__all__ = ["VStack"]
import concurrent.futures as mt
import multiprocessing as mp
import threading
import numpy as np
import scipy as sp
# need to check scipy version since the interface submodule changed into
# _interface from scipy>=1.8.0
sp_version = sp.__version__.split(".")
if int(sp_version[0]) <= 1 and int(sp_version[1]) < 8:
from scipy.sparse.linalg.interface import LinearOperator as spLinearOperator
from scipy.sparse.linalg.interface import _get_dtype
else:
from scipy.sparse.linalg._interface import (
LinearOperator as spLinearOperator,
)
from scipy.sparse.linalg._interface import _get_dtype
from collections.abc import Callable, Sequence
from pylops import LinearOperator
from pylops.basicoperators import MatrixMult, Zero
from pylops.utils.backend import get_array_module, get_module, inplace_add, inplace_set
from pylops.utils.typing import DTypeLike, NDArray, Tinoutengine, Tparallel_kind
def _matvec_rmatvec_map(op: Callable, x: NDArray) -> NDArray:
"""matvec/rmatvec for multiprocessing / multithreading"""
return op(x).squeeze()
def _rmatvec_map_mt(op: Callable, x: NDArray, y: NDArray, lock: threading.Lock) -> None:
"""rmatvec for multithreading with lock"""
ylocal = op(x).squeeze()
with lock:
y[:] += ylocal
[docs]
class VStack(LinearOperator):
r"""Vertical stacking.
Stack a set of N linear operators vertically. Note that in case
one or more operators are filled with zeros, it is recommended to use
the :py:class:`pylops.Zero` operator instead of e.g.,
:py:class:`pylops.MatrixMult` with a matrix of zeros, as the former will
be simply by-passed both in the forward and adjoint steps.
Parameters
----------
ops : :obj:`list`
Linear operators to be stacked. Alternatively,
:obj:`numpy.ndarray` or :obj:`scipy.sparse` matrices can be passed
in place of one or more operators.
nproc : :obj:`int`, optional
Number of processes/threads used to evaluate the N operators in parallel using
``multiprocessing``/``concurrent.futures``. If ``nproc=1``, work in serial mode.
forceflat : :obj:`bool`, optional
.. versionadded:: 2.2.0
Force an array to be flattened after rmatvec.
inoutengine : :obj:`tuple`, optional
.. versionadded:: 2.4.0
Type of output vectors of `matvec` and `rmatvec. If ``None``, this is
inferred directly from the input vectors. Note that this is ignored
if ``nproc>1``.
parallel_kind : :obj:`str`, optional
.. versionadded:: 2.6.0
Parallelism kind when ``nproc>1``. Can be ``multiproc`` (using
:mod:`multiprocessing`) or ``multithread`` (using
:class:`concurrent.futures.ThreadPoolExecutor`). Defaults
to ``multiproc``.
dtype : :obj:`str`, optional
Type of elements in input array.
Attributes
----------
nops : :obj:`int`
Number of rows of the full operator (sum of rows of each block).
mops : :obj:`int`
Number of columns of the full operator (columns of each block).
nnops : :obj:`numpy.ndarray`
Cumulative sum of rows of each block, with a leading zero.
dims : :obj:`tuple`
Shape of the array after the adjoint, but before flattening.
For example, ``x_reshaped = (Op.H * y.ravel()).reshape(Op.dims)``.
dimsd : :obj:`tuple`
Shape of the array after the forward, but before flattening.
For example, ``y_reshaped = (Op * x.ravel()).reshape(Op.dimsd)``.
pool : :obj:`multiprocessing.Pool` or :obj:`concurrent.futures.ThreadPoolExecutor` or :obj:`None`
Pool of workers used to evaluate the N operators in parallel.
When ``nproc=1``, no pool is created (i.e., ``pool=None``).
shape : :obj:`tuple`
Operator shape.
Raises
------
ValueError
If ``ops`` have different number of rows
Notes
-----
A vertical stack of N linear operators is created such as its application
in forward mode leads to
.. math::
\begin{bmatrix}
\mathbf{L}_{1} \\
\mathbf{L}_{2} \\
\vdots \\
\mathbf{L}_{N}
\end{bmatrix}
\mathbf{x} =
\begin{bmatrix}
\mathbf{L}_{1} \mathbf{x} \\
\mathbf{L}_{2} \mathbf{x} \\
\vdots \\
\mathbf{L}_{N} \mathbf{x}
\end{bmatrix} =
\begin{bmatrix}
\mathbf{y}_{1} \\
\mathbf{y}_{2} \\
\vdots \\
\mathbf{y}_{N}
\end{bmatrix}
while its application in adjoint mode leads to
.. math::
\begin{bmatrix}
\mathbf{L}_{1}^H & \mathbf{L}_{2}^H & \ldots & \mathbf{L}_{N}^H
\end{bmatrix}
\begin{bmatrix}
\mathbf{y}_{1} \\
\mathbf{y}_{2} \\
\vdots \\
\mathbf{y}_{N}
\end{bmatrix} =
\mathbf{L}_{1}^H \mathbf{y}_1 + \mathbf{L}_{2}^H \mathbf{y}_2 +
\ldots + \mathbf{L}_{N}^H \mathbf{y}_N
"""
def __init__(
self,
ops: Sequence[LinearOperator],
nproc: int = 1,
forceflat: bool | None = None,
inoutengine: Tinoutengine | None = None,
parallel_kind: Tparallel_kind = "multiproc",
dtype: DTypeLike | None = None,
) -> None:
if parallel_kind not in ["multiproc", "multithread"]:
msg = "parallel_kind must be 'multiproc' or 'multithread'"
raise ValueError(msg)
# identify dimensions
self.ops = ops
nops = np.zeros(len(self.ops), dtype=int)
for iop, oper in enumerate(ops):
if not isinstance(oper, (LinearOperator, spLinearOperator)):
self.ops[iop] = MatrixMult(oper, dtype=oper.dtype)
nops[iop] = self.ops[iop].shape[0]
self.nops = int(nops.sum())
mops = [oper.shape[1] for oper in self.ops]
if len(set(mops)) > 1:
msg = f"Operators have different number of columns - {mops}"
raise ValueError(msg)
self.mops = int(mops[0])
self.nnops = np.insert(np.cumsum(nops), 0, 0)
# define dims (check if all operators have the same,
# otherwise make same as self.mops and forceflat=True)
dims = [op.dims for op in self.ops]
if len(set(dims)) == 1:
dims = dims[0]
else:
dims = (self.mops,)
forceflat = True
# create pool for multithreading / multiprocessing
self.parallel_kind = parallel_kind
self._nproc = nproc
self.pool = None
if self.nproc > 1:
if self.parallel_kind == "multiproc":
self.pool = mp.Pool(processes=nproc)
else:
self.pool = mt.ThreadPoolExecutor(max_workers=nproc)
self.lock = threading.Lock()
self.inoutengine = inoutengine
dtype = _get_dtype(self.ops) if dtype is None else np.dtype(dtype)
clinear = all([getattr(oper, "clinear", True) for oper in self.ops])
super().__init__(
dtype=dtype,
shape=(self.nops, self.mops),
dims=dims,
clinear=clinear,
forceflat=forceflat,
)
@property
def nproc(self) -> int:
return self._nproc
@nproc.setter
def nproc(self, nprocnew: int):
if self._nproc > 1 and self.pool is not None:
if self.parallel_kind == "multiproc":
self.pool.close()
self.pool.join()
else:
self.pool.shutdown()
if nprocnew > 1:
if self.parallel_kind == "multiproc":
self.pool = mp.Pool(processes=nprocnew)
else:
self.pool = mt.ThreadPoolExecutor(max_workers=nprocnew)
self._nproc = nprocnew
def _matvec_serial(self, x: NDArray) -> NDArray:
ncp = (
get_array_module(x)
if self.inoutengine is None
else get_module(self.inoutengine[0])
)
y = ncp.zeros(self.nops, dtype=self.dtype)
for iop, oper in enumerate(self.ops):
if not isinstance(oper, Zero):
y = inplace_set(
oper.matvec(x).squeeze(),
y,
slice(self.nnops[iop], self.nnops[iop + 1]),
)
return y
def _rmatvec_serial(self, x: NDArray) -> NDArray:
ncp = (
get_array_module(x)
if self.inoutengine is None
else get_module(self.inoutengine[1])
)
y = ncp.zeros(self.mops, dtype=self.dtype)
for iop, oper in enumerate(self.ops):
if not isinstance(oper, Zero):
y = inplace_add(
oper.rmatvec(x[self.nnops[iop] : self.nnops[iop + 1]]).squeeze(),
y,
slice(None, None),
)
return y
def _matvec_multiproc(self, x: NDArray) -> NDArray:
ys = self.pool.starmap(
_matvec_rmatvec_map,
[(oper._matvec, x) for iop, oper in enumerate(self.ops)],
)
y = np.hstack(ys)
return y
def _rmatvec_multiproc(self, x: NDArray) -> NDArray:
ys = self.pool.starmap(
_matvec_rmatvec_map,
[
(oper._rmatvec, x[self.nnops[iop] : self.nnops[iop + 1]])
for iop, oper in enumerate(self.ops)
],
)
y = np.sum(ys, axis=0)
return y
def _matvec_multithread(self, x: NDArray) -> NDArray:
ys = list(
self.pool.map(
lambda args: _matvec_rmatvec_map(*args),
[(oper._matvec, x) for iop, oper in enumerate(self.ops)],
)
)
y = np.hstack(ys)
return y
def _rmatvec_multithread(self, x: NDArray) -> NDArray:
y = np.zeros(self.mops, dtype=self.dtype)
list(
self.pool.map(
lambda args: _rmatvec_map_mt(*args),
[
(
oper._rmatvec,
x[self.nnops[iop] : self.nnops[iop + 1]],
y,
self.lock,
)
for iop, oper in enumerate(self.ops)
],
)
)
return y
def _matvec(self, x: NDArray) -> NDArray:
if self.nproc == 1:
y = self._matvec_serial(x)
else:
if self.parallel_kind == "multiproc":
y = self._matvec_multiproc(x)
else:
y = self._matvec_multithread(x)
return y
def _rmatvec(self, x: NDArray) -> NDArray:
if self.nproc == 1:
y = self._rmatvec_serial(x)
else:
if self.parallel_kind == "multiproc":
y = self._rmatvec_multiproc(x)
else:
y = self._rmatvec_multithread(x)
return y
def close(self):
"""Close the pool of workers used for multiprocessing /
multithreading.
"""
if self.pool is not None:
if self.parallel_kind == "multiproc":
self.pool.close()
self.pool.join()
else:
self.pool.shutdown()
self.pool = None
PyLops