passagemath-rankwidth 10.6.39__cp311-cp311-manylinux2014_aarch64.manylinux_2_17_aarch64.manylinux_2_28_aarch64.whl

passagemath_rankwidth/__init__.py

@@ -0,0 +1,3 @@
+# sage_setup: distribution = sagemath-rankwidth
+
+from sage.all__sagemath_rankwidth import *

passagemath_rankwidth-10.6.39.dist-info/METADATA

@@ -0,0 +1,113 @@
+Metadata-Version: 2.4
+Name: passagemath-rankwidth
+Version: 10.6.39
+Summary: passagemath: Rankwidth and rank decompositions of graphs with rw
+Author-email: The Sage Developers <sage-support@googlegroups.com>
+Maintainer: Matthias Köppe, passagemath contributors
+License-Expression: GPL-2.0-or-later
+Project-URL: release notes, https://github.com/passagemath/passagemath/releases
+Project-URL: repo (upstream), https://github.com/sagemath/sage
+Project-URL: repo, https://github.com/passagemath/passagemath
+Project-URL: documentation, https://passagemath.org/docs/latest
+Project-URL: homepage (upstream), https://www.sagemath.org
+Project-URL: discourse, https://passagemath.discourse.group
+Project-URL: tracker (upstream), https://github.com/sagemath/sage/issues
+Project-URL: tracker, https://github.com/passagemath/passagemath/issues
+Classifier: Development Status :: 6 - Mature
+Classifier: Intended Audience :: Education
+Classifier: Intended Audience :: Science/Research
+Classifier: Operating System :: POSIX
+Classifier: Operating System :: POSIX :: Linux
+Classifier: Operating System :: MacOS :: MacOS X
+Classifier: Operating System :: Microsoft :: Windows
+Classifier: Programming Language :: Python :: 3 :: Only
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Classifier: Programming Language :: Python :: Implementation :: CPython
+Classifier: Topic :: Scientific/Engineering :: Mathematics
+Requires-Python: <3.15,>=3.10
+Description-Content-Type: text/x-rst
+Requires-Dist: passagemath-graphs
+Provides-Extra: test
+Requires-Dist: passagemath-repl; extra == "test"
+
+========================================================================
+ passagemath: Rankwidth and rank decompositions of graphs with rw
+========================================================================
+
+`passagemath <https://github.com/passagemath/passagemath>`__ is open
+source mathematical software in Python, released under the GNU General
+Public Licence GPLv2+.
+
+It is a fork of `SageMath <https://www.sagemath.org/>`__, which has been
+developed 2005-2025 under the motto “Creating a Viable Open Source
+Alternative to Magma, Maple, Mathematica, and MATLAB”.
+
+The passagemath fork uses the motto "Creating a Free Passage Between the
+Scientific Python Ecosystem and Mathematical Software Communities."
+It was created in October 2024 with the following goals:
+
+-  providing modularized installation with pip,
+-  establishing first-class membership in the scientific Python
+   ecosystem,
+-  giving `clear attribution of upstream
+   projects <https://groups.google.com/g/sage-devel/c/6HO1HEtL1Fs/m/G002rPGpAAAJ>`__,
+-  providing independently usable Python interfaces to upstream
+   libraries,
+-  offering `platform portability and integration testing
+   services <https://github.com/passagemath/passagemath/issues/704>`__
+   to upstream projects,
+-  inviting collaborations with upstream projects,
+-  `building a professional, respectful, inclusive
+   community <https://groups.google.com/g/sage-devel/c/xBzaINHWwUQ>`__,
+-  `empowering Sage users to participate in the scientific Python ecosystem
+   <https://github.com/passagemath/passagemath/issues/248>`__ by publishing packages,
+-  developing a port to `Pyodide <https://pyodide.org/en/stable/>`__ for
+   serverless deployment with Javascript,
+-  developing a native Windows port.
+
+`Full documentation <https://passagemath.org/docs/latest/html/en/index.html>`__ is
+available online.
+
+passagemath attempts to support and provides binary wheels suitable for
+all major Linux distributions and recent versions of macOS.
+
+Binary wheels for native Windows (x86_64) are are available for a subset of
+the passagemath distributions. Use of the full functionality of passagemath
+on Windows currently requires the use of Windows Subsystem for Linux (WSL)
+or virtualization.
+
+The supported Python versions in the passagemath 10.6.x series are 3.10.x-3.13.x.
+
+
+About this pip-installable distribution package
+-----------------------------------------------
+
+This pip-installable distribution ``passagemath-rankwidth`` is a small
+optional distribution for use with `passagemath-graphs <https://pypi.org/project/passagemath-graphs>`_.
+
+It provides a Cython interface to `rw <https://sourceforge.net/projects/rankwidth/>`_ by
+Philipp Klaus Krause, which calculates rank width and rank decompositions.
+
+
+What is included
+----------------
+
+- `Cython interface to rw <https://passagemath.org/docs/latest/html/en/reference/graphs/sage/graphs/graph_decompositions/rankwidth.html>`_
+
+
+Examples
+--------
+
+::
+
+    $ pipx run --pip-args="--prefer-binary" --spec "passagemath-rankwidth[test]" ipython
+
+    In [1]: from passagemath_rankwidth import *
+
+    In [2]: g = graphs.PetersenGraph()
+
+    In [3]: g.rank_decomposition()
+    Out[3]: (3, Graph on 19 vertices)

passagemath_rankwidth-10.6.39.dist-info/RECORD

@@ -0,0 +1,11 @@
+passagemath_rankwidth/__init__.py,sha256=R8c9YuGWpzmOs0rd6XMhmHjC8OLrFv95lX0IqU146Wg,92
+passagemath_rankwidth.libs/librw-afb892c6.so.0.0.0,sha256=E6fm24N5iHJge9nQzdseU3oGx78Xmgl-FJ7RsbRQ6Jg,330705
+sage/all__sagemath_rankwidth.py,sha256=9OKCYFCtD-gDbbKmGnvLqMUg3gaTZ4wvHq8dv5kTdUU,109
+sage/graphs/all__sagemath_rankwidth.py,sha256=8AgBFcKFGDJyb66yQXgMGdZE8BK4Q0Mj3r0uHtIvCJg,48
+sage/graphs/graph_decompositions/all__sagemath_rankwidth.py,sha256=8AgBFcKFGDJyb66yQXgMGdZE8BK4Q0Mj3r0uHtIvCJg,48
+sage/graphs/graph_decompositions/rankwidth.cpython-311-aarch64-linux-gnu.so,sha256=ck0y-L-9nPOjd0Ois8ep__5fTiL2fSOs0dgfyCUZzDQ,923057
+sage/graphs/graph_decompositions/rankwidth.pyx,sha256=XLgr3jaejMtypTubVJBHVrLLTmr0XYyBZeLSNTssV5c,10031
+passagemath_rankwidth-10.6.39.dist-info/METADATA,sha256=YVOVCyAolv77Sp8Ll-XyDcUY6Tb4ZDERP_ttELiwSeU,4925
+passagemath_rankwidth-10.6.39.dist-info/WHEEL,sha256=nENvFvUt2sTxh7qTwFTbrHft1Jd6WkcTog-2x3-pWGY,193
+passagemath_rankwidth-10.6.39.dist-info/top_level.txt,sha256=fBLflVh_5kF3NqatPHMMyKd3Ygl7dHOfaBaLFrvPtHA,28
+passagemath_rankwidth-10.6.39.dist-info/RECORD,,

passagemath_rankwidth-10.6.39.dist-info/WHEEL

@@ -0,0 +1,7 @@
+Wheel-Version: 1.0
+Generator: setuptools (80.9.0)
+Root-Is-Purelib: false
+Tag: cp311-cp311-manylinux_2_17_aarch64
+Tag: cp311-cp311-manylinux2014_aarch64
+Tag: cp311-cp311-manylinux_2_28_aarch64
+

passagemath_rankwidth-10.6.39.dist-info/top_level.txt

@@ -0,0 +1,3 @@
+
+passagemath_rankwidth
+sage

sage/all__sagemath_rankwidth.py

@@ -0,0 +1,4 @@
+# sage_setup: distribution = sagemath-rankwidth
+# delvewheel: patch
+
+from sage.all__sagemath_graphs import *

sage/graphs/all__sagemath_rankwidth.py

@@ -0,0 +1 @@
+# sage_setup: distribution = sagemath-rankwidth

sage/graphs/graph_decompositions/all__sagemath_rankwidth.py

@@ -0,0 +1 @@
+# sage_setup: distribution = sagemath-rankwidth

sage/graphs/graph_decompositions/rankwidth.pyx

@@ -0,0 +1,333 @@
+# sage_setup: distribution = sagemath-rankwidth
+# cython: binding=True
+# distutils: libraries = rw
+r"""
+Rank Decompositions of graphs
+
+This module wraps C code from Philipp Klaus Krause computing an optimal
+rank-decomposition.
+
+**Definitions :**
+
+Given a graph `G` and a subset `S\subseteq V(G)` of vertices, the *rank-width*
+of `S` in `G`, denoted `rw_G(S)`, is equal to the rank in `GF(2)` of the `|S|
+\times (|V|-|S|)` matrix of the adjacencies between the vertices of `S` and
+`V\backslash S`. By definition, `rw_G(S)` is equal to `rw_G(\overline S)` where
+`\overline S` is the complement of `S` in `V(G)`.
+
+A *rank-decomposition* of `G` is a tree whose `n` leaves are the elements of
+`V(G)`, and whose internal nodes have degree 3. In a tree, any edge naturally
+corresponds to a bipartition of the vertex set : indeed, the removal of any edge
+splits the tree into two connected components, thus splitting the set of leaves
+(i.e. vertices of `G`) into two sets. Hence we can define for any edge `e\in
+E(G)` a width equal to the value `rw_G(S)` or `rw_G(\overline S)`, where
+`S,\overline S` is the bipartition obtained from `e`. The *rank-width*
+associated to the whole decomposition is then set to the maximum of the width of
+all the edges it contains.
+
+A *rank-decomposition* is said to be optimal for `G` if it is the decomposition
+achieving the minimal *rank-width*.
+
+**RW -- The original source code :**
+
+RW is a program that calculates rank-width and
+rank-decompositions. It is based on ideas from:
+
+    * "Computing rank-width exactly" by Sang-il Oum [Oum2009]_
+    * "Sopra una formula numerica" by Ernesto Pascal
+    * "Generation of a Vector from the Lexicographical Index" by B.P. Buckles
+      and M. Lybanon [BL1977]_
+    * "Fast additions on masked integers" by Michael D. Adams and David S. Wise
+      [AW2006]_
+
+**OUTPUT:**
+
+The rank decomposition is returned as a tree whose vertices are subsets of
+`V(G)`. Its leaves, corresponding to the vertices of `G` are sets of 1 elements,
+i.e. singletons.
+
+::
+
+    sage: g = graphs.PetersenGraph()
+    sage: rw, tree = g.rank_decomposition()
+    sage: all(len(v)==1 for v in tree if tree.degree(v) == 1)
+    True
+
+The internal nodes are sets of the decomposition. This way, it is easy to deduce
+the bipartition associated to an edge from the tree. Indeed, two adjacent
+vertices of the tree are comparable sets : they yield the bipartition obtained
+from the smaller of the two and its complement.
+
+::
+
+    sage: g = graphs.PetersenGraph()
+    sage: rw, tree = g.rank_decomposition()
+    sage: u = Set([8, 9, 3, 7])
+    sage: v = Set([8, 9])
+    sage: tree.has_edge(u,v)
+    True
+    sage: m = min(u,v)
+    sage: bipartition = (m, Set(g.vertices(sort=False)) - m)
+    sage: bipartition
+    ({8, 9}, {0, 1, 2, 3, 4, 5, 6, 7})
+
+.. WARNING::
+
+    * The current implementation cannot handle graphs of `\geq 32` vertices.
+
+    * A bug that has been reported upstream make the code crash immediately on
+      instances of size `30`. If you experience this kind of bug please report
+      it to us, what we need is some information on the hardware you run to know
+      where it comes from !
+
+EXAMPLES::
+
+        sage: g = graphs.PetersenGraph()
+        sage: g.rank_decomposition()
+        (3, Graph on 19 vertices)
+
+AUTHORS:
+
+- Philipp Klaus Krause : Implementation of the C algorithm
+- Nathann Cohen : Interface with Sage and documentation
+
+Methods
+-------
+"""
+
+# ****************************************************************************
+#       Copyright (C) 2011 Nathann Cohen <nathann.cohen@gmail.com>
+#
+# This program is free software: you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation, either version 2 of the License, or
+# (at your option) any later version.
+#                  https://www.gnu.org/licenses/
+# ****************************************************************************
+
+from cysignals.memory cimport check_allocarray, sig_free
+from cysignals.signals cimport *
+
+from libc.string cimport memset
+
+cdef list id_to_vertices
+cdef dict vertices_to_id
+
+
+def rank_decomposition(G, verbose=False):
+    r"""
+    Compute an optimal rank-decomposition of the given graph.
+
+    This function is available as a method of the :class:`Graph
+    <sage.graphs.graph>` class. See :meth:`rank_decomposition
+    <sage.graphs.graph.Graph.rank_decomposition>`.
+
+    INPUT:
+
+    - ``verbose`` -- boolean (default: ``False``); whether to display progress
+      information while computing the decomposition
+
+    OUTPUT:
+
+    A pair ``(rankwidth, decomposition_tree)``, where ``rankwidth`` is a
+    numerical value and ``decomposition_tree`` is a ternary tree describing the
+    decomposition (cf. the module's documentation).
+
+    EXAMPLES::
+
+        sage: from sage.graphs.graph_decompositions.rankwidth import rank_decomposition
+        sage: g = graphs.PetersenGraph()
+        sage: rank_decomposition(g)
+        (3, Graph on 19 vertices)
+
+    On more than 32 vertices::
+
+        sage: g = graphs.RandomGNP(40, .5)
+        sage: rank_decomposition(g)
+        Traceback (most recent call last):
+        ...
+        RuntimeError: the rank decomposition cannot be computed on graphs of >= 32 vertices
+
+    The empty graph::
+
+        sage: g = Graph()
+        sage: rank_decomposition(g)
+        (0, Graph on 0 vertices)
+    """
+    cdef int n = G.order()
+
+    if n >= 32:
+        raise RuntimeError("the rank decomposition cannot be computed "
+                           "on graphs of >= 32 vertices")
+
+    elif not n:
+        from sage.graphs.graph import Graph
+        return (0, Graph())
+
+    cdef int i
+
+    if sage_graph_to_matrix(G):
+        raise RuntimeError("there has been a mistake while converting the Sage "
+                           "graph to a C structure, the memory is probably "
+                           "insufficient (2^(n+1) is a *LOT*)")
+
+    for i in range(n + 1):
+
+        if verbose:
+            print("Calculating for subsets of size ", i, "/", n + 1)
+
+        # We want to properly deal with exceptions, in particular
+        # KeyboardInterrupt. Whatever happens, when this code fails the memory
+        # *HAS* to be freed, as it is particularly greedy (a graph of 29
+        # vertices already requires more than 1GB of memory).
+
+        if not sig_on_no_except():
+            destroy_rw()
+        cython_check_exception()
+
+        # Actual computation
+        calculate_level(i)
+        sig_off()
+
+    cdef int rank_width = <int> get_rw()
+
+    # Original way of displaying the decomposition
+    # print_rank_dec(0x7ffffffful >> (31 - num_vertices), 0)
+    g = mkgraph(n)
+
+    # Free the memory
+    destroy_rw()
+
+    return (rank_width, g)
+
+
+cdef int sage_graph_to_matrix(G) noexcept:
+    r"""
+    Convert the given Sage graph as an adjacency matrix.
+    """
+    global id_to_vertices
+    global vertices_to_id
+    global adjacency_matrix
+    global cslots
+
+    cdef int num_vertices = G.order()
+
+    # Prepares the C structure for the computation
+    if init_rw_dec(num_vertices):
+        # The original code does not completely frees the memory in case of
+        # error
+        destroy_rw()
+        return 1
+
+    memset(adjacency_matrix, 0, sizeof(subset_t) * num_vertices)
+
+    # Initializing the lists of vertices
+    cdef int i
+    id_to_vertices = list(G)
+    vertices_to_id = {v: i for i, v in enumerate(id_to_vertices)}
+
+    # Filling the matrix
+    for u, v in G.edge_iterator(labels=False):
+        if u == v:
+            continue
+        set_am(vertices_to_id[u], vertices_to_id[v], 1)
+
+    # All is fine.
+    return 0
+
+
+cdef uint_fast32_t bitmask(int i) noexcept:
+    return (1ul << i)
+
+
+cdef void set_am(int i, int j, int val) noexcept:
+    r"""
+    Set/Unset an arc between vertices i and j
+
+    (this function is a copy of what can be found in rankwidth/rw.c)
+    """
+    global adjacency_matrix
+
+    adjacency_matrix[i] &= ~bitmask(j)
+    adjacency_matrix[j] &= ~bitmask(i)
+
+    if val:
+        adjacency_matrix[i] |= bitmask(j)
+        adjacency_matrix[j] |= bitmask(i)
+
+
+cdef void print_rank_dec(subset_t s, int l) noexcept:
+    r"""
+    Print the current rank decomposition as a text
+
+    This function is a copy of the C routine printing the rank-decomposition is
+    the original source code. It s not used at the moment, but can still prove
+    useful when debugging the code.
+    """
+    global cslots
+
+    print('\t' * l, end="")
+
+    print("cslot: ", <unsigned int> s)
+    if not cslots[s]:
+        return
+    print_rank_dec(cslots[s], l + 1)
+    print_rank_dec(s & ~cslots[s], l + 1)
+
+
+def mkgraph(int num_vertices):
+    r"""
+    Return the graph corresponding to the current rank-decomposition.
+
+    (This function is for internal use)
+
+    EXAMPLES::
+
+        sage: from sage.graphs.graph_decompositions.rankwidth import rank_decomposition
+        sage: g = graphs.PetersenGraph()
+        sage: rank_decomposition(g)
+        (3, Graph on 19 vertices)
+    """
+    global cslots
+    global id_to_vertices
+
+    cdef subset_t s
+
+    from sage.graphs.graph import Graph
+    g = Graph()
+
+    cdef subset_t * tab = <subset_t *>check_allocarray(2 * num_vertices - 1, sizeof(subset_t))
+    tab[0] = 0x7ffffffful >> (31 - num_vertices)
+
+    cdef int beg = 0
+    cdef int end = 1
+
+    while beg != end:
+
+        s = tab[beg]
+        beg += 1
+
+        if not cslots[s]:
+            continue
+
+        g.add_edge(bitset_to_vertex_set(s), bitset_to_vertex_set(s & ~cslots[s]))
+        g.add_edge(bitset_to_vertex_set(s), bitset_to_vertex_set(cslots[s]))
+
+        tab[end] = s & ~cslots[s]
+        end += 1
+        tab[end] = cslots[s]
+        end += 1
+
+    sig_free(tab)
+    return g
+
+
+cdef bitset_to_vertex_set(subset_t s):
+    """
+    Return as a Set object the set corresponding to the given subset_t
+    variable.
+    """
+    from sage.rings.integer import Integer
+    from sage.sets.set import Set
+    from sage.data_structures.bitset import FrozenBitset
+    return Set(list(FrozenBitset((Integer(<unsigned int> s).binary())[::-1])))