java .gml格式_NetworkX之输入文件GML「建议收藏」

之前看过networkx,igraph都说支持GML格式文件输入形式，直到今天想再Nepidemix load进文件进行分析，发现Nepidemix　对load输入文件要求是GML和gpickle，其余的不支持。所以查阅了下GML究竟是什么。

GML(Graph Modelling Language):

There are many different programs that work with graphs but almost all of them use their own file format. As a consequence, exchanging graphs between different programs is almost impossible. Simple tasks like exchange of data, externally reproducible results or a common benchmark suite are much harder than neccessary.

Therefore, we have developed a new file format for the Graphlet system: GML. GML supports attaching arbitrary information to graphs, nodes and edges, and is therefore able to emulate almost every other format.

原文链接 可以看出GML 是网络数据的一个统一标准，相当于度量衡的作用。GML支持关于图，点，边的任意数据的附加，因此可以仿真任意格式的数据。

networkx 提供了函数 可以读GML格式的数据 或者将你load进去的普通网络转换成GML格式的文件。链接请click

read_gml(path,[,encoding, relabel]) 读GML

write_gml(G,path)写网络G进GML文件

parse_gml(lines[,relael]) 从字符串中解析GML图

generate_gml(G) Generate a single entry of the graph G in GML format

举个栗子：

我的原始数据是这样，存在一个GML.txt里

a 1

a 2

b 1

c 2

d 3

b 3

这样构成了一个二分网络，我想提取出第二列网络，即投影。然后将第二列数据的投影网络，用GML数据保

代码：

G = nx.Graph()

f = open(‘GML.txt’)

i = 0

for line in f:

i = i+1

print i

cell = line.split()

G.add_edge(cell[0],cell[1])

f.close()

NSet = nx.bipartite.sets(G)

User = nx.project(G,NSet[1])

nx.write_gml(User,’Project_Gml’)

结果：投影的GML文件是这样：

graph [

node [

id 0

label “1”

]

node [

id 1

label “3”

]

node [

id 2

label “2”

]

edge [

source 0

target 1

]

edge [

source 0

target 2

]

]