| Name | minorminer JSON |
| Version |
0.2.16
JSON |
| download |
| home_page | None |
| Summary | heuristic algorithm to find graph minor embeddings |
| upload_time | 2024-10-15 21:58:49 |
| maintainer | None |
| docs_url | None |
| author | None |
| requires_python | >=3.9 |
| license | Apache License Version 2.0, January 2004 http://www.apache.org/licenses/ TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION 1. Definitions. "License" shall mean the terms and conditions for use, reproduction, and distribution as defined by Sections 1 through 9 of this document. "Licensor" shall mean the copyright owner or entity authorized by the copyright owner that is granting the License. "Legal Entity" shall mean the union of the acting entity and all other entities that control, are controlled by, or are under common control with that entity. For the purposes of this definition, "control" means (i) the power, direct or indirect, to cause the direction or management of such entity, whether by contract or otherwise, or (ii) ownership of fifty percent (50%) or more of the outstanding shares, or (iii) beneficial ownership of such entity. "You" (or "Your") shall mean an individual or Legal Entity exercising permissions granted by this License. "Source" form shall mean the preferred form for making modifications, including but not limited to software source code, documentation source, and configuration files. "Object" form shall mean any form resulting from mechanical transformation or translation of a Source form, including but not limited to compiled object code, generated documentation, and conversions to other media types. "Work" shall mean the work of authorship, whether in Source or Object form, made available under the License, as indicated by a copyright notice that is included in or attached to the work (an example is provided in the Appendix below). "Derivative Works" shall mean any work, whether in Source or Object form, that is based on (or derived from) the Work and for which the editorial revisions, annotations, elaborations, or other modifications represent, as a whole, an original work of authorship. For the purposes of this License, Derivative Works shall not include works that remain separable from, or merely link (or bind by name) to the interfaces of, the Work and Derivative Works thereof. "Contribution" shall mean any work of authorship, including the original version of the Work and any modifications or additions to that Work or Derivative Works thereof, that is intentionally submitted to Licensor for inclusion in the Work by the copyright owner or by an individual or Legal Entity authorized to submit on behalf of the copyright owner. For the purposes of this definition, "submitted" means any form of electronic, verbal, or written communication sent to the Licensor or its representatives, including but not limited to communication on electronic mailing lists, source code control systems, and issue tracking systems that are managed by, or on behalf of, the Licensor for the purpose of discussing and improving the Work, but excluding communication that is conspicuously marked or otherwise designated in writing by the copyright owner as "Not a Contribution." "Contributor" shall mean Licensor and any individual or Legal Entity on behalf of whom a Contribution has been received by Licensor and subsequently incorporated within the Work. 2. Grant of Copyright License. Subject to the terms and conditions of this License, each Contributor hereby grants to You a perpetual, worldwide, non-exclusive, no-charge, royalty-free, irrevocable copyright license to reproduce, prepare Derivative Works of, publicly display, publicly perform, sublicense, and distribute the Work and such Derivative Works in Source or Object form. 3. Grant of Patent License. Subject to the terms and conditions of this License, each Contributor hereby grants to You a perpetual, worldwide, non-exclusive, no-charge, royalty-free, irrevocable (except as stated in this section) patent license to make, have made, use, offer to sell, sell, import, and otherwise transfer the Work, where such license applies only to those patent claims licensable by such Contributor that are necessarily infringed by their Contribution(s) alone or by combination of their Contribution(s) with the Work to which such Contribution(s) was submitted. If You institute patent litigation against any entity (including a cross-claim or counterclaim in a lawsuit) alleging that the Work or a Contribution incorporated within the Work constitutes direct or contributory patent infringement, then any patent licenses granted to You under this License for that Work shall terminate as of the date such litigation is filed. 4. Redistribution. You may reproduce and distribute copies of the Work or Derivative Works thereof in any medium, with or without modifications, and in Source or Object form, provided that You meet the following conditions: (a) You must give any other recipients of the Work or Derivative Works a copy of this License; and (b) You must cause any modified files to carry prominent notices stating that You changed the files; and (c) You must retain, in the Source form of any Derivative Works that You distribute, all copyright, patent, trademark, and attribution notices from the Source form of the Work, excluding those notices that do not pertain to any part of the Derivative Works; and (d) If the Work includes a "NOTICE" text file as part of its distribution, then any Derivative Works that You distribute must include a readable copy of the attribution notices contained within such NOTICE file, excluding those notices that do not pertain to any part of the Derivative Works, in at least one of the following places: within a NOTICE text file distributed as part of the Derivative Works; within the Source form or documentation, if provided along with the Derivative Works; or, within a display generated by the Derivative Works, if and wherever such third-party notices normally appear. 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You are solely responsible for determining the appropriateness of using or redistributing the Work and assume any risks associated with Your exercise of permissions under this License. 8. Limitation of Liability. In no event and under no legal theory, whether in tort (including negligence), contract, or otherwise, unless required by applicable law (such as deliberate and grossly negligent acts) or agreed to in writing, shall any Contributor be liable to You for damages, including any direct, indirect, special, incidental, or consequential damages of any character arising as a result of this License or out of the use or inability to use the Work (including but not limited to damages for loss of goodwill, work stoppage, computer failure or malfunction, or any and all other commercial damages or losses), even if such Contributor has been advised of the possibility of such damages. 9. Accepting Warranty or Additional Liability. While redistributing the Work or Derivative Works thereof, You may choose to offer, and charge a fee for, acceptance of support, warranty, indemnity, or other liability obligations and/or rights consistent with this License. However, in accepting such obligations, You may act only on Your own behalf and on Your sole responsibility, not on behalf of any other Contributor, and only if You agree to indemnify, defend, and hold each Contributor harmless for any liability incurred by, or claims asserted against, such Contributor by reason of your accepting any such warranty or additional liability. |
| keywords |
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| VCS |
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| bugtrack_url |
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| requirements |
No requirements were recorded.
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.. image:: https://img.shields.io/pypi/v/minorminer.svg
:target: https://pypi.org/project/minorminer
.. image:: https://img.shields.io/pypi/pyversions/minorminer.svg
:target: https://pypi.python.org/pypi/minorminer
.. image:: https://circleci.com/gh/dwavesystems/minorminer.svg?style=svg
:target: https://circleci.com/gh/dwavesystems/minorminer
.. image:: https://img.shields.io/badge/arXiv-1406.2741-b31b1b.svg
:target: https://arxiv.org/abs/1406.2741
.. image:: https://img.shields.io/badge/arXiv-1507.04774-b31b1b.svg
:target: https://arxiv.org/abs/1507.04774
.. index-start-marker
==========
minorminer
==========
`minorminer` is a heuristic tool for minor embedding: given a minor and target
graph, it tries to find a mapping that embeds the minor into the target.
.. index-end-marker
.. general-embedding-start-marker
The primary utility function, ``find_embedding()``, is an implementation of
the heuristic algorithm described in [1]. It accepts various optional parameters
used to tune the algorithm's execution or constrain the given problem.
This implementation performs on par with tuned, non-configurable implementations
while providing users with hooks to easily use the code as a basic building
block in research.
[1] https://arxiv.org/abs/1406.2741
Another function, ``find_clique_embedding()``, can be used to find clique embeddings
for Chimera, Pegasus, and Zephyr graphs in polynomial time. It is an implementation
of the algorithm described in [2]. There are additional utilities for finding
biclique embeddings as well.
[2] https://arxiv.org/abs/1507.04774
.. general-embedding-end-marker
Python
======
Installation
------------
.. install-python-start
pip installation is recommended for platforms with precompiled wheels posted to
pypi. Source distributions are provided as well.
.. code-block:: bash
pip install minorminer
To install from this repository, you will need to first fetch the submodules
git submodule init
git submodule update
and then run the `setuptools` script.
.. code-block:: bash
pip install -r requirements.txt
python setup.py install
# optionally, run the tests to check your build
pip install -r test_requirements.txt
python -m pytest .
.. install-python-end
Examples
--------
.. code-block:: python
from minorminer import find_embedding
# A triangle is a minor of a square.
triangle = [(0, 1), (1, 2), (2, 0)]
square = [(0, 1), (1, 2), (2, 3), (3, 0)]
# Find an assignment of sets of square variables to the triangle variables
embedding = find_embedding(triangle, square, random_seed=10)
print(len(embedding)) # 3, one set for each variable in the triangle
print(embedding)
# We don't know which variables will be assigned where, here are a
# couple possible outputs:
# [[0, 1], [2], [3]]
# [[3], [1, 0], [2]]
.. code-block:: python
# We can insist that variable 0 of the triangle will always be assigned to [2]
embedding = find_embedding(triangle, square, fixed_chains={0: [2]})
print(embedding)
# [[2], [3, 0], [1]]
# [[2], [1], [0, 3]]
# And more, but all of them start with [2]
.. code-block:: python
# If we didn't want to force variable 0 to stay as [2], but we thought that
# was a good start we could provide it as an initialization hint instead.
embedding = find_embedding(triangle, square, initial_chains={0: [2]})
print(embedding)
# [[2], [0, 3], [1]]
# [[0], [3], [1, 2]]
# Output where variable 0 has switched to something else is possible again.
.. code-block:: python
import networkx as nx
# An example on some less trivial graphs
# We will try to embed a fully connected graph with 6 nodes, into a
# random regular graph with degree 3.
clique = nx.complete_graph(6).edges()
target_graph = nx.random_regular_graph(d=3, n=30).edges()
embedding = find_embedding(clique, target_graph)
print(embedding)
# There are many possible outputs for this, sometimes it might even fail
# and return an empty list
A more fleshed out example can be found under `examples/fourcolor.py`
.. code-block:: bash
cd examples
pip install -r requirements.txt
python fourcolor.py
Matlab (Deprecated)
===================
Matlab support is deprecated as of vesion 0.2.8, and we will not accept bug reports
in later versions. The matlab interface has been broken for the entire 0.2 series,
and more than a year passed before this was discovered. It will be fixed in the
0.2.8 release, but the matlab support infrastructure will be removed entirely in
May 2023, unless community developers volunteer to maintain it.
Installation
------------
.. install-matlab-start
The mex bindings for this library will work with some versions of 2013 and earlier,
and versions from 2016b an onward. An example build command used in Ubuntu is
found in the makefile `matlab/make.m`.
If you run `make` in the `matlab` directory on Ubuntu it should generate
`find_embedding.mexa64`, which can be added to the MATLAB path.
.. install-matlab-end
Examples
--------
.. code-block:: matlab
% A triangle is a minor of a square.
triangle = triu(ones(3),1);
square = sparse([1,2,3,4],[2,3,4,1],[1,1,1,1],4,4);
% Find an assignment of sets of square variables to the triangle variables
options = struct('random_seed',10);
embedding = find_embedding_matlab_wrapper(triangle, square, options)
% typically in matlab we use indices starting at one rather than 0:
embedding = cellfun(@(x)x+1,embedding,'UniformOutput',false);
embedding{:}
.. code-block:: matlab
% We can insist that variable 0 of the triangle will always be assigned to
% [2] (zero-indexed)
chains = cell(1);
chains{1} = 2;
options = struct();
options.fixed_chains = chains;
embedding = find_embedding(triangle, square, options)
embedding{:}
.. code-block:: matlab
% If we didn't want to force variable 0 to stay as [2], but we thought that
% was a good start we could provide it as an initialization hint instead.
options = struct();
options.initial_chains = chains;
embedding = find_embedding(triangle, square, options)
embedding{:}
C++
===
Installation
------------
.. install-c-start
The `CMakeLists.txt` in the root of this repo will build the library and
optionally run a series of tests. On Linux, the commands would be something like
this:
.. code-block:: bash
mkdir build; cd build
cmake ..
make
To build the tests, turn the CMake option `MINORMINER_BUILD_TESTS` on. The
command line option for CMake to do this would be `-DMINORMINER_BUILD_TESTS=ON`.
Library Usage
-------------
C++11 programs should be able to use this as a header-only library. If your
project is using CMake, this library can be used fairly simply; if you have
checked out this repo as `externals/minorminer` in your project, you would need
to add the following lines to your `CMakeLists.txt`
.. code-block:: CMake
add_subdirectory(externals/minorminer)
# After your target is defined
target_link_libraries(your_target minorminer pthread)
.. install-c-end
Examples
--------
A minimal buildable example can be found in this repo under
`examples/example.cpp`.
.. code-block:: bash
cd examples
g++ example.cpp -std=c++11 -o example -pthread
This can also be built using the included `CMakeLists.txt` along with the main
library build by turning the CMake option `MINORMINER_BUILD_EXAMPLES` on. The
command line option for CMake to do this would be
`-DMINORMINER_BUILD_EXAMPLES=ON`.
License
=======
Released under the Apache License 2.0. See `<LICENSE>`_ file.
Contributing
============
Ocean's `contributing guide <https://docs.ocean.dwavesys.com/en/stable/contributing.html>`_
has guidelines for contributing to Ocean packages.
If you're interested in adding or modifying parameters of the ``find_embedding``
primary utility function, please see the `<parameter_checklist.txt>`_ file.
Raw data
{
"_id": null,
"home_page": null,
"name": "minorminer",
"maintainer": null,
"docs_url": null,
"requires_python": ">=3.9",
"maintainer_email": "\"D-Wave Inc.\" <tools@dwavesys.com>",
"keywords": null,
"author": null,
"author_email": "Kelly Boothby <boothby@dwavesys.com>",
"download_url": "https://files.pythonhosted.org/packages/a6/75/482b4bdda78d57d24f706f8e67ef245caf1de89805ab7275e5e3324cda82/minorminer-0.2.16.tar.gz",
"platform": null,
"description": ".. image:: https://img.shields.io/pypi/v/minorminer.svg\n :target: https://pypi.org/project/minorminer\n\n.. image:: https://img.shields.io/pypi/pyversions/minorminer.svg\n :target: https://pypi.python.org/pypi/minorminer\n\n.. image:: https://circleci.com/gh/dwavesystems/minorminer.svg?style=svg\n :target: https://circleci.com/gh/dwavesystems/minorminer\n\n.. image:: https://img.shields.io/badge/arXiv-1406.2741-b31b1b.svg\n :target: https://arxiv.org/abs/1406.2741\n\n.. image:: https://img.shields.io/badge/arXiv-1507.04774-b31b1b.svg\n :target: https://arxiv.org/abs/1507.04774\n\n.. index-start-marker\n\n==========\nminorminer\n==========\n\n`minorminer` is a heuristic tool for minor embedding: given a minor and target\ngraph, it tries to find a mapping that embeds the minor into the target.\n\n.. index-end-marker\n\n.. general-embedding-start-marker\n\nThe primary utility function, ``find_embedding()``, is an implementation of\nthe heuristic algorithm described in [1]. It accepts various optional parameters\nused to tune the algorithm's execution or constrain the given problem.\n\nThis implementation performs on par with tuned, non-configurable implementations\nwhile providing users with hooks to easily use the code as a basic building\nblock in research.\n\n[1] https://arxiv.org/abs/1406.2741\n\nAnother function, ``find_clique_embedding()``, can be used to find clique embeddings\nfor Chimera, Pegasus, and Zephyr graphs in polynomial time. It is an implementation\nof the algorithm described in [2]. There are additional utilities for finding\nbiclique embeddings as well.\n\n[2] https://arxiv.org/abs/1507.04774\n\n.. general-embedding-end-marker\n\nPython\n======\n\nInstallation\n------------\n\n.. install-python-start\n\npip installation is recommended for platforms with precompiled wheels posted to\npypi. Source distributions are provided as well.\n\n.. code-block:: bash\n\n pip install minorminer\n\nTo install from this repository, you will need to first fetch the submodules\n\n git submodule init\n git submodule update\n\nand then run the `setuptools` script.\n\n.. code-block:: bash\n\n\n pip install -r requirements.txt\n python setup.py install\n # optionally, run the tests to check your build\n pip install -r test_requirements.txt\n python -m pytest .\n\n\n.. install-python-end\n\nExamples\n--------\n\n.. code-block:: python\n\n from minorminer import find_embedding\n\n # A triangle is a minor of a square.\n triangle = [(0, 1), (1, 2), (2, 0)]\n square = [(0, 1), (1, 2), (2, 3), (3, 0)]\n\n # Find an assignment of sets of square variables to the triangle variables\n embedding = find_embedding(triangle, square, random_seed=10)\n print(len(embedding)) # 3, one set for each variable in the triangle\n print(embedding)\n # We don't know which variables will be assigned where, here are a\n # couple possible outputs:\n # [[0, 1], [2], [3]]\n # [[3], [1, 0], [2]]\n\n.. code-block:: python\n\n # We can insist that variable 0 of the triangle will always be assigned to [2]\n embedding = find_embedding(triangle, square, fixed_chains={0: [2]})\n print(embedding)\n # [[2], [3, 0], [1]]\n # [[2], [1], [0, 3]]\n # And more, but all of them start with [2]\n\n.. code-block:: python\n\n # If we didn't want to force variable 0 to stay as [2], but we thought that\n # was a good start we could provide it as an initialization hint instead.\n embedding = find_embedding(triangle, square, initial_chains={0: [2]})\n print(embedding)\n # [[2], [0, 3], [1]]\n # [[0], [3], [1, 2]]\n # Output where variable 0 has switched to something else is possible again.\n\n.. code-block:: python\n\n import networkx as nx\n\n # An example on some less trivial graphs\n # We will try to embed a fully connected graph with 6 nodes, into a\n # random regular graph with degree 3.\n clique = nx.complete_graph(6).edges()\n target_graph = nx.random_regular_graph(d=3, n=30).edges()\n\n embedding = find_embedding(clique, target_graph)\n\n print(embedding)\n # There are many possible outputs for this, sometimes it might even fail\n # and return an empty list\n\nA more fleshed out example can be found under `examples/fourcolor.py`\n\n.. code-block:: bash\n\n cd examples\n pip install -r requirements.txt\n python fourcolor.py\n\nMatlab (Deprecated)\n===================\n\nMatlab support is deprecated as of vesion 0.2.8, and we will not accept bug reports\nin later versions. The matlab interface has been broken for the entire 0.2 series,\nand more than a year passed before this was discovered. It will be fixed in the \n0.2.8 release, but the matlab support infrastructure will be removed entirely in\nMay 2023, unless community developers volunteer to maintain it.\n\nInstallation\n------------\n\n.. install-matlab-start\n\nThe mex bindings for this library will work with some versions of 2013 and earlier,\nand versions from 2016b an onward. An example build command used in Ubuntu is\nfound in the makefile `matlab/make.m`.\n\nIf you run `make` in the `matlab` directory on Ubuntu it should generate\n`find_embedding.mexa64`, which can be added to the MATLAB path.\n\n.. install-matlab-end\n\nExamples\n--------\n\n.. code-block:: matlab\n\n % A triangle is a minor of a square.\n triangle = triu(ones(3),1);\n square = sparse([1,2,3,4],[2,3,4,1],[1,1,1,1],4,4);\n\n % Find an assignment of sets of square variables to the triangle variables\n options = struct('random_seed',10);\n embedding = find_embedding_matlab_wrapper(triangle, square, options)\n % typically in matlab we use indices starting at one rather than 0:\n embedding = cellfun(@(x)x+1,embedding,'UniformOutput',false);\n embedding{:}\n\n.. code-block:: matlab\n\n % We can insist that variable 0 of the triangle will always be assigned to\n % [2] (zero-indexed)\n chains = cell(1);\n chains{1} = 2;\n options = struct();\n options.fixed_chains = chains;\n embedding = find_embedding(triangle, square, options)\n embedding{:}\n\n.. code-block:: matlab\n\n % If we didn't want to force variable 0 to stay as [2], but we thought that\n % was a good start we could provide it as an initialization hint instead.\n options = struct();\n options.initial_chains = chains;\n embedding = find_embedding(triangle, square, options)\n embedding{:}\n\nC++\n===\n\nInstallation\n------------\n\n.. install-c-start\n\nThe `CMakeLists.txt` in the root of this repo will build the library and\noptionally run a series of tests. On Linux, the commands would be something like\nthis:\n\n.. code-block:: bash\n\n mkdir build; cd build\n cmake ..\n make\n\nTo build the tests, turn the CMake option `MINORMINER_BUILD_TESTS` on. The\ncommand line option for CMake to do this would be `-DMINORMINER_BUILD_TESTS=ON`.\n\nLibrary Usage\n-------------\n\nC++11 programs should be able to use this as a header-only library. If your\nproject is using CMake, this library can be used fairly simply; if you have\nchecked out this repo as `externals/minorminer` in your project, you would need\nto add the following lines to your `CMakeLists.txt`\n\n.. code-block:: CMake\n\n add_subdirectory(externals/minorminer)\n\n # After your target is defined\n target_link_libraries(your_target minorminer pthread)\n\n.. install-c-end\n\nExamples\n--------\n\nA minimal buildable example can be found in this repo under\n`examples/example.cpp`.\n\n.. code-block:: bash\n\n cd examples\n g++ example.cpp -std=c++11 -o example -pthread\n\nThis can also be built using the included `CMakeLists.txt` along with the main\nlibrary build by turning the CMake option `MINORMINER_BUILD_EXAMPLES` on. The\ncommand line option for CMake to do this would be\n`-DMINORMINER_BUILD_EXAMPLES=ON`.\n\nLicense\n=======\n\nReleased under the Apache License 2.0. See `<LICENSE>`_ file.\n\nContributing\n============\n\nOcean's `contributing guide <https://docs.ocean.dwavesys.com/en/stable/contributing.html>`_\nhas guidelines for contributing to Ocean packages.\n\nIf you're interested in adding or modifying parameters of the ``find_embedding`` \nprimary utility function, please see the `<parameter_checklist.txt>`_ file.\n\n",
"bugtrack_url": null,
"license": "Apache License Version 2.0, January 2004 http://www.apache.org/licenses/ TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION 1. Definitions. \"License\" shall mean the terms and conditions for use, reproduction, and distribution as defined by Sections 1 through 9 of this document. \"Licensor\" shall mean the copyright owner or entity authorized by the copyright owner that is granting the License. \"Legal Entity\" shall mean the union of the acting entity and all other entities that control, are controlled by, or are under common control with that entity. For the purposes of this definition, \"control\" means (i) the power, direct or indirect, to cause the direction or management of such entity, whether by contract or otherwise, or (ii) ownership of fifty percent (50%) or more of the outstanding shares, or (iii) beneficial ownership of such entity. \"You\" (or \"Your\") shall mean an individual or Legal Entity exercising permissions granted by this License. \"Source\" form shall mean the preferred form for making modifications, including but not limited to software source code, documentation source, and configuration files. \"Object\" form shall mean any form resulting from mechanical transformation or translation of a Source form, including but not limited to compiled object code, generated documentation, and conversions to other media types. \"Work\" shall mean the work of authorship, whether in Source or Object form, made available under the License, as indicated by a copyright notice that is included in or attached to the work (an example is provided in the Appendix below). \"Derivative Works\" shall mean any work, whether in Source or Object form, that is based on (or derived from) the Work and for which the editorial revisions, annotations, elaborations, or other modifications represent, as a whole, an original work of authorship. For the purposes of this License, Derivative Works shall not include works that remain separable from, or merely link (or bind by name) to the interfaces of, the Work and Derivative Works thereof. \"Contribution\" shall mean any work of authorship, including the original version of the Work and any modifications or additions to that Work or Derivative Works thereof, that is intentionally submitted to Licensor for inclusion in the Work by the copyright owner or by an individual or Legal Entity authorized to submit on behalf of the copyright owner. For the purposes of this definition, \"submitted\" means any form of electronic, verbal, or written communication sent to the Licensor or its representatives, including but not limited to communication on electronic mailing lists, source code control systems, and issue tracking systems that are managed by, or on behalf of, the Licensor for the purpose of discussing and improving the Work, but excluding communication that is conspicuously marked or otherwise designated in writing by the copyright owner as \"Not a Contribution.\" \"Contributor\" shall mean Licensor and any individual or Legal Entity on behalf of whom a Contribution has been received by Licensor and subsequently incorporated within the Work. 2. Grant of Copyright License. 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