图形分析：识别循环路径

问题描述 投票：0回答：4

我有一个无向图，例如：

import igraph as ig
G = ig.Graph()
G.add_vertices(9)
G.add_edges([(0,1), (1,2),(2,3),(3,0),(0,4),(4,5),(5,6),(6,7),(6,8)])

[存在从节点0通过1,2,3到0的“回路”（抱歉，在图片中，nodelabel以1而不是0开头）

“

对于分配，我需要确定“循环路径”连接到图的其余部分的节点，即0，最重要的是，“循环路径”本身，即[0,1,2,3,0]和/或[0,3,2,1,0]

我正在努力，但确实没有任何线索。如果我像here一样使用find_all_paths(G,0,0)中的函数，我当然只会得到[0]

python graph igraph
4个回答
2
投票

由于该问题也用networkx标记，所以我用它来举例说明代码。

在图论中，“循环路径”通常称为循环。

[我看到的最简单（可能不是最快）的想法是找到循环和铰接点集（或切割顶点，即增加连接零件数量的点），然后找到它们的交点即可。

以相同的基础开始：

import networkx as nx
G.add_nodes_from([9])
G.add_edges_from([(0,1), (1,2),(2,3),(3,0),(0,4),(4,5),(5,6),(6,7),(6,8)])

现在解决问题的方法：

cycles = nx.cycle_basis(G) # list of cycles
cuts = list(nx.articulation_points(G)) # list of cut verteces
nodes_needed = set() # the set of nodes we are looking for
for cycle in cycles:
    for node in cycle:
        if node in cuts:
            nodes_needed.add(node)
2
投票

好的，这是我自己的问题的答案之一：

[感谢Max Li's和deeenes'的帮助，我想到了重写networkx cycle_basis function以便在python_igraph中工作的想法：

import igraph as ig
G = ig.Graph()
G.add_vertices(9)
G.add_edges([(0,1), (1,2),(2,3),(3,0),(0,4),(4,5),(5,6),(6,7),(6,8)])

def cycle_basis_ig(G,root=None):
gnodes=set(n.index for n in G.vs())
cycles=[]
while gnodes:  # loop over connected components
    if root is None:
        root=gnodes.pop()
    stack=[root]
    pred={root:root} 
    used={root:set()}
    while stack:  # walk the spanning tree finding cycles
        z=stack.pop() # use last-in so cycles easier to find
        zused=used[z]
        for nbr in G.neighbors(z,mode='ALL'):
            if nbr not in used:   # new node 
                pred[nbr]=z
                stack.append(nbr)
                used[nbr]=set([z])
            elif nbr is z:        # self loops
                cycles.append([z]) 
            elif nbr not in zused:# found a cycle
                pn=used[nbr]
                cycle=[nbr,z]
                p=pred[z]
                while p not in pn:
                    cycle.append(p)
                    p=pred[p]
                cycle.append(p)
                cycles.append(cycle)
                used[nbr].add(z)
    gnodes-=set(pred)
    root=None
return cycles


cb = cycle_basis_ig(G)
print 'cycle_basis_ig: ', cb
1
投票

这里是使用广度优先搜索来查找循环的示例。我想知道是否存在更有效的方法。如果是中等大小的图形或更长的最大循环长度，这可能会持续一段时间。深度优先搜索可以完成相同的操作。首先，我相信您使用R发布了问题，因此在下面也可以找到R版本。由于同样的原因，python版本也不是完美的Python语言，正如我从R迅速翻译过来的那样。有关说明，请参见代码中的注释。

import igraph

# creating a toy graph
g = igraph.Graph.Erdos_Renyi(n = 100, p = 0.04)

# breadth first search of paths and unique loops
def get_loops(adj, paths, maxlen):
    # tracking the actual path length:
    maxlen -= 1
    nxt_paths = []
    # iterating over all paths:
    for path in paths['paths']:
        # iterating neighbors of the last vertex in the path:
        for nxt in adj[path[-1]]:
            # attaching the next vertex to the path:
            nxt_path = path + [nxt]
            if path[0] == nxt and min(path) == nxt:
                # the next vertex is the starting vertex, we found a loop
                # we keep the loop only if the starting vertex has the 
                # lowest vertex id, to avoid having the same loops 
                # more than once
                paths['loops'].append(nxt_path)
                # if you don't need the starting vertex 
                # included at the end:
                # paths$loops <- c(paths$loops, list(path))
            elif nxt not in path:
                # keep the path only if we don't create 
                # an internal loop in the path
                nxt_paths.append(nxt_path)
    # paths grown by one step:
    paths['paths'] = nxt_paths
    if maxlen == 0:
        # the final return when maximum search length reached
        return paths
    else:
        # recursive return, to grow paths further
        return get_loops(adj, paths, maxlen)

adj = []
loops = []
# the maximum length to limit computation time on large graphs
# maximum could be vcount(graph), but that might take for ages
maxlen = 4

# creating an adjacency list
# for directed graphs use the 'mode' argument of neighbors() 
# according to your needs ('in', 'out' or 'all')
adj = [[n.index for n in v.neighbors()] for v in g.vs]

# recursive search of loops 
# for each vertex as candidate starting point
for start in xrange(g.vcount()):
    loops += get_loops(adj, 
        {'paths': [[start]], 'loops': []}, maxlen)['loops']

与R相同：

require(igraph)

# creating a toy graph
g <- erdos.renyi.game(n = 100, p.or.m = 0.04)

# breadth first search of paths and unique loops
get_loops <- function(adj, paths, maxlen){
    # tracking the actual path length:
    maxlen <- maxlen - 1
    nxt_paths <- list()
    # iterating over all paths:
    for(path in paths$paths){
        # iterating neighbors of the last vertex in the path:
        for(nxt in adj[[path[length(path)]]]){
            # attaching the next vertex to the path:
            nxt_path <- c(path, nxt)
            if(path[1] == nxt & min(path) == nxt){
                # the next vertex is the starting vertex, we found a loop
                # we keep the loop only if the starting vertex has the 
                # lowest vertex id, to avoid having the same loops 
                # more than once
                paths$loops <- c(paths$loops, list(nxt_path))
                # if you don't need the starting vertex included 
                # at the end:
                # paths$loops <- c(paths$loops, list(path))
            }else if(!(nxt %in% path)){
                # keep the path only if we don't create 
                # an internal loop in the path
                nxt_paths <- c(nxt_paths, list(nxt_path))
            }
        }
    }
    # paths grown by one step:
    paths$paths <- nxt_paths
    if(maxlen == 0){
        # the final return when maximum search length reached
        return(paths)
    }else{
        # recursive return, to grow paths further
        return(get_loops(adj, paths, maxlen))
    }
}

adj <- list()
loops <- list()
# the maximum length to limit computation time on large graphs
# maximum could be vcount(graph), but that might take for ages
maxlen <- 4

# creating an adjacency list
for(v in V(g)){
    # for directed graphs use the 'mode' argument of neighbors() 
    # according to your needs ('in', 'out' or 'all')
    adj[[as.numeric(v)]] <- neighbors(g, v)
}

# recursive search of loops 
# for each vertex as candidate starting point
for(start in seq(length(adj))){
    loops <- c(loops, get_loops(adj, list(paths = list(c(start)), 
        loops = list()), maxlen)$loops)
}
0
投票

对于大图和有向图，@ deeenes的答案是正确的，并且是python版本是O.K.，但R版本存在瓶颈，无法复制列表时间和时间再次，我以这种方式修改了性能问题：

# breadth first search of paths and unique loops
get_loops <- function(adj, paths, maxlen) {
  # tracking the actual path length:
  maxlen <- maxlen - 1
  nxt_paths <- list()
  # count of loops and paths in the next step, avoid copying lists that cause        performance bottleneck.
  if (is.null(paths$lc))
    paths$lc <- 0
  paths$pc <- 0
  # iterating over all paths:
  for (path in paths$paths) {
    # iterating neighbors of the last vertex in the path:
    for (nxt in adj[[path[length(path)]]]) {
      # attaching the next vertex to the path:
      nxt_path <- c(path, nxt)
      if (path[1] == nxt & min(path) == nxt) {
        # the next vertex is the starting vertex, we found a loop
        # we keep the loop only if the starting vertex has the
        # lowest vertex id, to avoid having the same loops
        # more than once
        paths$lc <- paths$lc + 1
        paths$loops[paths$lc] <- list(nxt_path)
        # if you don't need the starting vertex included
        # at the end:
        # paths$loops <- c(paths$loops, list(path))
        # cat(paste(paths$loops,collapse=","));cat("\n")
      } else if (!(nxt %in% path)) {
        # keep the path only if we don't create
        # an internal loop in the path
        paths$pc <- paths$pc + 1
        nxt_paths[paths$pc] <- list(nxt_path)
      }
    }
  }
  # paths grown by one step:
  paths$paths <- nxt_paths
  if (maxlen == 0) {
    # the final return when maximum search length reached
    return(paths)
  } else{
    # recursive return, to grow paths further
    return(get_loops(adj, paths, maxlen))
  }
}
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