passagemath-bliss 10.5.45__cp311-cp311-macosx_14_0_arm64.whl → 10.5.46__cp311-cp311-macosx_14_0_arm64.whl

{passagemath_bliss-10.5.45.dist-info → passagemath_bliss-10.5.46.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: passagemath-bliss
-Version: 10.5.45
+Version: 10.5.46
 Summary: passagemath: Graph (iso/auto)morphisms with bliss
 Author-email: The Sage Developers <sage-support@googlegroups.com>
 Maintainer: Matthias Köppe, passagemath contributors

passagemath_bliss-10.5.46.dist-info/RECORD

@@ -0,0 +1,9 @@
+passagemath_bliss.dylibs/libbliss.dylib,sha256=Ul4sc_txJHQ6sKVoMMMe6BODUGy2g63FcdvrhAuLhl0,215920
+passagemath_bliss-10.5.46.dist-info/RECORD,,
+passagemath_bliss-10.5.46.dist-info/WHEEL,sha256=IDSs5FX6_bA_Je6GNgVyz6rcn2XC7t_ySnnLoSan-5o,136
+passagemath_bliss-10.5.46.dist-info/top_level.txt,sha256=Kmzulf9WsphADFQuqgvdy5mvTLDj_V2zkFHU2s3UXos,6
+passagemath_bliss-10.5.46.dist-info/METADATA,sha256=SEV9QmexCUnCV9xhOO3PNeAmhSFTT2vVijLh3sGSPN8,4379
+sage/all__sagemath_bliss.py,sha256=2p3JOEnbjaX22LWk6f1yfiAvhMMkcvNXwTp_NcGw6pM,44
+sage/graphs/all__sagemath_bliss.py,sha256=2p3JOEnbjaX22LWk6f1yfiAvhMMkcvNXwTp_NcGw6pM,44
+sage/graphs/bliss.pyx,sha256=tdD81xTIfyxo3IgoWfsrTpHE33aTZQFWcAd-quMvzU0,32385
+sage/graphs/bliss.cpython-311-darwin.so,sha256=ytROuqdkrxDjkgtPRj_mTfQmoUh5d10cLYf0eph-W1M,203808

{passagemath_bliss-10.5.45.dist-info → passagemath_bliss-10.5.46.dist-info}/top_level.txt

@@ -1 +1,2 @@
+
 sage

sage/graphs/bliss.pyx

@@ -0,0 +1,915 @@
+# distutils: language = c++
+# distutils: extra_compile_args = -std=c++11
+# distutils: libraries = bliss
+# sage_setup: distribution = sagemath-bliss
+
+r"""
+Interface with bliss: graph (iso/auto)morphism
+
+Implemented functions:
+
+.. csv-table::
+    :class: contentstable
+    :widths: 30, 70
+    :delim: |
+
+    :meth:`automorphism_group` | Return the automorphism group of the given (di)graph
+    :meth:`canonical_form` | Return a canonical label for the given (di)graph
+
+AUTHORS:
+
+    - Jernej Azarija
+"""
+
+# ****************************************************************************
+#       Copyright (C) 2015 Jernej Azarija
+#       Copyright (C) 2015 Nathann Cohen <nathann.cohen@gail.com>
+#       Copyright (C) 2018 Christian Stump <christian.stump@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 libc.limits cimport LONG_MAX
+
+from cysignals.memory cimport check_calloc, sig_free
+
+cdef extern from "bliss/graph.hh" namespace "bliss":
+
+    cdef cppclass Stats:
+        pass
+
+    cdef cppclass AbstractGraph:
+        pass
+
+    cdef cppclass Graph(AbstractGraph):
+        Graph(const unsigned int)
+        void add_edge(const unsigned int, const unsigned int)
+        void change_color(const unsigned int, const unsigned int)
+        const unsigned int* canonical_form(Stats&)
+
+cdef extern from "bliss/digraph.hh" namespace "bliss":
+
+    cdef cppclass Digraph(AbstractGraph):
+        Digraph(const unsigned int)
+        void add_edge(const unsigned int, const unsigned int)
+        void change_color(const unsigned int, const unsigned int)
+        const unsigned int* canonical_form(Stats&)
+        unsigned int get_hash()
+
+cdef extern from "bliss_cpp/bliss_find_automorphisms.h":
+
+    void bliss_find_automorphisms(Graph*, void (*)(void*, unsigned int, const unsigned int*), void*, Stats&)
+    void bliss_find_automorphisms(Digraph*, void (*)(void*, unsigned int, const unsigned int*), void*, Stats&)
+
+cdef int encoding_numbits(int n) noexcept:
+    r"""
+    Return the number of bits needed to encode the `n` numbers from `1` to
+    `n`. In other words, the last bit set in `n`.
+    """
+    if n <= 0:
+        return 0
+    cdef int i = 0
+    while n:
+        n >>= 1
+        i += 1
+    return i
+
+
+cdef void add_gen(void *user_param, unsigned int n, const unsigned int *aut) noexcept:
+    r"""
+    Function called each time a new generator of the automorphism group is
+    found.
+
+    This function is used to append the new generators to a Python list. Its
+    main job is to translate a permutation into disjoint cycles.
+
+    INPUT:
+
+    - ``user_param`` -- ``void *``; in the current implementation, points toward
+      a Python object which is a pair ``(list_of_current_generators,
+      vert_to_integer_labelling)``.
+
+    - ``n`` -- integer; number of points in the graph
+
+    - ``aut`` -- ``int *``; an automorphism of the graph
+    """
+    cdef int N
+    cdef int tmp = 0
+    cdef int cur = 0
+    cdef list perm = []
+    cdef bint* done = <bint*> check_calloc(n, sizeof(bint))
+
+    gens, int_to_vertex, N = <object>user_param
+
+    while cur < N:
+        if not done[cur]:
+            tmp = cur
+            cycle = [int_to_vertex[cur]]
+            done[cur] = True
+
+            while aut[tmp] != cur:
+                tmp = aut[tmp]
+                done[tmp] = True
+                cycle.append(int_to_vertex[tmp])
+
+            perm.append(tuple(cycle))
+
+        cur += 1
+
+    gens.append(perm)
+
+    sig_free(done)
+
+#####################################################
+# constructing bliss graphs from edge lists
+#####################################################
+
+cdef Graph *bliss_graph_from_labelled_edges(int Vnr, int Lnr, Vout, Vin, labels, partition) noexcept:
+    r"""
+    Return a bliss graph from the input data
+
+    For edge labelled graphs, the bliss graph is constructed using `Vnr *
+    \log(Lnr)` many vertices as described in Sec. 14 of the `nauty reference
+    manual <http://pallini.di.uniroma1.it/Guide.html>`_.
+
+    More precisely, let `V` the vertices of the original graph. We
+    construct the new graph on the vertex set
+    `V \times \{0, \ldots, log(Lnr)\}`. The integers in the second factor of
+    `V \times \{0, \ldots, \log(Lnr)` encode the coloring of the edges. Then
+
+    - for each vertex `v` in `G` and each `i` in `0`, ..., `log(Lnr)-1`, we
+      add an edge from `(v, i)` to `(v, i+1)`
+
+    - for each edge `e` from `u` to `v` with label `lab` in `G` we add edges
+      from `(u, i)` to `(v, i)` for each `i` so that the `i`-th bit of `lab+1`
+      is set (recall that the labels range from `0` to `Lnr-1` and hence the
+      binary encoding of `1` to `Lnr` is so that at least one bit is set and
+      their binary encoding has length at most `log(Lnr)`)
+
+    .. WARNING::
+
+        the input is not checked for correctness, any wrong input will result in
+        a segfault
+
+    INPUT:
+
+    - ``Vnr`` -- integer; number of vertices, such that the vertices are `0,
+      \ldots, Vnr-1`
+
+    - ``Lnr`` -- integer; number of labels, such that the labels are `0, \ldots,
+      Lnr-1`
+
+    - ``Vout`` -- list; the list of vertices of outgoing edges
+
+    - ``Vin`` -- list; the list of vertices of ingoing edges
+
+    - ``labels`` -- list; the list of edge labels
+
+    - ``partition`` -- an ordered partition of the vertex set
+    """
+    cdef Graph * g
+    cdef int i, j, x, y, lab, Pnr, Enr, logLnr = 1
+
+    if Lnr <= 1:
+        g = new Graph(Vnr)
+    else:
+        logLnr = encoding_numbits(Lnr)
+        g = new Graph(Vnr * logLnr)
+    if not g:
+        raise MemoryError("allocation failed")
+
+    Enr = len(Vout)
+
+    if Lnr <= 1:
+        for i in range(Enr):
+            g.add_edge(Vout[i], Vin[i])
+
+    else:
+        # arrows going up in layers
+        for i in range(Vnr * (logLnr - 1)):
+            g.add_edge(i, i + Vnr)
+
+        # arrows inside layers shadowing the original graph
+        for i in range(Enr):
+            x = Vout[i]
+            y = Vin[i]
+            lab = labels[i] + 1
+            j = 0
+            while lab:
+                if lab & 1:
+                    g.add_edge(j * Vnr + x, j * Vnr + y)
+                j += 1
+                lab >>= 1
+
+    # vertex partition gives colors
+    if partition:
+        Pnr = len(partition)
+        for i in range(Pnr):
+            for v in partition[i]:
+                for j in range(logLnr):
+                    g.change_color(j * Vnr + v, j * Pnr + i)
+    else:
+        for j in range(logLnr):
+            for v in range(Vnr):
+                g.change_color(j * Vnr + v, j)
+
+    return g
+
+cdef Digraph *bliss_digraph_from_labelled_edges(int Vnr, int Lnr, Vout, Vin, labels, partition) noexcept:
+    r"""
+    Return a bliss digraph from the input data
+
+    For edge labelled graphs, the bliss graph is constructed using `Vnr *
+    \log(Lnr)` many vertices as described in Sec 14 in the `nauty reference
+    manual <http://pallini.di.uniroma1.it/Guide.html>`_.
+
+    .. WARNING::
+
+        the input is not checked for correctness, any wrong input will result in
+        a segfault
+
+    INPUT:
+
+    - ``Vnr`` -- integer; number of vertices, such that the vertices are `0,
+      \ldots, Vnr-1`
+
+    - ``Lnr`` -- integer; number of labels, such that the labels are `0, \ldots,
+      Lnr-1`
+
+    - ``Vout`` -- list; the list of vertices of outgoing edges
+
+    - ``Vin`` -- list; the list of vertices of ingoing edges
+
+    - ``labels`` -- list; the list of edge labels
+
+    - ``partition`` -- a partition of the vertex set
+    """
+    cdef Digraph *g
+    cdef int i, j, x, y, lab, Pnr, Enr, logLnr = 1
+
+    if Lnr <= 1:
+        g = new Digraph(Vnr)
+    else:
+        logLnr = encoding_numbits(Lnr)
+        g = new Digraph(Vnr * logLnr)
+    if not g:
+        raise MemoryError("allocation failed")
+
+    Enr = len(Vout)
+
+    if Lnr <= 1:
+        for i in range(Enr):
+            g.add_edge(Vout[i], Vin[i])
+    else:
+        # arrows going up in layers
+        for i in range(Vnr * (logLnr - 1)):
+            g.add_edge(i, i + Vnr)
+
+        # arrows inside layers shadowing the original graph
+        for i in range(Enr):
+            x = Vout[i]
+            y = Vin[i]
+            lab = labels[i] + 1
+            j = 0
+            while lab:
+                if lab & 1:
+                    g.add_edge(j * Vnr + x, j * Vnr + y)
+                j += 1
+                lab >>= 1
+
+    # vertex partition gives color
+    if partition:
+        Pnr = len(partition)
+        for i in range(Pnr):
+            for v in partition[i]:
+                for j in range(logLnr):
+                    g.change_color(j * Vnr + v, j * Pnr + i)
+    else:
+        for j in range(logLnr):
+            for v in range(Vnr):
+                g.change_color(j * Vnr + v, j)
+
+    return g
+
+#####################################################
+# canonical form from graph or edge list
+#####################################################
+
+cdef canonical_form_from_edge_list(int Vnr, list Vout, list Vin, int Lnr=1, list labels=[],
+                                   list partition=None, bint directed=False, bint certificate=False) noexcept:
+    r"""
+    Return an unsorted list of labelled edges of a canonical form.
+
+    INPUT:
+
+    - ``Vnr`` -- integer; number of vertices, such that the vertices are `0,
+      \ldots, Vnr-1`
+
+    - ``Vout`` -- list; the list of vertices of outgoing edges
+
+    - ``Vin`` -- list; the list of vertices of ingoing edges
+
+    - ``Lnr`` -- integer (default: 1); number of labels, such that the labels
+      are `0, \ldots, Lnr-1`
+
+    - ``labels`` -- list (default: ``[]``); the list of edge labels
+
+    - ``partition`` -- list (default: ``None``); a partition of the vertex
+      set
+
+    - ``directed`` -- boolean (default: ``False``); whether the edges are
+      directed or not
+
+    - ``certificate`` -- boolean 'default: ``False``); whether to return the
+      isomorphism to obtain the canonical labelling
+    """
+    # We need this to convert the numbers from <unsigned int> to
+    # <long>. This assertion should be true simply for memory reasons.
+    assert <unsigned long>(Vnr) <= <unsigned long>LONG_MAX
+
+    cdef const unsigned int* aut
+    cdef Graph* g
+    cdef Digraph* d
+    cdef Stats s
+    cdef dict relabel
+
+    cdef list new_edges = []
+    cdef long e, f
+
+    if directed:
+        d = bliss_digraph_from_labelled_edges(Vnr, Lnr, Vout, Vin, labels, partition)
+        aut = d.canonical_form(s)
+    else:
+        g = bliss_graph_from_labelled_edges(Vnr, Lnr, Vout, Vin, labels, partition)
+        aut = g.canonical_form(s)
+
+    for i in range(len(Vout)):
+        x = Vout[i]
+        y = Vin[i]
+        e = aut[x]
+        f = aut[y]
+        if Lnr == 1:
+            if not bool(labels):
+                lab = 0
+            else:
+                lab = labels[0]
+        else:
+            lab = labels[i]
+        if directed:
+            new_edges.append((e, f, lab))
+        else:
+            new_edges.append((e, f, lab) if e > f else (f, e, lab))
+
+    if certificate:
+        relabel = {v: <long>aut[v] for v in range(Vnr)}
+
+    if directed:
+        del d
+    else:
+        del g
+
+    if certificate:
+        return new_edges, relabel
+    return new_edges
+
+
+cpdef canonical_form(G, partition=None, return_graph=False, use_edge_labels=True, certificate=False) noexcept:
+    r"""
+    Return a canonical label for the given (di)graph.
+
+    A canonical label ``canonical_form(G)`` of ``G`` is a (di)graph defined on
+    `\{0,...,n-1\}` such that ``G`` is isomorphic to ``H`` if and only if
+    ``canonical_form(G)`` is equal to ``canonical_form(H)``.
+
+    INPUT:
+
+    - ``G`` -- a Sage (Di)Graph
+
+    - ``partition`` -- list (default: ``None``); a partition of the vertices
+      of ``G`` into color classes
+
+    - ``return_graph`` -- boolean (default: ``False``); whether to return the
+      canonical graph of ``G`` or its set of edges
+
+    - ``use_edge_labels`` -- boolean (default: ``True``); whether to consider
+      edge labels. The edge labels are assumed to be hashable and
+      sortable. If this is not the case (ie a :exc:`TypeError` is
+      raised), the algorithm will consider the string representations
+      of the labels instead of the labels.
+
+    - ``certificate`` -- boolean (default: ``False``); when set to ``True``,
+      returns the labeling of G into a canonical graph
+
+    TESTS::
+
+        sage: from sage.graphs.bliss import canonical_form                  # optional - bliss
+        sage: G = graphs.PetersenGraph()                                    # optional - bliss
+        sage: canonical_form(G)                                             # optional - bliss
+        [(2, 0, None),
+         (2, 1, None),
+         (3, 0, None),
+         (4, 1, None),
+         (5, 3, None),
+         (5, 4, None),
+         (6, 0, None),
+         (6, 4, None),
+         (7, 1, None),
+         (7, 3, None),
+         (8, 2, None),
+         (8, 5, None),
+         (9, 6, None),
+         (9, 7, None),
+         (9, 8, None)]
+
+        sage: P = graphs.GeneralizedPetersenGraph(5, 2)                     # optional - bliss
+        sage: Q = graphs.PetersenGraph()                                    # optional - bliss
+        sage: canonical_form(P) == canonical_form(Q)                        # optional - bliss
+        True
+
+        sage: canonical_form(Graph(15), return_graph=True)                  # optional - bliss
+        Graph on 15 vertices
+        sage: g = digraphs.RandomTournament(40)                             # optional - bliss
+        sage: g.is_isomorphic(canonical_form(g, return_graph=True))         # optional - bliss
+        True
+
+        sage: # optional - bliss
+        sage: g1 = graphs.RandomGNP(100, .4)
+        sage: r = Permutations(range(100)).random_element()
+        sage: g2 = Graph([(r[u],r[v]) for u,v in g1.edges(sort=True, labels=False)])
+        sage: g1 = canonical_form(g1, return_graph=True)
+        sage: g2 = canonical_form(g2, return_graph=True)
+        sage: g2 == g2
+        True
+
+        sage: g = Graph({1: [2]})
+        sage: g_ = canonical_form(g, return_graph=True, certificate=True)   # optional - bliss
+        sage: 0 in g_[0]                                                    # optional - bliss
+        True
+
+    Check that parameter ``use_edge_labels`` can be used (:issue:`27571`)::
+
+        sage: g = Graph({1: {2: 'a'}})
+        sage: canonical_form(g, use_edge_labels=True)                       # optional - bliss
+        [(1, 0, 'a')]
+        sage: canonical_form(g, use_edge_labels=False)                      # optional - bliss
+        [(1, 0, None)]
+
+    Check that :issue:`28531` is fixed::
+
+        sage: from itertools import product, permutations
+        sage: edges_list = [[(0,1), (1,2)],
+        ....:               [(0,1),(1,2),(2,3)],
+        ....:               [(0,1),(1,2),(2,3),(3,0)]]
+        sage: for edges in edges_list:                                      # optional - bliss
+        ....:     for labels in product([0,1], repeat=len(edges)):
+        ....:         g = Graph([(u,v,l) for ((u,v),l) in zip(edges, labels)])
+        ....:         gcan = canonical_form(g, use_edge_labels=True)
+        ....:         for p in permutations(range(g.num_verts())):
+        ....:             h = Graph([(p[u], p[v], lab) for u,v,lab in g.edges(sort=True)])
+        ....:             hcan = canonical_form(h, use_edge_labels=True)
+        ....:             if gcan != hcan: print(edges, labels, p)
+
+    Check that it works with non hashable non sortable edge labels (relying
+    on string representations of the labels)::
+
+        sage: # needs sage.modules
+        sage: g1 = Graph([(0, 1, matrix(ZZ, 2)), (0, 2, RDF.pi()), (1, 2, 'a')])
+        sage: g2 = Graph([(1, 2, matrix(ZZ, 2)), (2, 0, RDF.pi()), (0, 1, 'a')])
+        sage: g1can = canonical_form(g1, use_edge_labels=True)              # optional - bliss
+        sage: g2can = canonical_form(g2, use_edge_labels=True)              # optional - bliss
+        sage: g1can == g2can                                                # optional - bliss
+        True
+
+    Check that :issue:`32395` is fixed::
+
+        sage: g = Graph([[0, 2]])  # 1 is not a vertex!
+        sage: g.canonical_label(partition=[[0], [1], [2]], algorithm='bliss')  # optional - bliss
+        Traceback (most recent call last):
+        ...
+        ValueError: vertex 1 of the partition is not a vertex of the graph
+        sage: g.canonical_label(partition=[[0], [0, 2]], algorithm='bliss')  # optional - bliss
+        Traceback (most recent call last):
+        ...
+        ValueError: vertex 0 can appear only once in the partition
+        sage: g.canonical_label(partition=[[0, 0], [2]], algorithm='bliss')  # optional - bliss
+        Traceback (most recent call last):
+        ...
+        ValueError: vertex 0 can appear only once in the partition
+        sage: g.canonical_label(partition=[[0]], algorithm='bliss')  # optional - bliss
+        Traceback (most recent call last):
+        ...
+        ValueError: some vertices of the graph are not in the partition
+    """
+    # We need this to convert the numbers from <unsigned int> to <long>.
+    # This assertion should be true simply for memory reasons.
+    cdef unsigned long Vnr = G.order()
+    assert Vnr <= <unsigned long> LONG_MAX
+
+    cdef bint directed = G.is_directed()
+
+    cdef list Vout = []
+    cdef list Vin = []
+    cdef list labels = []
+
+    cdef list int2vert
+    cdef dict vert2int
+    cdef dict lab_to_index
+    cdef list edge_labels = [] if use_edge_labels else [None]
+    cdef int Lnr = 1
+
+    if partition:
+        from itertools import chain
+        int2vert = list(chain(*partition))
+        # We check that the partition contains only vertices of the graph
+        # and that it is actually a partition
+        seen = set()
+        for u in int2vert:
+            if u not in G:
+                raise ValueError("vertex {} of the partition is not a vertex of the graph".format(u))
+            if u in seen:
+                raise ValueError("vertex {} can appear only once in the partition".format(u))
+            seen.add(u)
+        if len(seen) != G.order():
+            raise ValueError("some vertices of the graph are not in the partition")
+    else:
+        int2vert = list(G)
+    vert2int = {v: i for i, v in enumerate(int2vert)}
+    if partition:
+        partition = [[vert2int[i] for i in part] for part in partition]
+
+    # Create 3 lists to represent edges
+    # - Vout[i] : source of the ith edge
+    # - Vin[i] : destination of the ith edge
+    # - labels[i] : label of the ith edge if use_edge_labels is True
+    # On the way, assign a unique integer to each distinct label
+    if use_edge_labels:
+        try:
+            edge_labels = sorted(set(G.edge_labels()))
+        except TypeError:
+            # NOTE: use edge labels might not be hashable or sortable...
+            # rely loosely on string representation
+            edge_labels = sorted(set(map(str, G.edge_labels())))
+            lab_to_index = {lab: i for i, lab in enumerate(edge_labels)}
+            for x, y, lab in G.edge_iterator(labels=True):
+                Vout.append(vert2int[x])
+                Vin.append(vert2int[y])
+                labels.append(lab_to_index[str(lab)])
+
+        else:
+            lab_to_index = {lab: i for i, lab in enumerate(edge_labels)}
+            for x, y, lab in G.edge_iterator(labels=True):
+                Vout.append(vert2int[x])
+                Vin.append(vert2int[y])
+                labels.append(lab_to_index[lab])
+
+        Lnr = len(lab_to_index)
+
+    else:
+        for x, y in G.edge_iterator(labels=False):
+            Vout.append(vert2int[x])
+            Vin.append(vert2int[y])
+
+    new_edges, relabel = canonical_form_from_edge_list(Vnr, Vout, Vin, Lnr, labels, partition, directed, certificate=True)
+
+    new_edges = [(x, y, edge_labels[lab]) for x, y, lab in new_edges]
+    relabel = {int2vert[i]: j for i, j in relabel.items()}
+
+    if return_graph:
+        if directed:
+            from sage.graphs.digraph import DiGraph
+            H = DiGraph(new_edges, loops=G.allows_loops(), multiedges=G.allows_multiple_edges())
+        else:
+            from sage.graphs.graph import Graph
+            H = Graph(new_edges, loops=G.allows_loops(), multiedges=G.allows_multiple_edges())
+
+        H.add_vertices(range(G.order()))
+        return (H, relabel) if certificate else H
+
+    # Warning: this may break badly in Python 3 if the graph is not simple
+    return (sorted(new_edges), relabel) if certificate else sorted(new_edges)
+
+
+#####################################################
+# automorphism group from graphs
+#####################################################
+
+cdef automorphism_group_gens_from_edge_list(int Vnr, Vout, Vin, int Lnr=1, labels=[],
+                                            int2vert=[], partition=None, bint directed=False) noexcept:
+    r"""
+    Return an unsorted list of labelled edges of a canonical form.
+
+    INPUT:
+
+    - ``Vnr`` -- integer; number of vertices, such that the vertices are `0,
+      \ldots, Vnr-1`
+
+    - ``Vout`` -- list; the list of vertices of outgoing edges
+
+    - ``Vin`` -- list; the list of vertices of ingoing edges
+
+    - ``Lnr`` -- integer (default: 1); number of labels, such that the labels
+      are `0, \ldots, Lnr-1`
+
+    - ``labels`` -- list (default: ``[]``); the list of edge labels
+
+    - ``int2vert`` -- list (default: ``[]``); ordering of the vertices
+
+    - ``partition`` -- list (default: ``None``); a partition of the vertex
+      set
+
+    - ``directed`` -- boolean (default: ``False``); whether the edges are
+      directed or not
+    """
+    # We need this to convert the numbers from <unsigned int> to
+    # <long>. This assertion should be true simply for memory reasons.
+    assert <unsigned long>(Vnr) <= <unsigned long>LONG_MAX
+
+    cdef Graph* g
+    cdef Digraph* d
+    cdef Stats s
+
+    if not int2vert:
+        int2vert = list(range(Vnr))
+
+    cdef list gens = []
+    cdef tuple data = (gens, int2vert, Vnr)
+
+    if directed:
+        d = bliss_digraph_from_labelled_edges(Vnr, Lnr, Vout, Vin, labels, partition)
+        bliss_find_automorphisms(d, add_gen, <void*>data, s)
+        del d
+    else:
+        g = bliss_graph_from_labelled_edges(Vnr, Lnr, Vout, Vin, labels, partition)
+        bliss_find_automorphisms(g, add_gen, <void*>data, s)
+        del g
+
+    return [[cyc for cyc in gen if cyc[0] is not None] for gen in gens]
+
+cpdef automorphism_group(G, partition=None, use_edge_labels=True) noexcept:
+    """
+    Return the automorphism group of the given (di)graph.
+
+    Compute the automorphism group of ``G`` subject to the vertex coloring
+    ``partition``, if given.  The graph ``G`` can be a directed or undirected
+    graph with or without edge labellings.
+
+    Observe the neither the vertex colorings nor the edge colorings are
+    interchangeable.
+
+    INPUT:
+
+    - ``G`` -- a Sage graph
+
+    - ``partition`` -- list (default: ``None``); a partition of the vertices
+      of ``G`` into color classes. Defaults to ``None``, which is equivalent to
+      a partition of size 1.
+
+    - ``use_edge_labels`` -- boolean (default: ``True``); whether to consider
+      edge labels
+
+    EXAMPLES::
+
+        sage: from sage.graphs.bliss import automorphism_group                  # optional - bliss
+
+    Computing the automorphism group of a graph or digraph::
+
+        sage: # optional - bliss
+        sage: G = graphs.CompleteMultipartiteGraph([1, 1, 1, 2])
+        sage: automorphism_group(G).cardinality()
+        12
+        sage: D = DiGraph(G.edges(sort=True))
+        sage: automorphism_group(D).cardinality()
+        2
+
+    Observe that the order 12 is given by permuting the first three vertices, or
+    the last two in the case of a graph, while only the latter two are possible
+    in the case of a directed graph.
+
+    Partitioning the vertices into classes::
+
+        sage: # optional - bliss
+        sage: G = graphs.CompleteMultipartiteGraph([3, 2])
+        sage: automorphism_group(G).cardinality()
+        12
+        sage: automorphism_group(G,partition=[[0],[1],[2],[3,4]]).cardinality()
+        2
+        sage: automorphism_group(G,partition=[[0],[1,2],[3,4]]).cardinality()
+        4
+        sage: automorphism_group(G,partition=[[1,2],[0,3],[4]]).cardinality()
+        2
+
+    Partitioning the edges into classes::
+
+        sage: # optional - bliss
+        sage: G = Graph(graphs.CompleteMultipartiteGraph([8, 2]), sparse=True)
+        sage: for i,j in G.edges(labels=False, sort=False):
+        ....:     if 0 <= i < 3:
+        ....:         G.set_edge_label(i, j, "A")
+        ....:     if 3 <= i < 6:
+        ....:         G.set_edge_label(i, j, "B")
+        ....:     if 6 <= i < 8:
+        ....:         G.set_edge_label(i, j, "C")
+        sage: factor(automorphism_group(G).cardinality())
+        2^4 * 3^2
+        sage: automorphism_group(G,[[0],[1],[2,3],[4,5],[6,7],[8],[9]]).cardinality()
+        4
+
+    TESTS::
+
+        sage: from sage.graphs.bliss import automorphism_group                  # optional - bliss
+        sage: G = graphs.PetersenGraph()                                        # optional - bliss
+        sage: automorphism_group(G).is_isomorphic(G.automorphism_group())       # optional - bliss
+        True
+
+        sage: # optional - bliss
+        sage: G = graphs.HeawoodGraph()
+        sage: p = G.bipartite_sets()
+        sage: A = G.automorphism_group(partition=[list(p[0]), list(p[1])])
+        sage: automorphism_group(G, partition=p).is_isomorphic(A)
+        True
+
+        sage: G = graphs.CompleteMultipartiteGraph([5, 7, 11])
+        sage: B = automorphism_group(G)                                         # optional - bliss
+        sage: B.cardinality() == prod(factorial(n) for n in [5, 7, 11])         # optional - bliss
+        True
+
+        sage: # optional - bliss
+        sage: G = Graph(graphs.CompleteMultipartiteGraph([8,8,8,5]),sparse=True)
+        sage: for i,j in G.edges(labels=False, sort=False):
+        ....:     if 0 <= i < 3:
+        ....:         G.set_edge_label(i, j, "A")
+        ....:     if 3 <= i < 6:
+        ....:         G.set_edge_label(i, j, "B")
+        ....:     if 6 <= i < 8:
+        ....:         G.set_edge_label(i, j, "C")
+        sage: card = automorphism_group(G).cardinality()
+        sage: card == prod(factorial(n) for n in [3, 3, 2, 8, 8, 5, 2])
+        True
+        sage: card = automorphism_group(G, use_edge_labels=False).cardinality()
+        sage: card == prod(factorial(n) for n in [8, 8, 8, 5, 3])
+        True
+        sage: card = automorphism_group(G, [[0 .. 7], [8 .. 11] ,[12 .. 28]]).cardinality()
+        sage: card == prod(factorial(n) for n in [3, 3, 2, 4, 4, 8, 5])
+        True
+
+        sage: # optional - bliss
+        sage: G = Graph()
+        sage: G.add_edges((i,j,"A") for i in range(0, 2) for j in range(14,20))
+        sage: G.add_edges((i,j,"B") for i in range(2, 5) for j in range(14,20))
+        sage: G.add_edges((i,j,"C") for i in range(5, 9) for j in range(14,20))
+        sage: G.add_edges((i,j,"D") for i in range(9,14) for j in range(14,20))
+        sage: A = automorphism_group(G)
+        sage: print(A.gens())               # random
+        ((12,13), (11,12), (10,11), (9,10), (7,8), (6,7), (5,6), (3,4),
+         (2,3), (1,0), (18,19), (17,18), (16,17), (15,16), (14,15))
+        sage: A.cardinality() == prod(factorial(n) for n in [2,3,4,5,6])
+        True
+
+        sage: # optional - bliss
+        sage: G = Graph()
+        sage: alpha = "abcdefghijklmnopqrstuvwxyz"
+        sage: G.add_edges((alpha[i],alpha[j],"A") for i in range(0, 2) for j in range(14,20))
+        sage: G.add_edges((alpha[i],alpha[j],"B") for i in range(2, 5) for j in range(14,20))
+        sage: G.add_edges((alpha[i],alpha[j],"C") for i in range(5, 9) for j in range(14,20))
+        sage: G.add_edges((alpha[i],alpha[j],"D") for i in range(9,14) for j in range(14,20))
+        sage: A = automorphism_group(G)
+        sage: print(A.gens())
+        (('m','n'), ('l','m'), ('k','l'), ('j','k'), ('h','i'),
+         ('g','h'), ('f','g'), ('d','e'), ('c','d'), ('s','t'),
+         ('r','s'), ('q','r'), ('p','q'), ('o','p'), ('a','b'))
+        sage: A.cardinality() == prod(factorial(n) for n in [2, 3, 4, 5, 6])
+        True
+
+        sage: # optional - bliss
+        sage: gg = graphs.CompleteGraph(5)
+        sage: gg.allow_loops(True)
+        sage: gg.add_edge(0, 0)
+        sage: gg.add_edge(1, 1)
+        sage: automorphism_group(gg).cardinality()
+        12
+        sage: automorphism_group(gg, [[0], [1, 2, 3, 4]]).cardinality()
+        6
+    """
+    # We need this to convert the numbers from <unsigned int> to
+    # <long>. This assertion should be true simply for memory reasons.
+    cdef unsigned long Vnr = G.order()
+    assert Vnr <= <unsigned long>LONG_MAX
+
+    cdef bint directed = G.is_directed()
+
+    cdef int labInd
+    cdef list Vout = []
+    cdef list Vin = []
+    cdef list labels = []
+
+    cdef list int2vert
+    cdef dict vert2int
+    cdef list edge_labels = []
+    cdef int Lnr = 0 if use_edge_labels else 1
+
+    if partition:
+        from itertools import chain
+        int2vert = list(chain(*partition))
+    else:
+        int2vert = list(G)
+    vert2int = {v: i for i, v in enumerate(int2vert)}
+    if partition:
+        partition = [[vert2int[i] for i in part] for part in partition]
+
+    # Create 3 lists to represent edges
+    # - Vout[i] : source of the ith edge
+    # - Vin[i] : destination of the ith edge
+    # - labels[i] : label of the ith edge if use_edge_labels is True
+    # On the way, assign a unique integer to each distinct label
+    for x, y, lab in G.edge_iterator(labels=True):
+        Vout.append(vert2int[x])
+        Vin.append(vert2int[y])
+        if use_edge_labels:
+            try:
+                labInd = edge_labels.index(lab)
+            except ValueError:
+                labInd = Lnr
+                Lnr += 1
+                edge_labels.append(lab)
+            labels.append(labInd)
+
+    gens = automorphism_group_gens_from_edge_list(Vnr, Vout, Vin, Lnr, labels, int2vert, partition, directed)
+
+    from sage.groups.perm_gps.permgroup import PermutationGroup
+    return PermutationGroup(gens, domain=int2vert[:G.order()])
+
+
+#####################################################
+# old direct interactions graphs <-> bliss graphs
+#####################################################
+
+cdef Graph *bliss_graph(G, partition, vert2int, int2vert) noexcept:
+    r"""
+    Return a bliss copy of a graph G
+
+    INPUT:
+
+    - ``G`` -- a Sage Graph
+
+    - ``partition`` -- list; a partition of the vertex set
+
+    - ``vert2int, int2vert`` -- a empty ``dict`` and a empty list; the
+      entries of the dictionary are later set to record the labeling of our
+      graph. They are taken as arguments to avoid technicalities of returning
+      Python objects in Cython functions.
+    """
+    cdef Graph *g = new Graph(G.order())
+
+    if not g:
+        raise MemoryError("allocation failed")
+
+    for i, v in enumerate(G):
+        vert2int[v] = i
+        int2vert[i] = v
+
+    for x, y in G.edge_iterator(labels=False):
+        g.add_edge(vert2int[x], vert2int[y])
+
+    if partition:
+        for i in range(1, len(partition)):
+            for v in partition[i]:
+                g.change_color(vert2int[v], i)
+    return g
+
+
+cdef Digraph *bliss_digraph(G, partition, vert2int, int2vert) noexcept:
+    r"""
+    Return a bliss copy of a digraph G
+
+    INPUT:
+
+    - ``G`` -- a Sage DiGraph
+
+    - ``partition`` -- list; a partition of the vertex set
+
+    - ``vert2int, int2vert`` -- a empty ``dict`` and a empty list; the
+      entries of the dictionary are later set to record the labeling of our
+      graph. They are taken as arguments to avoid technicalities of returning
+      Python objects in Cython functions.
+    """
+    cdef Digraph *g = new Digraph(G.order())
+
+    if not g:
+        raise MemoryError("allocation failed")
+
+    for i, v in enumerate(G):
+        vert2int[v] = i
+        int2vert[i] = v
+
+    for x, y in G.edge_iterator(labels=False):
+        g.add_edge(vert2int[x], vert2int[y])
+
+    if partition:
+        for i in range(1, len(partition)):
+            for v in partition[i]:
+                g.change_color(vert2int[v], i)
+    return g

passagemath_bliss-10.5.45.dist-info/RECORD

@@ -1,8 +0,0 @@
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