mirror of https://github.com/explosion/spaCy.git
708 lines
23 KiB
Cython
708 lines
23 KiB
Cython
# cython: infer_types=True, cdivision=True, boundscheck=False, binding=True
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from typing import List, Tuple, Generator
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from libc.stdint cimport int32_t, int64_t
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from libcpp.pair cimport pair
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from libcpp.unordered_map cimport unordered_map
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from libcpp.unordered_set cimport unordered_set
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from cython.operator cimport dereference
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cimport cython
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import weakref
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from preshed.maps cimport map_get_unless_missing
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from murmurhash.mrmr cimport hash64
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from .. import Errors
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from ..typedefs cimport hash_t
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from ..strings import get_string_id
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from ..structs cimport EdgeC, GraphC
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from .token import Token
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@cython.freelist(8)
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cdef class Edge:
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cdef readonly Graph graph
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cdef readonly int i
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def __init__(self, Graph graph, int i):
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self.graph = graph
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self.i = i
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@property
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def is_none(self) -> bool:
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return False
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@property
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def doc(self) -> "Doc":
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return self.graph.doc
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@property
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def head(self) -> "Node":
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return Node(self.graph, self.graph.c.edges[self.i].head)
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@property
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def tail(self) -> "Tail":
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return Node(self.graph, self.graph.c.edges[self.i].tail)
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@property
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def label(self) -> int:
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return self.graph.c.edges[self.i].label
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@property
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def weight(self) -> float:
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return self.graph.c.weights[self.i]
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@property
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def label_(self) -> str:
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return self.doc.vocab.strings[self.label]
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@cython.freelist(8)
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cdef class Node:
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cdef readonly Graph graph
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cdef readonly int i
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def __init__(self, Graph graph, int i):
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"""A reference to a node of an annotation graph. Each node is made up of
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an ordered set of zero or more token indices.
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Node references are usually created by the Graph object itself, or from
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the Node or Edge objects. You usually won't need to instantiate this
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class yourself.
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"""
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cdef int length = graph.c.nodes.size()
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if i >= length or -i >= length:
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raise IndexError(Errors.E1034.format(i=i, length=length))
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if i < 0:
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i += length
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self.graph = graph
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self.i = i
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def __eq__(self, other):
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if self.graph is not other.graph:
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return False
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else:
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return self.i == other.i
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def __iter__(self) -> Generator[int]:
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for i in self.graph.c.nodes[self.i]:
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yield i
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def __getitem__(self, int i) -> int:
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"""Get a token index from the node's set of tokens."""
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length = self.graph.c.nodes[self.i].size()
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if i >= length or -i >= length:
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raise IndexError(Errors.E1035.format(i=i, length=length))
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if i < 0:
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i += length
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return self.graph.c.nodes[self.i][i]
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def __len__(self) -> int:
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"""The number of tokens that make up the node."""
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return self.graph.c.nodes[self.i].size()
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@property
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def is_none(self) -> bool:
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"""Whether the node is a special value, indicating 'none'.
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The NoneNode type is returned by the Graph, Edge and Node objects when
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there is no match to a query. It has the same API as Node, but it always
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returns NoneNode, NoneEdge or empty lists for its queries.
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"""
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return False
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@property
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def doc(self) -> "Doc":
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"""The Doc object that the graph refers to."""
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return self.graph.doc
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@property
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def tokens(self) -> Tuple[Token]:
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"""A tuple of Token objects that make up the node."""
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doc = self.doc
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return tuple([doc[i] for i in self])
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def head(self, i=None, label=None) -> "Node":
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"""Get the head of the first matching edge, searching by index, label,
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both or neither.
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For instance, `node.head(i=1)` will get the head of the second edge that
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this node is a tail of. `node.head(i=1, label="ARG0")` will further
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check that the second edge has the label `"ARG0"`.
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If no matching node can be found, the graph's NoneNode is returned.
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"""
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return self.headed(i=i, label=label)
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def tail(self, i=None, label=None) -> "Node":
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"""Get the tail of the first matching edge, searching by index, label,
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both or neither.
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If no matching node can be found, the graph's NoneNode is returned.
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"""
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return self.tailed(i=i, label=label).tail
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def sibling(self, i=None, label=None):
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"""Get the first matching sibling node. Two nodes are siblings if they
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are both tails of the same head.
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If no matching node can be found, the graph's NoneNode is returned.
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"""
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if i is None:
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siblings = self.siblings(label=label)
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return siblings[0] if siblings else NoneNode(self)
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else:
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edges = []
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for h in self.headed():
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edges.extend([e for e in h.tailed() if e.tail.i != self.i])
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if i >= len(edges):
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return NoneNode(self)
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elif label is not None and edges[i].label != label:
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return NoneNode(self)
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else:
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return edges[i].tail
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def heads(self, label=None) -> List["Node"]:
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"""Find all matching heads of this node."""
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cdef vector[int] edge_indices
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self._find_edges(edge_indices, "head", label)
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return [Node(self.graph, self.graph.c.edges[i].head) for i in edge_indices]
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def tails(self, label=None) -> List["Node"]:
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"""Find all matching tails of this node."""
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cdef vector[int] edge_indices
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self._find_edges(edge_indices, "tail", label)
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return [Node(self.graph, self.graph.c.edges[i].tail) for i in edge_indices]
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def siblings(self, label=None) -> List["Node"]:
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"""Find all maching siblings of this node. Two nodes are siblings if they
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are tails of the same head.
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"""
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edges = []
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for h in self.headed():
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edges.extend([e for e in h.tailed() if e.tail.i != self.i])
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if label is None:
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return [e.tail for e in edges]
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else:
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return [e.tail for e in edges if e.label == label]
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def headed(self, i=None, label=None) -> Edge:
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"""Find the first matching edge headed by this node.
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If no matching edge can be found, the graph's NoneEdge is returned.
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"""
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start, end = self._find_range(i, self.c.n_head[self.i])
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idx = self._find_edge("head", start, end, label)
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if idx == -1:
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return NoneEdge(self.graph)
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else:
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return Edge(self.graph, idx)
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def tailed(self, i=None, label=None) -> Edge:
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"""Find the first matching edge tailed by this node.
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If no matching edge can be found, the graph's NoneEdge is returned.
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"""
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start, end = self._find_range(i, self.c.n_tail[self.i])
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idx = self._find_edge("tail", start, end, label)
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if idx == -1:
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return NoneEdge(self.graph)
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else:
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return Edge(self.graph, idx)
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def headeds(self, label=None) -> List[Edge]:
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"""Find all matching edges headed by this node."""
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cdef vector[int] edge_indices
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self._find_edges(edge_indices, "head", label)
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return [Edge(self.graph, i) for i in edge_indices]
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def taileds(self, label=None) -> List["Edge"]:
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"""Find all matching edges headed by this node."""
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cdef vector[int] edge_indices
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self._find_edges(edge_indices, "tail", label)
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return [Edge(self.graph, i) for i in edge_indices]
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def walk_heads(self):
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cdef vector[int] node_indices
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walk_head_nodes(node_indices, &self.graph.c, self.i)
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for i in node_indices:
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yield Node(self.graph, i)
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def walk_tails(self):
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cdef vector[int] node_indices
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walk_tail_nodes(node_indices, &self.graph.c, self.i)
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for i in node_indices:
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yield Node(self.graph, i)
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cdef (int, int) _get_range(self, i, n):
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if i is None:
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return (0, n)
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elif i < n:
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return (i, i+1)
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else:
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return (0, 0)
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cdef int _find_edge(self, str direction, int start, int end, label) except -2:
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if direction == "head":
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get_edges = get_head_edges
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else:
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get_edges = get_tail_edges
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cdef vector[int] edge_indices
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get_edges(edge_indices, &self.graph.c, self.i)
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if label is None:
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return edge_indices[start]
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for edge_index in edge_indices[start:end]:
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if self.graph.c.edges[edge_index].label == label:
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return edge_index
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else:
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return -1
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cdef int _find_edges(self, vector[int]& edge_indices, str direction, label):
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if direction == "head":
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get_edges = get_head_edges
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else:
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get_edges = get_tail_edges
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if label is None:
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get_edges(edge_indices, &self.graph.c, self.i)
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return edge_indices.size()
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cdef vector[int] unfiltered
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get_edges(unfiltered, &self.graph.c, self.i)
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for edge_index in unfiltered:
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if self.graph.c.edges[edge_index].label == label:
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edge_indices.push_back(edge_index)
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return edge_indices.size()
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cdef class NoneEdge(Edge):
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"""An Edge subclass, representing a non-result. The NoneEdge has the same
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API as other Edge instances, but always returns NoneEdge, NoneNode, or empty
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lists.
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"""
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def __init__(self, graph):
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self.graph = graph
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self.i = -1
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@property
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def doc(self) -> "Doc":
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return self.graph.doc
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@property
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def head(self) -> "NoneNode":
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return NoneNode(self.graph)
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@property
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def tail(self) -> "NoneNode":
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return NoneNode(self.graph)
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@property
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def label(self) -> int:
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return 0
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@property
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def weight(self) -> float:
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return 0.0
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@property
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def label_(self) -> str:
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return ""
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cdef class NoneNode(Node):
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def __init__(self, graph):
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self.graph = graph
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self.i = -1
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def __getitem__(self, int i):
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raise IndexError(Errors.E1036)
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def __len__(self):
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return 0
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@property
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def is_none(self):
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return -1
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@property
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def doc(self):
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return self.graph.doc
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@property
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def tokens(self):
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return tuple()
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def head(self, i=None, label=None):
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return self
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def tail(self, i=None, label=None):
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return self
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def walk_heads(self):
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yield from []
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def walk_tails(self):
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yield from []
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cdef class Graph:
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"""A set of directed labelled relationships between sets of tokens.
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EXAMPLE:
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Construction 1
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>>> graph = Graph(doc, name="srl")
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Construction 2
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>>> graph = Graph(
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doc,
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name="srl",
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nodes=[(0,), (1, 3), (,)],
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edges=[(0, 2), (2, 1)]
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)
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Construction 3
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>>> graph = Graph(
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doc,
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name="srl",
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nodes=[(0,), (1, 3), (,)],
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edges=[(2, 0), (0, 1)],
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labels=["word sense ID 1675", "agent"],
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weights=[-42.6, -1.7]
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)
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>>> assert graph.has_node((0,))
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>>> assert graph.has_edge((0,), (1,3), label="agent")
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"""
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def __init__(self, doc, *, name="", nodes=[], edges=[], labels=None, weights=None):
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"""Create a Graph object.
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doc (Doc): The Doc object the graph will refer to.
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name (str): A string name to help identify the graph. Defaults to "".
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nodes (List[Tuple[int]]): A list of token-index tuples to add to the graph
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as nodes. Defaults to [].
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edges (List[Tuple[int, int]]): A list of edges between the provided nodes.
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Each edge should be a (head, tail) tuple, where `head` and `tail`
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are integers pointing into the `nodes` list. Defaults to [].
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labels (Optional[List[str]]): A list of labels for the provided edges.
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If None, all of the edges specified by the edges argument will have
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be labelled with the empty string (""). If `labels` is not `None`,
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it must have the same length as the `edges` argument.
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weights (Optional[List[float]]): A list of weights for the provided edges.
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If None, all of the edges specified by the edges argument will
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have the weight 0.0. If `weights` is not `None`, it must have the
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same length as the `edges` argument.
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"""
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if weights is not None:
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assert len(weights) == len(edges)
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else:
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weights = [0.0] * len(edges)
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if labels is not None:
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assert len(labels) == len(edges)
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else:
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labels = [""] * len(edges)
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self.c.node_map = new unordered_map[hash_t, int]()
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self.c.edge_map = new unordered_map[hash_t, int]()
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self.c.roots = new unordered_set[int]()
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self.name = name
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self.doc_ref = weakref.ref(doc)
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for node in nodes:
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self.add_node(node)
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for (head, tail), label, weight in zip(edges, labels, weights):
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self.add_edge(
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Node(self, head),
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Node(self, tail),
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label=label,
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weight=weight
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)
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def __dealloc__(self):
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del self.c.node_map
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del self.c.edge_map
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del self.c.roots
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@property
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def doc(self) -> "Doc":
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"""The Doc object the graph refers to."""
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return self.doc_ref()
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@property
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def edges(self) -> Generator[Edge]:
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"""Iterate over the edges in the graph."""
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for i in range(self.c.edges.size()):
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yield Edge(self, i)
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@property
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def nodes(self) -> Generator[Node]:
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"""Iterate over the nodes in the graph."""
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for i in range(self.c.nodes.size()):
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yield Node(self, i)
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def add_edge(self, head, tail, *, label="", weight=None) -> Edge:
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"""Add an edge to the graph, connecting two groups of tokens.
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If there is already an edge for the (head, tail, label) triple, it will
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be returned, and no new edge will be created. The weight of the edge
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will be updated if a weight is specified.
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"""
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label_hash = self.doc.vocab.strings.as_int(label)
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weight_float = weight if weight is not None else 0.0
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edge_index = add_edge(
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&self.c,
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EdgeC(
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head=self.add_node(head).i,
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tail=self.add_node(tail).i,
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label=self.doc.vocab.strings.as_int(label),
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),
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weight=weight if weight is not None else 0.0
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)
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return Edge(self, edge_index)
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def get_edge(self, head, tail, *, label="") -> Edge:
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"""Look up an edge in the graph. If the graph has no matching edge,
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the NoneEdge object is returned.
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"""
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head_node = self.get_node(head)
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if head_node.is_none:
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return NoneEdge(self)
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tail_node = self.get_node(tail)
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if tail_node.is_none:
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return NoneEdge(self)
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edge_index = get_edge(
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&self.c,
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EdgeC(head=head_node.i, tail=tail_node.i, label=get_string_id(label))
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)
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if edge_index < 0:
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return NoneEdge(self)
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else:
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return Edge(self, edge_index)
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def has_edge(self, head, tail, label) -> bool:
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"""Check whether a (head, tail, label) triple is an edge in the graph."""
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return not self.get_edge(head, tail, label=label).is_none
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def add_node(self, indices) -> Node:
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"""Add a node to the graph and return it. Nodes refer to ordered sets
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of token indices.
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This method is idempotent: if there is already a node for the given
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indices, it is returned without a new node being created.
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"""
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if isinstance(indices, Node):
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return indices
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cdef vector[int32_t] node
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node.reserve(len(indices))
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for idx in indices:
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node.push_back(idx)
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i = add_node(&self.c, node)
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return Node(self, i)
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def get_node(self, indices) -> Node:
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"""Get a node from the graph, or the NoneNode if there is no node for
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the given indices.
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"""
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if isinstance(indices, Node):
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return indices
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cdef vector[int32_t] node
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node.reserve(len(indices))
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for idx in indices:
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node.push_back(idx)
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node_index = get_node(&self.c, node)
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if node_index < 0:
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return NoneNode(self)
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else:
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return Node(self, node_index)
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def has_node(self, tuple indices) -> bool:
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"""Check whether the graph has a node for the given indices."""
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return not self.get_node(indices).is_none
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cdef int add_edge(GraphC* graph, EdgeC edge, float weight) nogil:
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key = hash64(&edge, sizeof(edge), 0)
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it = graph.edge_map.find(key)
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if it != graph.edge_map.end():
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edge_index = dereference(it).second
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graph.weights[edge_index] = weight
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return edge_index
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else:
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edge_index = graph.edges.size()
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graph.edge_map.insert(pair[hash_t, int](key, edge_index))
|
|
graph.edges.push_back(edge)
|
|
if graph.n_tails[edge.head] == 0:
|
|
graph.first_tail[edge.head] = edge_index
|
|
if graph.n_heads[edge.tail] == 0:
|
|
graph.first_head[edge.tail] = edge_index
|
|
graph.n_tails[edge.head] += 1
|
|
graph.n_heads[edge.tail] += 1
|
|
graph.weights.push_back(weight)
|
|
# If we had the tail marked as a root, remove it.
|
|
tail_root_index = graph.roots.find(edge.tail)
|
|
if tail_root_index != graph.roots.end():
|
|
graph.roots.erase(tail_root_index)
|
|
return edge_index
|
|
|
|
|
|
cdef int get_edge(const GraphC* graph, EdgeC edge) nogil:
|
|
key = hash64(&edge, sizeof(edge), 0)
|
|
it = graph.edge_map.find(key)
|
|
if it == graph.edge_map.end():
|
|
return -1
|
|
else:
|
|
return dereference(it).second
|
|
|
|
|
|
cdef int has_edge(const GraphC* graph, EdgeC edge) nogil:
|
|
return get_edge(graph, edge) >= 0
|
|
|
|
|
|
cdef int add_node(GraphC* graph, vector[int32_t]& node) nogil:
|
|
key = hash64(&node[0], node.size() * sizeof(node[0]), 0)
|
|
it = graph.node_map.find(key)
|
|
if it != graph.node_map.end():
|
|
# Item found. Convert the iterator to an index value.
|
|
return dereference(it).second
|
|
else:
|
|
index = graph.nodes.size()
|
|
graph.nodes.push_back(node)
|
|
graph.n_heads.push_back(0)
|
|
graph.n_tails.push_back(0)
|
|
graph.first_head.push_back(0)
|
|
graph.first_tail.push_back(0)
|
|
graph.roots.insert(index)
|
|
graph.node_map.insert(pair[hash_t, int](key, index))
|
|
return index
|
|
|
|
|
|
cdef int get_node(const GraphC* graph, vector[int32_t] node) nogil:
|
|
key = hash64(&node[0], node.size() * sizeof(node[0]), 0)
|
|
it = graph.node_map.find(key)
|
|
if it == graph.node_map.end():
|
|
return -1
|
|
else:
|
|
return dereference(it).second
|
|
|
|
|
|
cdef int has_node(const GraphC* graph, vector[int32_t] node) nogil:
|
|
return get_node(graph, node) >= 0
|
|
|
|
|
|
cdef int get_head_nodes(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
todo = graph.n_heads[node]
|
|
if todo == 0:
|
|
return 0
|
|
output.reserve(output.size() + todo)
|
|
start = graph.first_head[node]
|
|
end = graph.edges.size()
|
|
for i in range(start, end):
|
|
if todo <= 0:
|
|
break
|
|
elif graph.edges[i].tail == node:
|
|
output.push_back(graph.edges[i].head)
|
|
todo -= 1
|
|
return todo
|
|
|
|
|
|
cdef int get_tail_nodes(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
todo = graph.n_tails[node]
|
|
if todo == 0:
|
|
return 0
|
|
output.reserve(output.size() + todo)
|
|
start = graph.first_tail[node]
|
|
end = graph.edges.size()
|
|
for i in range(start, end):
|
|
if todo <= 0:
|
|
break
|
|
elif graph.edges[i].head == node:
|
|
output.push_back(graph.edges[i].tail)
|
|
todo -= 1
|
|
return todo
|
|
|
|
|
|
cdef int get_sibling_nodes(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
cdef vector[int] heads
|
|
cdef vector[int] tails
|
|
get_head_nodes(heads, graph, node)
|
|
for i in range(heads.size()):
|
|
get_tail_nodes(tails, graph, heads[i])
|
|
for j in range(tails.size()):
|
|
if tails[j] != node:
|
|
output.push_back(tails[j])
|
|
tails.clear()
|
|
return output.size()
|
|
|
|
|
|
cdef int get_head_edges(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
todo = graph.n_heads[node]
|
|
if todo == 0:
|
|
return 0
|
|
output.reserve(output.size() + todo)
|
|
start = graph.first_head[node]
|
|
end = graph.edges.size()
|
|
for i in range(start, end):
|
|
if todo <= 0:
|
|
break
|
|
elif graph.edges[i].tail == node:
|
|
output.push_back(i)
|
|
todo -= 1
|
|
return todo
|
|
|
|
|
|
cdef int get_tail_edges(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
todo = graph.n_tails[node]
|
|
if todo == 0:
|
|
return 0
|
|
output.reserve(output.size() + todo)
|
|
start = graph.first_tail[node]
|
|
end = graph.edges.size()
|
|
for i in range(start, end):
|
|
if todo <= 0:
|
|
break
|
|
elif graph.edges[i].head == node:
|
|
output.push_back(i)
|
|
todo -= 1
|
|
return todo
|
|
|
|
|
|
cdef int walk_head_nodes(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
cdef unordered_set[int] seen = unordered_set[int]()
|
|
get_head_nodes(output, graph, node)
|
|
seen.insert(node)
|
|
i = 0
|
|
while i < output.size():
|
|
if seen.find(output[i]) == seen.end():
|
|
seen.insert(output[i])
|
|
get_head_nodes(output, graph, output[i])
|
|
i += 1
|
|
return i
|
|
|
|
|
|
cdef int walk_tail_nodes(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
cdef unordered_set[int] seen = unordered_set[int]()
|
|
get_tail_nodes(output, graph, node)
|
|
seen.insert(node)
|
|
i = 0
|
|
while i < output.size():
|
|
if seen.find(output[i]) == seen.end():
|
|
seen.insert(output[i])
|
|
get_tail_nodes(output, graph, output[i])
|
|
i += 1
|
|
return i
|
|
|
|
|
|
cdef int walk_head_edges(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
cdef unordered_set[int] seen = unordered_set[int]()
|
|
get_head_edges(output, graph, node)
|
|
seen.insert(node)
|
|
i = 0
|
|
while i < output.size():
|
|
if seen.find(output[i]) == seen.end():
|
|
seen.insert(output[i])
|
|
get_head_edges(output, graph, output[i])
|
|
i += 1
|
|
return i
|
|
|
|
|
|
cdef int walk_tail_edges(vector[int]& output, const GraphC* graph, int node) nogil:
|
|
cdef unordered_set[int] seen = unordered_set[int]()
|
|
get_tail_edges(output, graph, node)
|
|
seen.insert(node)
|
|
i = 0
|
|
while i < output.size():
|
|
if seen.find(output[i]) == seen.end():
|
|
seen.insert(output[i])
|
|
get_tail_edges(output, graph, output[i])
|
|
i += 1
|
|
return i
|