python - networkx - 根据列表或字典值更改节点大小

Question

我正在尝试在 networkx 中制作图表。我无法为节点分配不同的节点大小。

这是我一直在玩的代码:

import sys
from collections import defaultdict
import networkx as nx
import matplotlib.pyplot as plt

inp = sys.argv[1]
cluster = sys.argv[1] + ".cluster"
counts = sys.argv[1] + ".counts"

with open(cluster, "r") as f1:
        edges = [line.strip().split('\t') for line in f1]

with open(counts, "r") as f2:
        countsdic = defaultdict(list)
        for line in f2:
                k,v = line.strip().split()
                countsdic[k].append(v)

tmp = []

for el in sum(edges, []):
        tmp.append(el)

nodes = []

for t in tmp:
        if t not in nodes:
                nodes.append(t)

node_sizes = {}
for n in nodes:
        node_sizes[n] = ' '.join(countsdic[n])
print node_sizes

nodes2 = []
sizes = []
for k in node_sizes.keys():
        nodes2.append(k)
for v in node_sizes.values():
        sizes.append(v)
print nodes2
print len(nodes2)
print sizes
print len(sizes)
g = nx.Graph()
g.add_nodes_from(nodes)
g.add_edges_from(edges)

nx.draw_random(g, node_list = nodes2, node_size = sizes)

# I've also tried assigning node_list and node_size with node_sizes.keys() and node_sizes.values()

plt.savefig(inp + "." + gtype + ".png")
plt.show()

如果我不尝试更改节点大小，我会得到一个相当不错的图表。字典值介于 1 和 10 之间，有一些高值，如 156，我需要将其设置为最大，因此我需要执行以下操作:node_sizes = [n*100 for n in sizes] 对于较小的值至 at最少出现在图表上，较大的值显得相关，但这也不起作用。

我得到的错误是:

Exception in Tkinter callback
Traceback (most recent call last):
  File "/usr/lib/python2.7/lib-tk/Tkinter.py", line 1489, in __call__
    return self.func(*args)
  File "/usr/lib/pymodules/python2.7/matplotlib/backends/backend_tkagg.py", line 276, in resize
    self.show()
  File "/usr/lib/pymodules/python2.7/matplotlib/backends/backend_tkagg.py", line 348, in draw
    FigureCanvasAgg.draw(self)
  File "/usr/lib/pymodules/python2.7/matplotlib/backends/backend_agg.py", line 451, in draw
    self.figure.draw(self.renderer)
  File "/usr/lib/pymodules/python2.7/matplotlib/artist.py", line 55, in draw_wrapper
    draw(artist, renderer, *args, **kwargs)
  File "/usr/lib/pymodules/python2.7/matplotlib/figure.py", line 1034, in draw
    func(*args)
  File "/usr/lib/pymodules/python2.7/matplotlib/artist.py", line 55, in draw_wrapper
    draw(artist, renderer, *args, **kwargs)
  File "/usr/lib/pymodules/python2.7/matplotlib/axes.py", line 2086, in draw
    a.draw(renderer)
  File "/usr/lib/pymodules/python2.7/matplotlib/artist.py", line 55, in draw_wrapper
    draw(artist, renderer, *args, **kwargs)
  File "/usr/lib/pymodules/python2.7/matplotlib/collections.py", line 717, in draw
    for x in self._sizes]
TypeError: Not implemented for this type

经过几个小时的谷歌搜索，我无法解决这个问题。这是在不更改节点大小的情况下生成的:

感谢所有评论和帮助。

Answer 1

2014/07/08 12:29PM:已更新以反射(reflect)@user3358205 的评论

问题是 drawing functions in NetworkX要求 node_sizes 作为 int 的 list 输入，而您传递的是 list 字符串。你可以read the parameters to the drawing functions here .

因为我没有您程序的输入文件，所以无法重现您的输出。但是，在下面的示例中，您通过传递 node_sizes 的 list 来改变节点的大小。请注意，在输出中，我按每个节点的大小标记了它们。

import sys, networkx as nx, matplotlib.pyplot as plt

# Create a list of 10 nodes numbered [0, 9]
nodes = range(10)
node_sizes = []
labels = {}
for n in nodes:
        node_sizes.append( 100 * n )
        labels[n] = 100 * n

# Node sizes: [0, 100, 200, 300, 400, 500, 600, 700, 800, 900]

# Connect each node to its successor
edges = [ (i, i+1) for i in range(len(nodes)-1) ]

# Create the graph and draw it with the node labels
g = nx.Graph()
g.add_nodes_from(nodes)
g.add_edges_from(edges)

nx.draw_random(g, node_size = node_sizes, labels=labels, with_labels=True)    
plt.show()