverse(a: Matrix<T>): Matrix<T> = solve(a, a.context.one)
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fun solve(a: Matrix<T>, b: Vector<T>): Vector<T> = solve(a, b.toMatrix()).toVector()
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fun inverse(a: Matrix<T>): Matrix<T> = solve(a, Matrix.one(a.rows, a.columns, a.context.field))
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}
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/**
|
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@ -220,13 +221,13 @@ fun DoubleArray.asVector() = realVector(this.size) { this[it] }
|
||||
* Create [ArrayMatrix] with custom field
|
||||
*/
|
||||
fun <T : Any> matrix(rows: Int, columns: Int, field: Field<T>, initializer: (Int, Int) -> T) =
|
||||
ArrayMatrix(ArraySpace(rows, columns, field), initializer)
|
||||
ArrayMatrix(ArrayMatrixSpace(rows, columns, field), initializer)
|
||||
|
||||
/**
|
||||
* Create [ArrayMatrix] of doubles.
|
||||
*/
|
||||
fun realMatrix(rows: Int, columns: Int, initializer: (Int, Int) -> Double) =
|
||||
ArrayMatrix(ArraySpace(rows, columns, DoubleField, realNDFieldFactory), initializer)
|
||||
ArrayMatrix(ArrayMatrixSpace(rows, columns, DoubleField, realNDFieldFactory), initializer)
|
||||
|
||||
|
||||
/**
|
||||
@ -234,17 +235,28 @@ fun realMatrix(rows: Int, columns: Int, initializer: (Int, Int) -> Double) =
|
||||
*/
|
||||
fun <T : Any> Matrix<T>.toVector(): Vector<T> {
|
||||
return when {
|
||||
this is Vector -> return this
|
||||
this.columns == 1 -> {
|
||||
if (this is ArrayMatrix) {
|
||||
//Reuse existing underlying array
|
||||
ArrayVector(ArrayVectorSpace(rows, context.field, context.ndFactory), array)
|
||||
} else {
|
||||
//Generic vector
|
||||
vector(rows, context.field) { get(it, 0) }
|
||||
}
|
||||
// if (this is ArrayMatrix) {
|
||||
// //Reuse existing underlying array
|
||||
// ArrayVector(ArrayVectorSpace(rows, context.field, context.ndFactory), array)
|
||||
// } else {
|
||||
// //Generic vector
|
||||
// vector(rows, context.field) { get(it, 0) }
|
||||
// }
|
||||
vector(rows, context.field) { get(it, 0) }
|
||||
}
|
||||
else -> error("Can't convert matrix with more than one column to vector")
|
||||
}
|
||||
}
|
||||
|
||||
fun <T : Any> Vector<T>.toMatrix(): Matrix<T> {
|
||||
// return if (this is ArrayVector) {
|
||||
// //Reuse existing underlying array
|
||||
// ArrayMatrix(ArrayMatrixSpace(size, 1, context.field, context.ndFactory), array)
|
||||
// } else {
|
||||
// //Generic vector
|
||||
// matrix(size, 1, context.field) { i, j -> get(i) }
|
||||
// }
|
||||
return matrix(size, 1, context.field) { i, j -> get(i) }
|
||||
}
|
||||
|
||||
|
@ -7,6 +7,11 @@ package scientifik.kmath.operations
|
||||
* @param S the type of mathematical context for this element
|
||||
*/
|
||||
interface MathElement<T, S> {
|
||||
/**
|
||||
* Self value. Needed for static type checking.
|
||||
*/
|
||||
val self: T
|
||||
|
||||
/**
|
||||
* The context this element belongs to
|
||||
*/
|
||||
@ -54,12 +59,6 @@ interface Space<T> {
|
||||
* @param S the type of space
|
||||
*/
|
||||
interface SpaceElement<T, S : Space<T>> : MathElement<T, S> {
|
||||
|
||||
/**
|
||||
* Self value. Needed for static type checking. Needed to avoid type erasure on JVM.
|
||||
*/
|
||||
val self: T
|
||||
|
||||
operator fun plus(b: T): T = context.add(self, b)
|
||||
operator fun minus(b: T): T = context.add(self, context.multiply(b, -1.0))
|
||||
operator fun times(k: Number): T = context.multiply(self, k.toDouble())
|
||||
|
@ -1,6 +1,5 @@
|
||||
package scientifik.kmath.structures
|
||||
package scientifik.kmath.linear
|
||||
|
||||
import scientifik.kmath.linear.realVector
|
||||
import kotlin.test.Test
|
||||
import kotlin.test.assertEquals
|
||||
|
||||
@ -11,17 +10,25 @@ class ArrayMatrixTest {
|
||||
val vector1 = realVector(5) { it.toDouble() }
|
||||
val vector2 = realVector(5) { 5 - it.toDouble() }
|
||||
val sum = vector1 + vector2
|
||||
assertEquals(5.0, sum[2, 0])
|
||||
assertEquals(5.0, sum[2])
|
||||
}
|
||||
|
||||
@Test
|
||||
fun testVectorToMatrix() {
|
||||
val vector = realVector(5) { it.toDouble() }
|
||||
val matrix = vector.toMatrix()
|
||||
assertEquals(4.0, matrix[4, 0])
|
||||
}
|
||||
|
||||
|
||||
@Test
|
||||
fun testDot() {
|
||||
val vector1 = realVector(5) { it.toDouble() }
|
||||
val vector2 = realVector(5) { 5 - it.toDouble() }
|
||||
val product = with(vector1.context) {
|
||||
vector1 dot (vector2.transpose())
|
||||
}
|
||||
val product = vector1.toMatrix() dot (vector2.toMatrix().transpose())
|
||||
|
||||
assertEquals(10.0, product[1, 0])
|
||||
|
||||
assertEquals(5.0, product[1, 0])
|
||||
assertEquals(6.0, product[2, 2])
|
||||
}
|
||||
}
|
@ -0,0 +1,14 @@
|
||||
package scientifik.kmath.linear
|
||||
|
||||
import scientifik.kmath.operations.DoubleField
|
||||
import kotlin.test.Test
|
||||
import kotlin.test.assertEquals
|
||||
|
||||
class RealLUSolverTest {
|
||||
@Test
|
||||
fun testInvert() {
|
||||
val matrix = Matrix.one(2, 2, DoubleField)
|
||||
val inverted = RealLUSolver.inverse(matrix)
|
||||
assertEquals(1.0, inverted[0, 0])
|
||||
}
|
||||
}
|
@ -10,5 +10,4 @@ enableFeaturePreview('GRADLE_METADATA')
|
||||
|
||||
rootProject.name = 'kmath'
|
||||
include ':kmath-core'
|
||||
include ':kmath-commons'
|
||||
|
||||
|
Loading…
Reference in New Issue
Block a user