adelie.adelie_core.matrix.MatrixNaiveInteractionDense32C

class adelie.adelie_core.matrix.MatrixNaiveInteractionDense32C

Core matrix class for naive interaction matrix.

Methods

__init__(self, mat, pairs, levels, n_threads)
bmul(self, arg0, arg1, arg2, arg3, arg4)	Computes a column block matrix-vector multiplication.
bmul_safe(self, arg0, arg1, arg2, arg3, arg4)	Computes a column block matrix-vector multiplication.
btmul(self, arg0, arg1, arg2, arg3)	Computes a column block matrix transpose-vector multiplication increment.
cmul(self, arg0, arg1, arg2)	Computes a column vector-vector multiplication.
cmul_safe(self, arg0, arg1, arg2)	Computes a column vector-vector multiplication.
cols(self)	Returns the number of columns.
cov(self, arg0, arg1, arg2, arg3)	Computes a weighted covariance matrix.
ctmul(self, arg0, arg1, arg2)	Computes a column vector-scalar multiplication increment.
mean(self, arg0, arg1)	Computes the implied column means.
mul(self, arg0, arg1, arg2)	Computes a matrix-vector multiplication.
rows(self)	Returns the number of rows.
sp_tmul(self, arg0, arg1)	Computes a matrix transpose-sparse matrix multiplication.
sq_mul(self, arg0, arg1)	Computes a squared matrix-vector multiplication.
var(self, arg0, arg1, arg2)	Computes the implied column variances.

Attributes

group_sizes	List of group sizes corresponding to each element in groups.
groups	List of starting indices to each group where G is the number of groups.
ndim	Number of dimensions.
shape	Shape of the matrix.

__init__(self: adelie.adelie_core.matrix.MatrixNaiveInteractionDense32C, mat: numpy.ndarray[numpy.float32[m, n], flags.c_contiguous], pairs: numpy.ndarray[numpy.int64[m, n], flags.c_contiguous], levels: numpy.ndarray[numpy.int64[1, n]], n_threads: int) → None

bmul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: int, arg2: numpy.ndarray[numpy.float32[1, n]], arg3: numpy.ndarray[numpy.float32[1, n]], arg4: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes a column block matrix-vector multiplication.

Computes the matrix-vector multiplication (v * w).T @ X[:, j:j+q].

Warning

This function is not thread-safe!

Parameters:

jint

Column index.

qint

Number of columns.

v(n,) ndarray

Vector to multiply with the block matrix.

w(n,) ndarray

Vector of weights.

out(q,) ndarray

Vector to store in-place the result.

bmul_safe(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: int, arg2: numpy.ndarray[numpy.float32[1, n]], arg3: numpy.ndarray[numpy.float32[1, n]], arg4: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes a column block matrix-vector multiplication.

Thread-safe version of bmul().

Parameters:

jint

Column index.

qint

Number of columns.

v(n,) ndarray

Vector to multiply with the block matrix.

w(n,) ndarray

Vector of weights.

out(q,) ndarray

Vector to store in-place the result.

btmul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: int, arg2: numpy.ndarray[numpy.float32[1, n]], arg3: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes a column block matrix transpose-vector multiplication increment.

Computes the matrix-vector multiplication v.T @ X[:, j:j+q].T. The result is incremented into the output vector.

Warning

This function is not thread-safe!

Parameters:

jint

Column index.

qint

Number of columns.

v(q,) ndarray

Vector to multiply with the block matrix.

out(n,) ndarray

Vector to increment in-place the result.

cmul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: numpy.ndarray[numpy.float32[1, n]], arg2: numpy.ndarray[numpy.float32[1, n]]) → float

Computes a column vector-vector multiplication.

Computes the dot-product (v * w).T @ X[:,j].

Warning

This function is not thread-safe!

Parameters:

jint

Column index.

v(n,) ndarray

Vector to dot product with the j th column.

w(n,) ndarray

Vector of weights.

Returns:

dotfloat

Column vector-vector multiplication.

cmul_safe(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: numpy.ndarray[numpy.float32[1, n]], arg2: numpy.ndarray[numpy.float32[1, n]]) → float

Computes a column vector-vector multiplication.

Thread-safe version of cmul().

Parameters:

jint

Column index.

v(n,) ndarray

Vector to dot product with the j th column.

w(n,) ndarray

Vector of weights.

Returns:

dotfloat

Column vector-vector multiplication.

cols(self: adelie.adelie_core.matrix.MatrixNaiveBase32) → int

Returns the number of columns.

Returns:

colsint

Number of columns.

cov(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: int, arg2: numpy.ndarray[numpy.float32[1, n]], arg3: numpy.ndarray[numpy.float32[m, n], flags.writeable, flags.f_contiguous]) → None

Computes a weighted covariance matrix.

Computes the weighted covariance matrix X[:, j:j+q].T @ W @ X[:, j:j+q].

This function is thread-safe.

Note

Although the name is “covariance”, we do not center the columns of X!

Parameters:

jint

Column index.

qint

Number of columns.

sqrt_weights(n,) ndarray

Square-root of the weights.

out(q, q) ndarray

Matrix to store in-place the result.

ctmul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: int, arg1: float, arg2: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes a column vector-scalar multiplication increment.

Computes the vector-scalar multiplication v * X[:,j]. The result is incremented into the output vector.

Warning

This function is not thread-safe!

Parameters:

jint

Column index.

vfloat

Scalar to multiply with the j th column.

out(n,) ndarray

Vector to increment in-place the result.

mean(self: adelie.adelie_core.matrix.MatrixNaiveInteractionDense32C, arg0: numpy.ndarray[numpy.float32[1, n]], arg1: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes the implied column means.

It is undefined for this matrix class and is only exposed for API consistency.

Parameters:

weights(n,) ndarray

Vector of weights.

out(p,) ndarray

Vector to store in-place the result.

mul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: numpy.ndarray[numpy.float32[1, n]], arg1: numpy.ndarray[numpy.float32[1, n]], arg2: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes a matrix-vector multiplication.

Computes the matrix-vector multiplication (v * w).T @ X.

Parameters:

v(n,) ndarray

Vector to multiply with the matrix.

w(n,) ndarray

Vector of weights.

out(p,) ndarray

Vector to store in-place the result.

rows(self: adelie.adelie_core.matrix.MatrixNaiveBase32) → int

Returns the number of rows.

Returns:

rowsint

Number of rows.

sp_tmul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: scipy.sparse.csr_matrix[numpy.float32], arg1: numpy.ndarray[numpy.float32[m, n], flags.writeable, flags.c_contiguous]) → None

Computes a matrix transpose-sparse matrix multiplication.

Computes the matrix transpose-sparse matrix multiplication v.T @ X.T.

Parameters:

v(L, p) csr_matrix

Sparse matrix to multiply with the matrix.

out(L, n) ndarray

Matrix to store in-place the result.

sq_mul(self: adelie.adelie_core.matrix.MatrixNaiveBase32, arg0: numpy.ndarray[numpy.float32[1, n]], arg1: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes a squared matrix-vector multiplication.

Computes the squared matrix-vector multiplication w.T @ X ** 2.

Parameters:

weights(n,) ndarray

Vector of weights.

out(p,) ndarray

Vector to store in-place the result.

var(self: adelie.adelie_core.matrix.MatrixNaiveInteractionDense32C, arg0: numpy.ndarray[numpy.float32[1, n]], arg1: numpy.ndarray[numpy.float32[1, n]], arg2: numpy.ndarray[numpy.float32[1, n], flags.writeable]) → None

Computes the implied column variances.

It is undefined for this matrix class and is only exposed for API consistency.

Parameters:

centers(p,) ndarray

Vector of centers.

weights(n,) ndarray

Vector of weights.

out(p,) ndarray

Vector to store in-place the result.

group_sizes

List of group sizes corresponding to each element in groups. group_sizes[i] is the group size of the i th group.

groups

List of starting indices to each group where G is the number of groups. groups[i] is the starting index of the i th group. The groups are naturally defined by pairs. In the order of the rows of pairs, we group all columns of the current matrix corresponding to each row of pairs.

ndim

Number of dimensions. It is always 2.

shape

Shape of the matrix.