__init__.py 6.25 KB
Newer Older
Tiago Peixoto's avatar
Tiago Peixoto committed
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
#! /usr/bin/env python
# graph_tool.py -- a general graph manipulation python module
#
# Copyright (C) 2007 Tiago de Paula Peixoto <tiago@forked.de>
#
# 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 3 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program.  If not, see <http://www.gnu.org/licenses/>.

19
import sys,os,time
Tiago Peixoto's avatar
Tiago Peixoto committed
20
21
22
23
24
25
26
27
28
29
30
import matplotlib.cm
import matplotlib.colors
from .. core import _degree, _prop, PropertyMap
from .. decorators import _limit_args
import gv

def graph_draw(g, pos=None, size=(15,15), pin=False, layout="neato",
               maxiter=None, ratio="fill", overlap=False, splines=False,
               mode="ipsep", penwidth=1.0, eweight=None, ewidth=None, gprops={},
               vprops={}, eprops={}, vcolor=None, ecolor=None,
               vcmap=matplotlib.cm.jet, vnorm=True, ecmap=matplotlib.cm.jet,
31
               enorm=True, output=None, output_format=None, seed=0):
Tiago Peixoto's avatar
Tiago Peixoto committed
32
33
34
35
36
37
38
39
40
41
    """Draw a graph using graphviz."""

    if g.is_directed():
        gvg = gv.digraph("G")
    else:
        gvg = gv.graph("G")

    # main graph properties
    gv.setv(gvg,"outputorder", "edgesfirst")
    gv.setv(gvg,"mode", mode)
42
43
44
45
46
47
48
49
    if overlap == False:
        if layout == "neato" and mode == "ipsep":
            overlap = "ipsep"
        else:
            overlap = "false"
    else:
        overlap = "true"
    if isinstance(overlap,str):
Tiago Peixoto's avatar
Tiago Peixoto committed
50
51
52
53
54
55
56
        gv.setv(gvg,"overlap", overlap)
    if splines:
        gv.setv(gvg,"splines", "true")
    gv.setv(gvg,"ratio", str(ratio))
    gv.setv(gvg,"size", "%f,%f" % (size[0]/2.54,size[0]/2.54)) # centimeters
    if maxiter != None:
        gv.setv(gvg,"maxiter", str(maxiter))
57
    gv.setv(gvg,"start", str(seed if seed > 0 else time.time()))
Tiago Peixoto's avatar
Tiago Peixoto committed
58
59

    # apply all user supplied properties
60
    for k,val in gprops.iteritems():
Tiago Peixoto's avatar
Tiago Peixoto committed
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
        if isinstance(val, PropertyMap):
            gv.setv(gvg, k, str(val[g]))
        else:
            gv.setv(gvg, k, str(val))

    # normalize color properties
    if vcolor != None and not isinstance(vcolor, str):
        minmax = [float("inf"), -float("inf")]
        for v in g.vertices():
            c = vcolor[v]
            minmax[0] = min(c,minmax[0])
            minmax[1] = max(c,minmax[1])
        print minmax
        if vnorm:
            vnorm = matplotlib.colors.normalize(vmin=minmax[0], vmax=minmax[1])

    if ecolor != None and not isinstance(ecolor, str):
        minmax = [float("inf"), -float("inf")]
        for e in g.edges():
            c = ecolor[v]
            minmax[0] = min(c,minmax[0])
            minmax[1] = max(c,minmax[1])
        if enorm:
            enorm = matplotlib.colors.normalize(vmin=minmax[0], vmax=minmax[1])

    nodes = []
    edges = []

    # add nodes
    for v in g.vertices():
        n = gv.node(gvg,str(g.vertex_index[v]))
        gv.setv(n, "width", "0.1")
        gv.setv(n, "height", "0.1")
        gv.setv(n, "height", "0.1")
        gv.setv(n, "style", "filled")
        gv.setv(n, "color", "black")
        # apply color
        if vcolor != None:
            if isinstance(vcolor,str):
                gv.setv(n, "fillcolor", vcolor)
            else:
                color = tuple([int(c*255.0) for c in vcmap(vnorm(vcolor[v]))])
                gv.setv(n, "fillcolor", "#%.2x%.2x%.2x%.2x" % color)
        else:
            gv.setv(n, "fillcolor", "red")
        gv.setv(n, "label", "")

        # user supplied position
        if pos != None:
            gv.setv(n, "pos", "%f,%f" % (pos[0][v],pos[1][v]))
            gv.setv(n, "pin", str(pin))

        # apply all user supplied properties
114
        for k,val in vprops.iteritems():
Tiago Peixoto's avatar
Tiago Peixoto committed
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
            if isinstance(val, PropertyMap):
                gv.setv(n, k, str(val[v]))
            else:
                gv.setv(n, k, str(val))
        nodes.append(n)
    for e in g.edges():
        ge = gv.edge(nodes[g.vertex_index[e.source()]],
                     nodes[g.vertex_index[e.target()]])
        gv.setv(ge, "arrowsize", "0.3")
        gv.setv(ge, "arrowhead", "vee")
        # apply color
        if ecolor != None:
            if isinstance(ecolor,str):
                gv.setv(ge, "color", ecolor)
            else:
                color = tuple([int(c*255.0) for c in ecmap(enorm(ecolor[e]))])
                gv.setv(ge, "color", "#%.2x%.2x%.2x%.2x" % color)

        # apply weight
        if eweight != None:
            if isinstance(eweight, PropertyMap):
                gv.setv(ge, "weight", str(eweight[e]))
            else:
                gv.setv(ge, "weight", str(eweight))

        # apply width
        if ewidth != None:
            if isinstance(ewidth, PropertyMap):
                gv.setv(ge, "penwidth", str(ewidth[e]))
            else:
                gv.setv(ge, "penwidth", str(ewidth))

        # apply all user supplied properties
148
        for k,v in eprops.iteritems():
Tiago Peixoto's avatar
Tiago Peixoto committed
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
            if isinstance(v, PropertyMap):
                gv.setv(ge, k, str(v[e]))
            else:
                gv.setv(ge, k, str(v))
        edges.append(ge)

    gv.layout(gvg, layout)
    gv.render(gvg, "dot", "/dev/null") # retrieve postitions

    if pos == None:
        pos = (g.new_vertex_property("double"), g.new_vertex_property("double"))
    for n in xrange(0, len(nodes)):
        p = gv.getv(nodes[n], "pos")
        p = p.split(",")
        pos[0][g.vertex(n)] = float(p[0])
        pos[1][g.vertex(n)] = float(p[1])
    if output == None:
        output = ""
        output_format = "xlib"
    elif output_format == None:
        outout_format = output.split(".")[-1]

    # if using xlib we need to fork the process, otherwise good ol' graphviz
    # will call exit() when the window is closed
    if output_format == "xlib":
        pid = os.fork()
        if pid == 0:
            gv.render(gvg, output_format, output)
            sys.exit(1) # since we forked, it's good to be sure
        os.wait()
    else:
        gv.render(gvg, output_format, output)
    gv.rm(gvg)
    return pos