_dict_learning.py

""" Dictionary learning.
"""
# Author: Vlad Niculae, Gael Varoquaux, Alexandre Gramfort
# License: BSD 3 clause

import time
import sys
import itertools
import warnings

from math import ceil

import numpy as np
from scipy import linalg
from joblib import Parallel, effective_n_jobs

from ..base import BaseEstimator, TransformerMixin
from ..utils import deprecated
from ..utils import check_array, check_random_state, gen_even_slices, gen_batches
from ..utils.extmath import randomized_svd, row_norms, svd_flip
from ..utils.validation import check_is_fitted
from ..utils.fixes import delayed
from ..linear_model import Lasso, orthogonal_mp_gram, LassoLars, Lars


def _check_positive_coding(method, positive):
    if positive and method in ["omp", "lars"]:
        raise ValueError(
            "Positive constraint not supported for '{}' coding method.".format(method)
        )


def _sparse_encode(
    X,
    dictionary,
    gram,
    cov=None,
    algorithm="lasso_lars",
    regularization=None,
    copy_cov=True,
    init=None,
    max_iter=1000,
    check_input=True,
    verbose=0,
    positive=False,
):
    """Generic sparse coding.

    Each column of the result is the solution to a Lasso problem.

    Parameters
    ----------
    X : ndarray of shape (n_samples, n_features)
        Data matrix.

    dictionary : ndarray of shape (n_components, n_features)
        The dictionary matrix against which to solve the sparse coding of
        the data. Some of the algorithms assume normalized rows.

    gram : ndarray of shape (n_components, n_components) or None
        Precomputed Gram matrix, `dictionary * dictionary'`
        gram can be `None` if method is 'threshold'.

    cov : ndarray of shape (n_components, n_samples), default=None
        Precomputed covariance, `dictionary * X'`.

    algorithm : {'lasso_lars', 'lasso_cd', 'lars', 'omp', 'threshold'}, \
            default='lasso_lars'
        The algorithm used:

        * `'lars'`: uses the least angle regression method
          (`linear_model.lars_path`);
        * `'lasso_lars'`: uses Lars to compute the Lasso solution;
        * `'lasso_cd'`: uses the coordinate descent method to compute the
          Lasso solution (`linear_model.Lasso`). lasso_lars will be faster if
          the estimated components are sparse;
        * `'omp'`: uses orthogonal matching pursuit to estimate the sparse
          solution;
        * `'threshold'`: squashes to zero all coefficients less than
          regularization from the projection `dictionary * data'`.

    regularization : int or float, default=None
        The regularization parameter. It corresponds to alpha when
        algorithm is `'lasso_lars'`, `'lasso_cd'` or `'threshold'`.
        Otherwise it corresponds to `n_nonzero_coefs`.

    init : ndarray of shape (n_samples, n_components), default=None
        Initialization value of the sparse code. Only used if
        `algorithm='lasso_cd'`.

    max_iter : int, default=1000
        Maximum number of iterations to perform if `algorithm='lasso_cd'` or
        `'lasso_lars'`.

    copy_cov : bool, default=True
        Whether to copy the precomputed covariance matrix; if `False`, it may
        be overwritten.

    check_input : bool, default=True
        If `False`, the input arrays `X` and dictionary will not be checked.

    verbose : int, default=0
        Controls the verbosity; the higher, the more messages.

    positive: bool, default=False
        Whether to enforce a positivity constraint on the sparse code.

        .. versionadded:: 0.20

    Returns
    -------
    code : ndarray of shape (n_components, n_features)
        The sparse codes.

    See Also
    --------
    sklearn.linear_model.lars_path
    sklearn.linear_model.orthogonal_mp
    sklearn.linear_model.Lasso
    SparseCoder
    """
    if X.ndim == 1:
        X = X[:, np.newaxis]
    n_samples, n_features = X.shape
    n_components = dictionary.shape[0]
    if dictionary.shape[1] != X.shape[1]:
        raise ValueError(
            "Dictionary and X have different numbers of features:"
            "dictionary.shape: {} X.shape{}".format(dictionary.shape, X.shape)
        )
    if cov is None and algorithm != "lasso_cd":
        # overwriting cov is safe
        copy_cov = False
        cov = np.dot(dictionary, X.T)

    _check_positive_coding(algorithm, positive)

    if algorithm == "lasso_lars":
        alpha = float(regularization) / n_features  # account for scaling
        try:
            err_mgt = np.seterr(all="ignore")

            # Not passing in verbose=max(0, verbose-1) because Lars.fit already
            # corrects the verbosity level.
            lasso_lars = LassoLars(
                alpha=alpha,
                fit_intercept=False,
                verbose=verbose,
                normalize=False,
                precompute=gram,
                fit_path=False,
                positive=positive,
                max_iter=max_iter,
            )
            lasso_lars.fit(dictionary.T, X.T, Xy=cov)
            new_code = lasso_lars.coef_
        finally:
            np.seterr(**err_mgt)

    elif algorithm == "lasso_cd":
        alpha = float(regularization) / n_features  # account for scaling

        # TODO: Make verbosity argument for Lasso?
        # sklearn.linear_model.coordinate_descent.enet_path has a verbosity
        # argument that we could pass in from Lasso.
        clf = Lasso(
            alpha=alpha,
            fit_intercept=False,
            normalize="deprecated",  # as it was False by default
            precompute=gram,
            max_iter=max_iter,
            warm_start=True,
            positive=positive,
        )

        if init is not None:
            clf.coef_ = init

        clf.fit(dictionary.T, X.T, check_input=check_input)
        new_code = clf.coef_

    elif algorithm == "lars":
        try:
            err_mgt = np.seterr(all="ignore")

            # Not passing in verbose=max(0, verbose-1) because Lars.fit already
            # corrects the verbosity level.
            lars = Lars(
                fit_intercept=False,
                verbose=verbose,
                normalize=False,
                precompute=gram,
                n_nonzero_coefs=int(regularization),
                fit_path=False,
            )
            lars.fit(dictionary.T, X.T, Xy=cov)
            new_code = lars.coef_
        finally:
            np.seterr(**err_mgt)

    elif algorithm == "threshold":
        new_code = (np.sign(cov) * np.maximum(np.abs(cov) - regularization, 0)).T
        if positive:
            np.clip(new_code, 0, None, out=new_code)

    elif algorithm == "omp":
        new_code = orthogonal_mp_gram(
            Gram=gram,
            Xy=cov,
            n_nonzero_coefs=int(regularization),
            tol=None,
            norms_squared=row_norms(X, squared=True),
            copy_Xy=copy_cov,
        ).T
    else:
        raise ValueError(
            'Sparse coding method must be "lasso_lars" '
            '"lasso_cd", "lasso", "threshold" or "omp", got %s.' % algorithm
        )
    if new_code.ndim != 2:
        return new_code.reshape(n_samples, n_components)
    return new_code


# XXX : could be moved to the linear_model module
def sparse_encode(
    X,
    dictionary,
    *,
    gram=None,
    cov=None,
    algorithm="lasso_lars",
    n_nonzero_coefs=None,
    alpha=None,
    copy_cov=True,
    init=None,
    max_iter=1000,
    n_jobs=None,
    check_input=True,
    verbose=0,
    positive=False,
):
    """Sparse coding

    Each row of the result is the solution to a sparse coding problem.
    The goal is to find a sparse array `code` such that::

        X ~= code * dictionary

    Read more in the :ref:`User Guide <SparseCoder>`.

    Parameters
    ----------
    X : ndarray of shape (n_samples, n_features)
        Data matrix.

    dictionary : ndarray of shape (n_components, n_features)
        The dictionary matrix against which to solve the sparse coding of
        the data. Some of the algorithms assume normalized rows for meaningful
        output.

    gram : ndarray of shape (n_components, n_components), default=None
        Precomputed Gram matrix, `dictionary * dictionary'`.

    cov : ndarray of shape (n_components, n_samples), default=None
        Precomputed covariance, `dictionary' * X`.

    algorithm : {'lasso_lars', 'lasso_cd', 'lars', 'omp', 'threshold'}, \
            default='lasso_lars'
        The algorithm used:

        * `'lars'`: uses the least angle regression method
          (`linear_model.lars_path`);
        * `'lasso_lars'`: uses Lars to compute the Lasso solution;
        * `'lasso_cd'`: uses the coordinate descent method to compute the
          Lasso solution (`linear_model.Lasso`). lasso_lars will be faster if
          the estimated components are sparse;
        * `'omp'`: uses orthogonal matching pursuit to estimate the sparse
          solution;
        * `'threshold'`: squashes to zero all coefficients less than
          regularization from the projection `dictionary * data'`.

    n_nonzero_coefs : int, default=None
        Number of nonzero coefficients to target in each column of the
        solution. This is only used by `algorithm='lars'` and `algorithm='omp'`
        and is overridden by `alpha` in the `omp` case. If `None`, then
        `n_nonzero_coefs=int(n_features / 10)`.

    alpha : float, default=None
        If `algorithm='lasso_lars'` or `algorithm='lasso_cd'`, `alpha` is the
        penalty applied to the L1 norm.
        If `algorithm='threshold'`, `alpha` is the absolute value of the
        threshold below which coefficients will be squashed to zero.
        If `algorithm='omp'`, `alpha` is the tolerance parameter: the value of
        the reconstruction error targeted. In this case, it overrides
        `n_nonzero_coefs`.
        If `None`, default to 1.

    copy_cov : bool, default=True
        Whether to copy the precomputed covariance matrix; if `False`, it may
        be overwritten.

    init : ndarray of shape (n_samples, n_components), default=None
        Initialization value of the sparse codes. Only used if
        `algorithm='lasso_cd'`.

    max_iter : int, default=1000
        Maximum number of iterations to perform if `algorithm='lasso_cd'` or
        `'lasso_lars'`.

    n_jobs : int, default=None
        Number of parallel jobs to run.
        ``None`` means 1 unless in a :obj:`joblib.parallel_backend` context.
        ``-1`` means using all processors. See :term:`Glossary <n_jobs>`
        for more details.

    check_input : bool, default=True
        If `False`, the input arrays X and dictionary will not be checked.

    verbose : int, default=0
        Controls the verbosity; the higher, the more messages.

    positive : bool, default=False
        Whether to enforce positivity when finding the encoding.

        .. versionadded:: 0.20

    Returns
    -------
    code : ndarray of shape (n_samples, n_components)
        The sparse codes

    See Also
    --------
    sklearn.linear_model.lars_path
    sklearn.linear_model.orthogonal_mp
    sklearn.linear_model.Lasso
    SparseCoder
    """
    if check_input:
        if algorithm == "lasso_cd":
            dictionary = check_array(dictionary, order="C", dtype="float64")
            X = check_array(X, order="C", dtype="float64")
        else:
            dictionary = check_array(dictionary)
            X = check_array(X)

    n_samples, n_features = X.shape
    n_components = dictionary.shape[0]

    if gram is None and algorithm != "threshold":
        gram = np.dot(dictionary, dictionary.T)

    if cov is None and algorithm != "lasso_cd":
        copy_cov = False
        cov = np.dot(dictionary, X.T)

    if algorithm in ("lars", "omp"):
        regularization = n_nonzero_coefs
        if regularization is None:
            regularization = min(max(n_features / 10, 1), n_components)
    else:
        regularization = alpha
        if regularization is None:
            regularization = 1.0

    if effective_n_jobs(n_jobs) == 1 or algorithm == "threshold":
        code = _sparse_encode(
            X,
            dictionary,
            gram,
            cov=cov,
            algorithm=algorithm,
            regularization=regularization,
            copy_cov=copy_cov,
            init=init,
            max_iter=max_iter,
            check_input=False,
            verbose=verbose,
            positive=positive,
        )
        return code

    # Enter parallel code block
    code = np.empty((n_samples, n_components))
    slices = list(gen_even_slices(n_samples, effective_n_jobs(n_jobs)))

    code_views = Parallel(n_jobs=n_jobs, verbose=verbose)(
        delayed(_sparse_encode)(
            X[this_slice],
            dictionary,
            gram,
            cov[:, this_slice] if cov is not None else None,
            algorithm,
            regularization=regularization,
            copy_cov=copy_cov,
            init=init[this_slice] if init is not None else None,
            max_iter=max_iter,
            check_input=False,
            verbose=verbose,
            positive=positive,
        )
        for this_slice in slices
    )
    for this_slice, this_view in zip(slices, code_views):
        code[this_slice] = this_view
    return code


def _update_dict(
    dictionary,
    Y,
    code,
    A=None,
    B=None,
    verbose=False,
    random_state=None,
    positive=False,
):
    """Update the dense dictionary factor in place.

    Parameters
    ----------
    dictionary : ndarray of shape (n_components, n_features)
        Value of the dictionary at the previous iteration.

    Y : ndarray of shape (n_samples, n_features)
        Data matrix.

    code : ndarray of shape (n_samples, n_components)
        Sparse coding of the data against which to optimize the dictionary.

    A : ndarray of shape (n_components, n_components), default=None
        Together with `B`, sufficient stats of the online model to update the
        dictionary.

    B : ndarray of shape (n_features, n_components), default=None
        Together with `A`, sufficient stats of the online model to update the
        dictionary.

    verbose: bool, default=False
        Degree of output the procedure will print.

    random_state : int, RandomState instance or None, default=None
        Used for randomly initializing the dictionary. Pass an int for
        reproducible results across multiple function calls.
        See :term:`Glossary <random_state>`.

    positive : bool, default=False
        Whether to enforce positivity when finding the dictionary.

        .. versionadded:: 0.20
    """
    n_samples, n_components = code.shape
    random_state = check_random_state(random_state)

    if A is None:
        A = code.T @ code
    if B is None:
        B = Y.T @ code

    n_unused = 0

    for k in range(n_components):
        if A[k, k] > 1e-6:
            # 1e-6 is arbitrary but consistent with the spams implementation
            dictionary[k] += (B[:, k] - A[k] @ dictionary) / A[k, k]
        else:
            # kth atom is almost never used -> sample a new one from the data
            newd = Y[random_state.choice(n_samples)]

            # add small noise to avoid making the sparse coding ill conditioned
            noise_level = 0.01 * (newd.std() or 1)  # avoid 0 std
            noise = random_state.normal(0, noise_level, size=len(newd))

            dictionary[k] = newd + noise
            code[:, k] = 0
            n_unused += 1

        if positive:
            np.clip(dictionary[k], 0, None, out=dictionary[k])

        # Projection on the constraint set ||V_k|| == 1
        dictionary[k] /= linalg.norm(dictionary[k])

    if verbose and n_unused > 0:
        print(f"{n_unused} unused atoms resampled.")


def dict_learning(
    X,
    n_components,
    *,
    alpha,
    max_iter=100,
    tol=1e-8,
    method="lars",
    n_jobs=None,
    dict_init=None,
    code_init=None,
    callback=None,
    verbose=False,
    random_state=None,
    return_n_iter=False,
    positive_dict=False,
    positive_code=False,
    method_max_iter=1000,
):
    """Solves a dictionary learning matrix factorization problem.

    Finds the best dictionary and the corresponding sparse code for
    approximating the data matrix X by solving::

        (U^*, V^*) = argmin 0.5 || X - U V ||_Fro^2 + alpha * || U ||_1,1
                     (U,V)
                    with || V_k ||_2 = 1 for all  0 <= k < n_components

    where V is the dictionary and U is the sparse code. ||.||_Fro stands for
    the Frobenius norm and ||.||_1,1 stands for the entry-wise matrix norm
    which is the sum of the absolute values of all the entries in the matrix.

    Read more in the :ref:`User Guide <DictionaryLearning>`.

    Parameters
    ----------
    X : ndarray of shape (n_samples, n_features)
        Data matrix.

    n_components : int
        Number of dictionary atoms to extract.

    alpha : int
        Sparsity controlling parameter.

    max_iter : int, default=100
        Maximum number of iterations to perform.

    tol : float, default=1e-8
        Tolerance for the stopping condition.

    method : {'lars', 'cd'}, default='lars'
        The method used:

        * `'lars'`: uses the least angle regression method to solve the lasso
           problem (`linear_model.lars_path`);
        * `'cd'`: uses the coordinate descent method to compute the
          Lasso solution (`linear_model.Lasso`). Lars will be faster if
          the estimated components are sparse.

    n_jobs : int, default=None
        Number of parallel jobs to run.
        ``None`` means 1 unless in a :obj:`joblib.parallel_backend` context.
        ``-1`` means using all processors. See :term:`Glossary <n_jobs>`
        for more details.

    dict_init : ndarray of shape (n_components, n_features), default=None
        Initial value for the dictionary for warm restart scenarios. Only used
        if `code_init` and `dict_init` are not None.

    code_init : ndarray of shape (n_samples, n_components), default=None
        Initial value for the sparse code for warm restart scenarios. Only used
        if `code_init` and `dict_init` are not None.

    callback : callable, default=None
        Callable that gets invoked every five iterations

    verbose : bool, default=False
        To control the verbosity of the procedure.

    random_state : int, RandomState instance or None, default=None
        Used for randomly initializing the dictionary. Pass an int for
        reproducible results across multiple function calls.
        See :term:`Glossary <random_state>`.

    return_n_iter : bool, default=False
        Whether or not to return the number of iterations.

    positive_dict : bool, default=False
        Whether to enforce positivity when finding the dictionary.

        .. versionadded:: 0.20

    positive_code : bool, default=False
        Whether to enforce positivity when finding the code.

        .. versionadded:: 0.20

    method_max_iter : int, default=1000
        Maximum number of iterations to perform.

        .. versionadded:: 0.22

    Returns
    -------
    code : ndarray of shape (n_samples, n_components)
        The sparse code factor in the matrix factorization.

    dictionary : ndarray of shape (n_components, n_features),
        The dictionary factor in the matrix factorization.

    errors : array
        Vector of errors at each iteration.

    n_iter : int
        Number of iterations run. Returned only if `return_n_iter` is
        set to True.

    See Also
    --------
    dict_learning_online
    DictionaryLearning
    MiniBatchDictionaryLearning
    SparsePCA
    MiniBatchSparsePCA
    """
    if method not in ("lars", "cd"):
        raise ValueError("Coding method %r not supported as a fit algorithm." % method)

    _check_positive_coding(method, positive_code)

    method = "lasso_" + method

    t0 = time.time()
    # Avoid integer division problems
    alpha = float(alpha)
    random_state = check_random_state(random_state)

    # Init the code and the dictionary with SVD of Y
    if code_init is not None and dict_init is not None:
        code = np.array(code_init, order="F")
        # Don't copy V, it will happen below
        dictionary = dict_init
    else:
        code, S, dictionary = linalg.svd(X, full_matrices=False)
        # flip the initial code's sign to enforce deterministic output
        code, dictionary = svd_flip(code, dictionary)
        dictionary = S[:, np.newaxis] * dictionary
    r = len(dictionary)
    if n_components <= r:  # True even if n_components=None
        code = code[:, :n_components]
        dictionary = dictionary[:n_components, :]
    else:
        code = np.c_[code, np.zeros((len(code), n_components - r))]
        dictionary = np.r_[
            dictionary, np.zeros((n_components - r, dictionary.shape[1]))
        ]

    # Fortran-order dict better suited for the sparse coding which is the
    # bottleneck of this algorithm.
    dictionary = np.asfortranarray(dictionary)

    errors = []
    current_cost = np.nan

    if verbose == 1:
        print("[dict_learning]", end=" ")

    # If max_iter is 0, number of iterations returned should be zero
    ii = -1

    for ii in range(max_iter):
        dt = time.time() - t0
        if verbose == 1:
            sys.stdout.write(".")
            sys.stdout.flush()
        elif verbose:
            print(
                "Iteration % 3i (elapsed time: % 3is, % 4.1fmn, current cost % 7.3f)"
                % (ii, dt, dt / 60, current_cost)
            )

        # Update code
        code = sparse_encode(
            X,
            dictionary,
            algorithm=method,
            alpha=alpha,
            init=code,
            n_jobs=n_jobs,
            positive=positive_code,
            max_iter=method_max_iter,
            verbose=verbose,
        )

        # Update dictionary in place
        _update_dict(
            dictionary,
            X,
            code,
            verbose=verbose,
            random_state=random_state,
            positive=positive_dict,
        )

        # Cost function
        current_cost = 0.5 * np.sum((X - code @ dictionary) ** 2) + alpha * np.sum(
            np.abs(code)
        )
        errors.append(current_cost)

        if ii > 0:
            dE = errors[-2] - errors[-1]
            # assert(dE >= -tol * errors[-1])
            if dE < tol * errors[-1]:
                if verbose == 1:
                    # A line return
                    print("")
                elif verbose:
                    print("--- Convergence reached after %d iterations" % ii)
                break
        if ii % 5 == 0 and callback is not None:
            callback(locals())

    if return_n_iter:
        return code, dictionary, errors, ii + 1
    else:
        return code, dictionary, errors


def dict_learning_online(
    X,
    n_components=2,
    *,
    alpha=1,
    n_iter=100,
    return_code=True,
    dict_init=None,
    callback=None,
    batch_size=3,
    verbose=False,
    shuffle=True,
    n_jobs=None,
    method="lars",
    iter_offset=0,
    random_state=None,
    return_inner_stats=False,
    inner_stats=None,
    return_n_iter=False,
    positive_dict=False,
    positive_code=False,
    method_max_iter=1000,
):
    """Solves a dictionary learning matrix factorization problem online.

    Finds the best dictionary and the corresponding sparse code for
    approximating the data matrix X by solving::

        (U^*, V^*) = argmin 0.5 || X - U V ||_Fro^2 + alpha * || U ||_1,1
                     (U,V)
                     with || V_k ||_2 = 1 for all  0 <= k < n_components

    where V is the dictionary and U is the sparse code. ||.||_Fro stands for
    the Frobenius norm and ||.||_1,1 stands for the entry-wise matrix norm
    which is the sum of the absolute values of all the entries in the matrix.
    This is accomplished by repeatedly iterating over mini-batches by slicing
    the input data.

    Read more in the :ref:`User Guide <DictionaryLearning>`.

    Parameters
    ----------
    X : ndarray of shape (n_samples, n_features)
        Data matrix.

    n_components : int, default=2
        Number of dictionary atoms to extract.

    alpha : float, default=1
        Sparsity controlling parameter.

    n_iter : int, default=100
        Number of mini-batch iterations to perform.

    return_code : bool, default=True
        Whether to also return the code U or just the dictionary `V`.

    dict_init : ndarray of shape (n_components, n_features), default=None
        Initial value for the dictionary for warm restart scenarios.

    callback : callable, default=None
        callable that gets invoked every five iterations.

    batch_size : int, default=3
        The number of samples to take in each batch.

    verbose : bool, default=False
        To control the verbosity of the procedure.

    shuffle : bool, default=True
        Whether to shuffle the data before splitting it in batches.

    n_jobs : int, default=None
        Number of parallel jobs to run.
        ``None`` means 1 unless in a :obj:`joblib.parallel_backend` context.
        ``-1`` means using all processors. See :term:`Glossary <n_jobs>`
        for more details.

    method : {'lars', 'cd'}, default='lars'
        * `'lars'`: uses the least angle regression method to solve the lasso
          problem (`linear_model.lars_path`);
        * `'cd'`: uses the coordinate descent method to compute the
          Lasso solution (`linear_model.Lasso`). Lars will be faster if
          the estimated components are sparse.

    iter_offset : int, default=0
        Number of previous iterations completed on the dictionary used for
        initialization.

    random_state : int, RandomState instance or None, default=None
        Used for initializing the dictionary when ``dict_init`` is not
        specified, randomly shuffling the data when ``shuffle`` is set to
        ``True``, and updating the dictionary. Pass an int for reproducible
        results across multiple function calls.
        See :term:`Glossary <random_state>`.

    return_inner_stats : bool, default=False
        Return the inner statistics A (dictionary covariance) and B
        (data approximation). Useful to restart the algorithm in an
        online setting. If `return_inner_stats` is `True`, `return_code` is
        ignored.

    inner_stats : tuple of (A, B) ndarrays, default=None
        Inner sufficient statistics that are kept by the algorithm.
        Passing them at initialization is useful in online settings, to
        avoid losing the history of the evolution.
        `A` `(n_components, n_components)` is the dictionary covariance matrix.
        `B` `(n_features, n_components)` is the data approximation matrix.

    return_n_iter : bool, default=False
        Whether or not to return the number of iterations.

    positive_dict : bool, default=False
        Whether to enforce positivity when finding the dictionary.

        .. versionadded:: 0.20

    positive_code : bool, default=False
        Whether to enforce positivity when finding the code.

        .. versionadded:: 0.20

    method_max_iter : int, default=1000
        Maximum number of iterations to perform when solving the lasso problem.

        .. versionadded:: 0.22

    Returns
    -------
    code : ndarray of shape (n_samples, n_components),
        The sparse code (only returned if `return_code=True`).

    dictionary : ndarray of shape (n_components, n_features),
        The solutions to the dictionary learning problem.

    n_iter : int
        Number of iterations run. Returned only if `return_n_iter` is
        set to `True`.

    See Also
    --------
    dict_learning
    DictionaryLearning
    MiniBatchDictionaryLearning
    SparsePCA
    MiniBatchSparsePCA
    """
    if n_components is None:
        n_components = X.shape[1]

    if method not in ("lars", "cd"):
        raise ValueError("Coding method not supported as a fit algorithm.")

    _check_positive_coding(method, positive_code)

    method = "lasso_" + method

    t0 = time.time()
    n_samples, n_features = X.shape
    # Avoid integer division problems
    alpha = float(alpha)
    random_state = check_random_state(random_state)

    # Init V with SVD of X
    if dict_init is not None:
        dictionary = dict_init
    else:
        _, S, dictionary = randomized_svd(X, n_components, random_state=random_state)
        dictionary = S[:, np.newaxis] * dictionary
    r = len(dictionary)
    if n_components <= r:
        dictionary = dictionary[:n_components, :]
    else:
        dictionary = np.r_[
            dictionary, np.zeros((n_components - r, dictionary.shape[1]))
        ]

    if verbose == 1:
        print("[dict_learning]", end=" ")

    if shuffle:
        X_train = X.copy()
        random_state.shuffle(X_train)
    else:
        X_train = X

    # Fortran-order dict better suited for the sparse coding which is the
    # bottleneck of this algorithm.
    dictionary = check_array(dictionary, order="F", dtype=np.float64, copy=False)
    dictionary = np.require(dictionary, requirements="W")

    X_train = check_array(X_train, order="C", dtype=np.float64, copy=False)

    batches = gen_batches(n_samples, batch_size)
    batches = itertools.cycle(batches)

    # The covariance of the dictionary
    if inner_stats is None:
        A = np.zeros((n_components, n_components))
        # The data approximation
        B = np.zeros((n_features, n_components))
    else:
        A = inner_stats[0].copy()
        B = inner_stats[1].copy()

    # If n_iter is zero, we need to return zero.
    ii = iter_offset - 1

    for ii, batch in zip(range(iter_offset, iter_offset + n_iter), batches):
        this_X = X_train[batch]
        dt = time.time() - t0
        if verbose == 1:
            sys.stdout.write(".")
            sys.stdout.flush()
        elif verbose:
            if verbose > 10 or ii % ceil(100.0 / verbose) == 0:
                print(
                    "Iteration % 3i (elapsed time: % 3is, % 4.1fmn)" % (ii, dt, dt / 60)
                )

        this_code = sparse_encode(
            this_X,
            dictionary,
            algorithm=method,
            alpha=alpha,
            n_jobs=n_jobs,
            check_input=False,
            positive=positive_code,
            max_iter=method_max_iter,
            verbose=verbose,
        )

        # Update the auxiliary variables
        if ii < batch_size - 1:
            theta = float((ii + 1) * batch_size)
        else:
            theta = float(batch_size ** 2 + ii + 1 - batch_size)
        beta = (theta + 1 - batch_size) / (theta + 1)

        A *= beta
        A += np.dot(this_code.T, this_code)
        B *= beta
        B += np.dot(this_X.T, this_code)

        # Update dictionary in place
        _update_dict(
            dictionary,
            this_X,
            this_code,
            A,
            B,
            verbose=verbose,
            random_state=random_state,
            positive=positive_dict,
        )

        # Maybe we need a stopping criteria based on the amount of
        # modification in the dictionary
        if callback is not None:
            callback(locals())

    if return_inner_stats:
        if return_n_iter:
            return dictionary, (A, B), ii - iter_offset + 1
        else:
            return dictionary, (A, B)
    if return_code:
        if verbose > 1:
            print("Learning code...", end=" ")
        elif verbose == 1:
            print("|", end=" ")
        code = sparse_encode(
            X,
            dictionary,
            algorithm=method,
            alpha=alpha,
            n_jobs=n_jobs,
            check_input=False,
            positive=positive_code,
            max_iter=method_max_iter,
            verbose=verbose,
        )
        if verbose > 1:
            dt = time.time() - t0
            print("done (total time: % 3is, % 4.1fmn)" % (dt, dt / 60))
        if return_n_iter:
            return code, dictionary, ii - iter_offset + 1
        else:
            return code, dictionary

    if return_n_iter:
        return dictionary, ii - iter_offset + 1
    else:
        return dictionary


class _BaseSparseCoding(TransformerMixin):
    """Base class from SparseCoder and DictionaryLearning algorithms."""

    def __init__(
        self,
        transform_algorithm,
        transform_n_nonzero_coefs,
        transform_alpha,
        split_sign,
        n_jobs,
        positive_code,
        transform_max_iter,
    ):
        self.transform_algorithm = transform_algorithm
        self.transform_n_nonzero_coefs = transform_n_nonzero_coefs
        self.transform_alpha = transform_alpha
        self.transform_max_iter = transform_max_iter
        self.split_sign = split_sign
        self.n_jobs = n_jobs
        self.positive_code = positive_code

    def _transform(self, X, dictionary):
        """Private method allowing to accommodate both DictionaryLearning and
        SparseCoder."""
        X = self._validate_data(X, reset=False)

        # transform_alpha has to be changed in _transform
        # this is done for consistency with the value of alpha
        if (
            hasattr(self, "alpha")
            and self.alpha != 1.0
            and self.transform_alpha is None
        ):
            warnings.warn(
                "By default transform_alpha will be equal to"
                "alpha instead of 1.0 starting from version 1.2",
                FutureWarning,
            )
            transform_alpha = 1.0  # TODO change to self.alpha in 1.2
        else:
            transform_alpha = self.transform_alpha

        code = sparse_encode(
            X,
            dictionary,
            algorithm=self.transform_algorithm,
            n_nonzero_coefs=self.transform_n_nonzero_coefs,
            alpha=transform_alpha,
            max_iter=self.transform_max_iter,
            n_jobs=self.n_jobs,
            positive=self.positive_code,
        )

        if self.split_sign:
            # feature vector is split into a positive and negative side
            n_samples, n_features = code.shape
            split_code = np.empty((n_samples, 2 * n_features))
            split_code[:, :n_features] = np.maximum(code, 0)
            split_code[:, n_features:] = -np.minimum(code, 0)
            code = split_code

        return code

    def transform(self, X):
        """Encode the data as a sparse combination of the dictionary atoms.

        Coding method is determined by the object parameter
        `transform_algorithm`.

        Parameters
        ----------
        X : ndarray of shape (n_samples, n_features)
            Test data to be transformed, must have the same number of
            features as the data used to train the model.

        Returns
        -------
        X_new : ndarray of shape (n_samples, n_components)
            Transformed data.
        """
        check_is_fitted(self)
        return self._transform(X, self.components_)


class SparseCoder(_BaseSparseCoding, BaseEstimator):
    """Sparse coding.

    Finds a sparse representation of data against a fixed, precomputed
    dictionary.

    Each row of the result is the solution to a sparse coding problem.
    The goal is to find a sparse array `code` such that::

        X ~= code * dictionary

    Read more in the :ref:`User Guide <SparseCoder>`.

    Parameters
    ----------
    dictionary : ndarray of shape (n_components, n_features)
        The dictionary atoms used for sparse coding. Lines are assumed to be
        normalized to unit norm.

    transform_algorithm : {'lasso_lars', 'lasso_cd', 'lars', 'omp', \
            'threshold'}, default='omp'
        Algorithm used to transform the data:

        - `'lars'`: uses the least angle regression method
          (`linear_model.lars_path`);
        - `'lasso_lars'`: uses Lars to compute the Lasso solution;
        - `'lasso_cd'`: uses the coordinate descent method to compute the
          Lasso solution (linear_model.Lasso). `'lasso_lars'` will be faster if
          the estimated components are sparse;
        - `'omp'`: uses orthogonal matching pursuit to estimate the sparse
          solution;
        - `'threshold'`: squashes to zero all coefficients less than alpha from
          the projection ``dictionary * X'``.

    transform_n_nonzero_coefs : int, default=None
        Number of nonzero coefficients to target in each column of the
        solution. This is only used by `algorithm='lars'` and `algorithm='omp'`
        and is overridden by `alpha` in the `omp` case. If `None`, then
        `transform_n_nonzero_coefs=int(n_features / 10)`.

    transform_alpha : float, default=None
        If `algorithm='lasso_lars'` or `algorithm='lasso_cd'`, `alpha` is the
        penalty applied to the L1 norm.
        If `algorithm='threshold'`, `alpha` is the absolute value of the
        threshold below which coefficients will be squashed to zero.
        If `algorithm='omp'`, `alpha` is the tolerance parameter: the value of
        the reconstruction error targeted. In this case, it overrides
        `n_nonzero_coefs`.
        If `None`, default to 1.

    split_sign : bool, default=False
        Whether to split the sparse feature vector into the concatenation of
        its negative part and its positive part. This can improve the
        performance of downstream classifiers.

    n_jobs : int, default=None
        Number of parallel jobs to run.
        ``None`` means 1 unless in a :obj:`joblib.parallel_backend` context.
        ``-1`` means using all processors. See :term:`Glossary <n_jobs>`
        for more details.

    positive_code : bool, default=False
        Whether to enforce positivity when finding the code.

        .. versionadded:: 0.20

    transform_max_iter : int, default=1000
        Maximum number of iterations to perform if `algorithm='lasso_cd'` or
        `lasso_lars`.

        .. versionadded:: 0.22

    Attributes
    ----------
    components_ : ndarray of shape (n_components, n_features)
        The unchanged dictionary atoms.

        .. deprecated:: 0.24
           This attribute is deprecated in 0.24 and will be removed in
           1.1 (renaming of 0.26). Use `dictionary` instead.

    n_components_ : int
        Number of atoms.

    n_features_in_ : int
        Number of features seen during :term:`fit`.

        .. versionadded:: 0.24

    feature_names_in_ : ndarray of shape (`n_features_in_`,)
        Names of features seen during :term:`fit`. Defined only when `X`
        has feature names that are all strings.

        .. versionadded:: 1.0

    See Also
    --------
    DictionaryLearning : Find a dictionary that sparsely encodes data.
    MiniBatchDictionaryLearning : A faster, less accurate, version of the
        dictionary learning algorithm.
    MiniBatchSparsePCA : Mini-batch Sparse Principal Components Analysis.
    SparsePCA : Mini-batch Sparse Principal Components Analysis.
    sparse_encode : Sparse coding where each row of the result is the solution
        to a sparse coding problem.

    Examples
    --------
    >>> import numpy as np
    >>> from sklearn.decomposition import SparseCoder
    >>> X = np.array([[-1, -1, -1], [0, 0, 3]])
    >>> dictionary = np.array(
    ...     [[0, 1, 0],
    ...      [-1, -1, 2],
    ...      [1, 1, 1],
    ...      [0, 1, 1],
    ...      [0, 2, 1]],
    ...    dtype=np.float64
    ... )
    >>> coder = SparseCoder(
    ...     dictionary=dictionary, transform_algorithm='lasso_lars',
    ...     transform_alpha=1e-10,
    ... )
    >>> coder.transform(X)
    array([[ 0.,  0., -1.,  0.,  0.],
           [ 0.,  1.,  1.,  0.,  0.]])
    """

    _required_parameters = ["dictionary"]

    def __init__(
        self,
        dictionary,
        *,
        transform_algorithm="omp",
        transform_n_nonzero_coefs=None,
        transform_alpha=None,
        split_sign=False,
        n_jobs=None,
        positive_code=False,
        transform_max_iter=1000,
    ):
        super().__init__(
            transform_algorithm,
            transform_n_nonzero_coefs,
            transform_alpha,
            split_sign,
            n_jobs,
            positive_code,
            transform_max_iter,
        )
        self.dictionary = dictionary

    def fit(self, X, y=None):
        """Do nothing and return the estimator unchanged.

        This method is just there to implement the usual API and hence
        work in pipelines.

        Parameters
        ----------
        X : Ignored
            Not used, present for API consistency by convention.

        y : Ignored
            Not used, present for API consistency by convention.

        Returns
        -------
        self : object
            Returns the instance itself.
        """
        return self

    @deprecated(  # type: ignore
        "The attribute `components_` is deprecated "
        "in 0.24 and will be removed in 1.1 (renaming of 0.26). Use the "
        "`dictionary` instead."
    )
    @property
    def components_(self):
        return self.dictionary

    def transform(self, X, y=None):
        """Encode the data as a sparse combination of the dictionary atoms.

        Coding method is determined by the object parameter
        `transform_algorithm`.

        Parameters
        ----------
        X : ndarray of shape (n_samples, n_features)
            Training vector, where `n_samples` is the number of samples
            and `n_features` is the number of features.

        y : Ignored
            Not used, present for API consistency by convention.

        Returns
        -------
        X_new : ndarray of shape (n_samples, n_components)
            Transformed data.
        """
        return super()._transform(X, self.dictionary)

    def _more_tags(self):
        return {"requires_fit": False}

    @property
    def n_components_(self):
        """Number of atoms."""
        return self.dictionary.shape[0]

    @property
    def n_features_in_(self):
        """Number of features seen during `fit`."""
        return self.dictionary.shape[1]


class DictionaryLearning(_BaseSparseCoding, BaseEstimator):
    """Dictionary learning.

    Finds a dictionary (a set of atoms) that performs well at sparsely
    encoding the fitted data.

    Solves the optimization problem::

        (U^*,V^*) = argmin 0.5 || X - U V ||_Fro^2 + alpha * || U ||_1,1
                    (U,V)
                    with || V_k ||_2 = 1 for all  0 <= k < n_components

    ||.||_Fro stands for the Frobenius norm and ||.||_1,1 stands for
    the entry-wise matrix norm which is the sum of the absolute values
    of all the entries in the matrix.

    Read more in the :ref:`User Guide <DictionaryLearning>`.

    Parameters
    ----------
    n_components : int, default=n_features
        Number of dictionary elements to extract.

    alpha : float, default=1.0
        Sparsity controlling parameter.

    max_iter : int, default=1000
        Maximum number of iterations to perform.

    tol : float, default=1e-8
        Tolerance for numerical error.

    fit_algorithm : {'lars', 'cd'}, default='lars'
        * `'lars'`: uses the least angle regression method to solve the lasso
          problem (:func:`~sklearn.linear_model.lars_path`);
        * `'cd'`: uses the coordinate descent method to compute the
          Lasso solution (:class:`~sklearn.linear_model.Lasso`). Lars will be
          faster if the estimated components are sparse.

        .. versionadded:: 0.17
           *cd* coordinate descent method to improve speed.

    transform_algorithm : {'lasso_lars', 'lasso_cd', 'lars', 'omp', \
            'threshold'}, default='omp'
        Algorithm used to transform the data:

        - `'lars'`: uses the least angle regression method
          (:func:`~sklearn.linear_model.lars_path`);
        - `'lasso_lars'`: uses Lars to compute the Lasso solution.
        - `'lasso_cd'`: uses the coordinate descent method to compute the
          Lasso solution (:class:`~sklearn.linear_model.Lasso`). `'lasso_lars'`
          will be faster if the estimated components are sparse.
        - `'omp'`: uses orthogonal matching pursuit to estimate the sparse
          solution.
        - `'threshold'`: squashes to zero all coefficients less than alpha from
          the projection ``dictionary * X'``.

        .. versionadded:: 0.17
           *lasso_cd* coordinate descent method to improve speed.

    transform_n_nonzero_coefs : int, default=None
        Number of nonzero coefficients to target in each column of the
        solution. This is only used by `algorithm='lars'` and
        `algorithm='omp'`. If `None`, then
        `transform_n_nonzero_coefs=int(n_features / 10)`.

    transform_alpha : float, default=None
        If `algorithm='lasso_lars'` or `algorithm='lasso_cd'`, `alpha` is the
        penalty applied to the L1 norm.
        If `algorithm='threshold'`, `alpha` is the absolute value of the
        threshold below which coefficients will be squashed to zero.
        If `None`, defaults to `alpha`.

    n_jobs : int or None, default=None
        Number of parallel jobs to run.
        ``None`` means 1 unless in a :obj:`joblib.parallel_backend` context.
        ``-1`` means using all processors. See :term:`Glossary <n_jobs>`
        for more details.

    code_init : ndarray of shape (n_samples, n_components), default=None
        Initial value for the code, for warm restart. Only used if `code_init`
        and `dict_init` are not None.

    dict_init : ndarray of shape (n_components, n_features), default=None
        Initial values for the dictionary, for warm restart. Only used if
        `code_init` and `dict_init` are not None.

    verbose : bool, default=False
        To control the verbosity of the procedure.

    split_sign : bool, default=False
        Whether to split the sparse feature vector into the concatenation of
        its negative part and its positive part. This can improve the
        performance of downstream classifiers.

    random_state : int, RandomState instance or None, default=None
        Used for initializing the dictionary when ``dict_init`` is not
        specified, randomly shuffling the data when ``shuffle`` is set to
        ``True``, and updating the dictionary. Pass an int for reproducible
        results across multiple function calls.
        See :term:`Glossary <random_state>`.

    positive_code : bool, default=False
        Whether to enforce positivity when finding the code.

        .. versionadded:: 0.20

    positive_dict : bool, default=False
        Whether to enforce positivity when finding the dictionary.

        .. versionadded:: 0.20

    transform_max_iter : int, default=1000
        Maximum number of iterations to perform if `algorithm='lasso_cd'` or
        `'lasso_lars'`.

        .. versionadded:: 0.22

    Attributes
    ----------
    components_ : ndarray of shape (n_components, n_features)
        dictionary atoms extracted from the data

    error_ : array
        vector of errors at each iteration

    n_features_in_ : int
        Number of features seen during :term:`fit`.

        .. versionadded:: 0.24

    feature_names_in_ : ndarray of shape (`n_features_in_`,)
        Names of features seen during :term:`fit`. Defined only when `X`
        has feature names that are all strings.

        .. versionadded:: 1.0

    n_iter_ : int
        Number of iterations run.

    See Also
    --------
    MiniBatchDictionaryLearning: A faster, less accurate, version of the
        dictionary learning algorithm.
    MiniBatchSparsePCA : Mini-batch Sparse Principal Components Analysis.
    SparseCoder : Find a sparse representation of data from a fixed,
        precomputed dictionary.
    SparsePCA : Sparse Principal Components Analysis.

    References
    ----------

    J. Mairal, F. Bach, J. Ponce, G. Sapiro, 2009: Online dictionary learning
    for sparse coding (https://www.di.ens.fr/sierra/pdfs/icml09.pdf)

    Examples
    --------
    >>> import numpy as np
    >>> from sklearn.datasets import make_sparse_coded_signal
    >>> from sklearn.decomposition import DictionaryLearning
    >>> X, dictionary, code = make_sparse_coded_signal(
    ...     n_samples=100, n_components=15, n_features=20, n_nonzero_coefs=10,
    ...     random_state=42,
    ... )
    >>> dict_learner = DictionaryLearning(
    ...     n_components=15, transform_algorithm='lasso_lars', random_state=42,
    ... )
    >>> X_transformed = dict_learner.fit_transform(X)

    We can check the level of sparsity of `X_transformed`:

    >>> np.mean(X_transformed == 0)
    0.87...

    We can compare the average squared euclidean norm of the reconstruction
    error of the sparse coded signal relative to the squared euclidean norm of
    the original signal:

    >>> X_hat = X_transformed @ dict_learner.components_
    >>> np.mean(np.sum((X_hat - X) ** 2, axis=1) / np.sum(X ** 2, axis=1))
    0.08...
    """

    def __init__(
        self,
        n_components=None,
        *,
        alpha=1,
        max_iter=1000,
        tol=1e-8,
        fit_algorithm="lars",
        transform_algorithm="omp",
        transform_n_nonzero_coefs=None,
        transform_alpha=None,
        n_jobs=None,
        code_init=None,
        dict_init=None,
        verbose=False,
        split_sign=False,
        random_state=None,
        positive_code=False,
        positive_dict=False,
        transform_max_iter=1000,
    ):

        super().__init__(
            transform_algorithm,
            transform_n_nonzero_coefs,
            transform_alpha,
            split_sign,
            n_jobs,
            positive_code,
            transform_max_iter,
        )
        self.n_components = n_components
        self.alpha = alpha
        self.max_iter = max_iter
        self.tol = tol
        self.fit_algorithm = fit_algorithm
        self.code_init = code_init
        self.dict_init = dict_init
        self.verbose = verbose
        self.random_state = random_state
        self.positive_dict = positive_dict

    def fit(self, X, y=None):
        """Fit the model from data in X.

        Parameters
        ----------
        X : array-like of shape (n_samples, n_features)
            Training vector, where `n_samples` is the number of samples
            and `n_features` is the number of features.

        y : Ignored
            Not used, present for API consistency by convention.

        Returns
        -------
        self : object
            Returns the instance itself.
        """
        random_state = check_random_state(self.random_state)
        X = self._validate_data(X)
        if self.n_components is None:
            n_components = X.shape[1]
        else:
            n_components = self.n_components

        V, U, E, self.n_iter_ = dict_learning(
            X,
            n_components,
            alpha=self.alpha,
            tol=self.tol,
            max_iter=self.max_iter,
            method=self.fit_algorithm,
            method_max_iter=self.transform_max_iter,
            n_jobs=self.n_jobs,
            code_init=self.code_init,
            dict_init=self.dict_init,
            verbose=self.verbose,
            random_state=random_state,
            return_n_iter=True,
            positive_dict=self.positive_dict,
            positive_code=self.positive_code,
        )
        self.components_ = U
        self.error_ = E
        return self


class MiniBatchDictionaryLearning(_BaseSparseCoding, BaseEstimator):
    """Mini-batch dictionary learning.

    Finds a dictionary (a set of atoms) that performs well at sparsely
    encoding the fitted data.

    Solves the optimization problem::

       (U^*,V^*) = argmin 0.5 || X - U V ||_Fro^2 + alpha * || U ||_1,1
                    (U,V)
                    with || V_k ||_2 = 1 for all  0 <= k < n_components

    ||.||_Fro stands for the Frobenius norm and ||.||_1,1 stands for
    the entry-wise matrix norm which is the sum of the absolute values
    of all the entries in the matrix.

    Read more in the :ref:`User Guide <DictionaryLearning>`.

    Parameters
    ----------
    n_components : int, default=None
        Number of dictionary elements to extract.

    alpha : float, default=1
        Sparsity controlling parameter.

    n_iter : int, default=1000
        Total number of iterations to perform.

    fit_algorithm : {'lars', 'cd'}, default='lars'
        The algorithm used:

        - `'lars'`: uses the least angle regression method to solve the lasso
          problem (`linear_model.lars_path`)
        - `'cd'`: uses the coordinate descent method to compute the
          Lasso solution (`linear_model.Lasso`). Lars will be faster if
          the estimated components are sparse.

    n_jobs : int, default=None
        Number of parallel jobs to run.
        ``None`` means 1 unless in a :obj:`joblib.parallel_backend` context.
        ``-1`` means using all processors. See :term:`Glossary <n_jobs>`
        for more details.

    batch_size : int, default=3
        Number of samples in each mini-batch.

    shuffle : bool, default=True
        Whether to shuffle the samples before forming batches.

    dict_init : ndarray of shape (n_components, n_features), default=None
        Initial value of the dictionary for warm restart scenarios.

    transform_algorithm : {'lasso_lars', 'lasso_cd', 'lars', 'omp', \
            'threshold'}, default='omp'
        Algorithm used to transform the data:

        - `'lars'`: uses the least angle regression method
          (`linear_model.lars_path`);
        - `'lasso_lars'`: uses Lars to compute the Lasso solution.
        - `'lasso_cd'`: uses the coordinate descent method to compute the
          Lasso solution (`linear_model.Lasso`). `'lasso_lars'` will be faster
          if the estimated components are sparse.
        - `'omp'`: uses orthogonal matching pursuit to estimate the sparse
          solution.
        - `'threshold'`: squashes to zero all coefficients less than alpha from
          the projection ``dictionary * X'``.

    transform_n_nonzero_coefs : int, default=None
        Number of nonzero coefficients to target in each column of the
        solution. This is only used by `algorithm='lars'` and
        `algorithm='omp'`. If `None`, then
        `transform_n_nonzero_coefs=int(n_features / 10)`.

    transform_alpha : float, default=None
        If `algorithm='lasso_lars'` or `algorithm='lasso_cd'`, `alpha` is the
        penalty applied to the L1 norm.
        If `algorithm='threshold'`, `alpha` is the absolute value of the
        threshold below which coefficients will be squashed to zero.
        If `None`, defaults to `alpha`.

    verbose : bool, default=False
        To control the verbosity of the procedure.

    split_sign : bool, default=False
        Whether to split the sparse feature vector into the concatenation of
        its negative part and its positive part. This can improve the
        performance of downstream classifiers.

    random_state : int, RandomState instance or None, default=None
        Used for initializing the dictionary when ``dict_init`` is not
        specified, randomly shuffling the data when ``shuffle`` is set to
        ``True``, and updating the dictionary. Pass an int for reproducible
        results across multiple function calls.
        See :term:`Glossary <random_state>`.

    positive_code : bool, default=False
        Whether to enforce positivity when finding the code.

        .. versionadded:: 0.20

    positive_dict : bool, default=False
        Whether to enforce positivity when finding the dictionary.

        .. versionadded:: 0.20

    transform_max_iter : int, default=1000
        Maximum number of iterations to perform if `algorithm='lasso_cd'` or
        `'lasso_lars'`.

        .. versionadded:: 0.22

    Attributes
    ----------
    components_ : ndarray of shape (n_components, n_features)
        Components extracted from the data.

    inner_stats_ : tuple of (A, B) ndarrays
        Internal sufficient statistics that are kept by the algorithm.
        Keeping them is useful in online settings, to avoid losing the
        history of the evolution, but they shouldn't have any use for the
        end user.
        `A` `(n_components, n_components)` is the dictionary covariance matrix.
        `B` `(n_features, n_components)` is the data approximation matrix.

    n_features_in_ : int
        Number of features seen during :term:`fit`.

        .. versionadded:: 0.24

    feature_names_in_ : ndarray of shape (`n_features_in_`,)
        Names of features seen during :term:`fit`. Defined only when `X`
        has feature names that are all strings.

        .. versionadded:: 1.0

    n_iter_ : int
        Number of iterations run.

    iter_offset_ : int
        The number of iteration on data batches that has been
        performed before.

    random_state_ : RandomState instance
        RandomState instance that is generated either from a seed, the random
        number generattor or by `np.random`.

    See Also
    --------
    DictionaryLearning : Find a dictionary that sparsely encodes data.
    MiniBatchSparsePCA : Mini-batch Sparse Principal Components Analysis.
    SparseCoder : Find a sparse representation of data from a fixed,
        precomputed dictionary.
    SparsePCA : Sparse Principal Components Analysis.

    References
    ----------

    J. Mairal, F. Bach, J. Ponce, G. Sapiro, 2009: Online dictionary learning
    for sparse coding (https://www.di.ens.fr/sierra/pdfs/icml09.pdf)

    Examples
    --------
    >>> import numpy as np
    >>> from sklearn.datasets import make_sparse_coded_signal
    >>> from sklearn.decomposition import MiniBatchDictionaryLearning
    >>> X, dictionary, code = make_sparse_coded_signal(
    ...     n_samples=100, n_components=15, n_features=20, n_nonzero_coefs=10,
    ...     random_state=42)
    >>> dict_learner = MiniBatchDictionaryLearning(
    ...     n_components=15, transform_algorithm='lasso_lars', random_state=42,
    ... )
    >>> X_transformed = dict_learner.fit_transform(X)

    We can check the level of sparsity of `X_transformed`:

    >>> np.mean(X_transformed == 0)
    0.86...

    We can compare the average squared euclidean norm of the reconstruction
    error of the sparse coded signal relative to the squared euclidean norm of
    the original signal:

    >>> X_hat = X_transformed @ dict_learner.components_
    >>> np.mean(np.sum((X_hat - X) ** 2, axis=1) / np.sum(X ** 2, axis=1))
    0.07...
    """

    def __init__(
        self,
        n_components=None,
        *,
        alpha=1,
        n_iter=1000,
        fit_algorithm="lars",
        n_jobs=None,
        batch_size=3,
        shuffle=True,
        dict_init=None,
        transform_algorithm="omp",
        transform_n_nonzero_coefs=None,
        transform_alpha=None,
        verbose=False,
        split_sign=False,
        random_state=None,
        positive_code=False,
        positive_dict=False,
        transform_max_iter=1000,
    ):

        super().__init__(
            transform_algorithm,
            transform_n_nonzero_coefs,
            transform_alpha,
            split_sign,
            n_jobs,
            positive_code,
            transform_max_iter,
        )
        self.n_components = n_components
        self.alpha = alpha
        self.n_iter = n_iter
        self.fit_algorithm = fit_algorithm
        self.dict_init = dict_init
        self.verbose = verbose
        self.shuffle = shuffle
        self.batch_size = batch_size
        self.split_sign = split_sign
        self.random_state = random_state
        self.positive_dict = positive_dict

    def fit(self, X, y=None):
        """Fit the model from data in X.

        Parameters
        ----------
        X : array-like of shape (n_samples, n_features)
            Training vector, where `n_samples` is the number of samples
            and `n_features` is the number of features.

        y : Ignored
            Not used, present for API consistency by convention.

        Returns
        -------
        self : object
            Returns the instance itself.
        """
        random_state = check_random_state(self.random_state)
        X = self._validate_data(X)

        U, (A, B), self.n_iter_ = dict_learning_online(
            X,
            self.n_components,
            alpha=self.alpha,
            n_iter=self.n_iter,
            return_code=False,
            method=self.fit_algorithm,
            method_max_iter=self.transform_max_iter,
            n_jobs=self.n_jobs,
            dict_init=self.dict_init,
            batch_size=self.batch_size,
            shuffle=self.shuffle,
            verbose=self.verbose,
            random_state=random_state,
            return_inner_stats=True,
            return_n_iter=True,
            positive_dict=self.positive_dict,
            positive_code=self.positive_code,
        )
        self.components_ = U
        # Keep track of the state of the algorithm to be able to do
        # some online fitting (partial_fit)
        self.inner_stats_ = (A, B)
        self.iter_offset_ = self.n_iter
        self.random_state_ = random_state
        return self

    def partial_fit(self, X, y=None, iter_offset=None):
        """Update the model using the data in X as a mini-batch.

        Parameters
        ----------
        X : array-like of shape (n_samples, n_features)
            Training vector, where `n_samples` is the number of samples
            and `n_features` is the number of features.

        y : Ignored
            Not used, present for API consistency by convention.

        iter_offset : int, default=None
            The number of iteration on data batches that has been
            performed before this call to `partial_fit`. This is optional:
            if no number is passed, the memory of the object is
            used.

        Returns
        -------
        self : object
            Returns the instance itself.
        """
        if not hasattr(self, "random_state_"):
            self.random_state_ = check_random_state(self.random_state)
        if hasattr(self, "components_"):
            dict_init = self.components_
        else:
            dict_init = self.dict_init
        inner_stats = getattr(self, "inner_stats_", None)
        if iter_offset is None:
            iter_offset = getattr(self, "iter_offset_", 0)
        X = self._validate_data(X, reset=(iter_offset == 0))
        U, (A, B) = dict_learning_online(
            X,
            self.n_components,
            alpha=self.alpha,
            n_iter=1,
            method=self.fit_algorithm,
            method_max_iter=self.transform_max_iter,
            n_jobs=self.n_jobs,
            dict_init=dict_init,
            batch_size=len(X),
            shuffle=False,
            verbose=self.verbose,
            return_code=False,
            iter_offset=iter_offset,
            random_state=self.random_state_,
            return_inner_stats=True,
            inner_stats=inner_stats,
            positive_dict=self.positive_dict,
            positive_code=self.positive_code,
        )
        self.components_ = U

        # Keep track of the state of the algorithm to be able to do
        # some online fitting (partial_fit)
        self.inner_stats_ = (A, B)
        self.iter_offset_ = iter_offset + 1
        return self