Mercurial > repos > bornea > plot_edge_bundling

comparison plot_edge_bundling.py @ 1:7dc4b20f5974 draft default tip

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author bornea
date Wed, 18 Oct 2017 15:32:49 -0400
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0:9b42fbe3faba 1:7dc4b20f5974
1 import sys
2 def readTab(infile): # read in txt file
3 with open(infile, 'r') as input_file:
4 # read in tab-delim text
5 output = []
6 for input_line in input_file:
7 input_line = input_line.strip()
8 temp = input_line.split('\t')
9 output.append(temp)
10 return output
11 def network2JSON(node_attr_file,edge_file):
12 nodes = readTab(node_attr_file)
13 edges = readTab(edge_file)
14
15 connections = {}
16 communities = {}
17 for i in nodes[1:]:
18 communities[i[0]] = i[1]
19 for i in nodes[1:]:
20 temp = []
21 for j in edges:
22 if i[0] in j:
23 if i[0] != j[0]:
24 temp.append(str(communities[j[0]]) + "." + str(j[0]))
25 if i[0] != j[1]:
26 temp.append(str(communities[j[1]])+"."+str(j[1]))
27 connections[i[0]] = temp
28 json = "["
29 for i in nodes[1:]:
30 json = json + '{"name":"' + i[1] + '.' + str(i[0]) + '" ,"imports":'+str(connections[i[0]])+'},'
31 json = json[:-1]
32 json = json + "]"
33 json = json.replace("'",'"')
34 return json
35 ############################################
36 top = """<!DOCTYPE html>
37 <meta charset="utf-8">
38 <style>
39
40 .node {
41 font: 300 11px "Arial", Arial, Arial, Arial;
42 fill: #bbb;
43 }
44
45 .node:hover {
46 fill: #d62728;
47 }
48
49 .link {
50 stroke: steelblue;
51 stroke-opacity: .4;
52 fill: none;
53 pointer-events: none;
54 }
55
56 .node:hover,
57 .node--source,
58 .node--target {
59 font-weight: 700;
60 }
61
62 .node--source {
63 fill: black;
64 }
65
66 .node--target {
67 fill: black;
68 }
69
70 .link--source,
71 .link--target {
72 stroke-opacity: 1;
73 stroke-width: 2px;
74 }
75
76 .link--source {
77 stroke: #d62728;
78 }
79
80 .link--target {
81 stroke: #d62728;
82 }
83
84 </style>
85 <body>
86 <script src="http://d3js.org/d3.v3.min.js"></script>
87 <script>
88
89 var diameter = 960,
90 radius = diameter / 2,
91 innerRadius = radius - 120;
92
93 var cluster = d3.layout.cluster()
94 .size([360, innerRadius])
95 .sort(null)
96 .value(function(d) { return d.size; });
97
98 var bundle = d3.layout.bundle();
99
100 var line = d3.svg.line.radial()
101 .interpolate("bundle")
102 .tension(.85)
103 .radius(function(d) { return d.y; })
104 .angle(function(d) { return d.x / 180 * Math.PI; });
105
106 var svg = d3.select("body").append("svg")
107 .attr("width", diameter)
108 .attr("height", diameter)
109 .append("g")
110 .attr("transform", "translate(" + radius + "," + radius + ")");
111
112 var link = svg.append("g").selectAll(".link"),
113 node = svg.append("g").selectAll(".node");"""
114 ############################################
115
116 middle = "\njsondata = '" + network2JSON(sys.argv[1],sys.argv[2]) + "'\n"
117
118 ############################################
119 bottom = """var data = JSON.parse(jsondata);
120 function bundle_edges(classes){
121
122 var nodes = cluster.nodes(packageHierarchy(classes)),
123 links = packageImports(nodes);
124
125 link = link
126 .data(bundle(links))
127 .enter().append("path")
128 .each(function(d) { d.source = d[0], d.target = d[d.length - 1]; })
129 .attr("class", "link")
130 .attr("d", line);
131
132 node = node
133 .data(nodes.filter(function(n) { return !n.children; }))
134 .enter().append("text")
135 .attr("class", "node")
136 .attr("dy", ".31em")
137 .attr("transform", function(d) { return "rotate(" + (d.x - 90) + ")translate(" + (d.y + 8) + ",0)" + (d.x < 180 ? "" : "rotate(180)"); })
138 .style("text-anchor", function(d) { return d.x < 180 ? "start" : "end"; })
139 .text(function(d) { return d.key; })
140 .on("mouseover", mouseovered)
141 .on("mouseout", mouseouted);
142 };
143
144 function mouseovered(d) {
145 node
146 .each(function(n) { n.target = n.source = false; });
147
148 link
149 .classed("link--target", function(l) { if (l.target === d) return l.source.source = true; })
150 .classed("link--source", function(l) { if (l.source === d) return l.target.target = true; })
151 .filter(function(l) { return l.target === d || l.source === d; })
152 .each(function() { this.parentNode.appendChild(this); });
153
154 node
155 .classed("node--target", function(n) { return n.target; })
156 .classed("node--source", function(n) { return n.source; });
157 }
158
159 function mouseouted(d) {
160 link
161 .classed("link--target", false)
162 .classed("link--source", false);
163
164 node
165 .classed("node--target", false)
166 .classed("node--source", false);
167 }
168
169 d3.select(self.frameElement).style("height", diameter + "px");
170
171 // Lazily construct the package hierarchy from class names.
172 function packageHierarchy(classes) {
173 var map = {};
174
175 function find(name, data) {
176 var node = map[name], i;
177 if (!node) {
178 node = map[name] = data || {name: name, children: []};
179 if (name.length) {
180 node.parent = find(name.substring(0, i = name.lastIndexOf(".")));
181 node.parent.children.push(node);
182 node.key = name.substring(i + 1);
183 }
184 }
185 return node;
186 }
187
188 classes.forEach(function(d) {
189 find(d.name, d);
190 });
191
192 return map[""];
193 }
194
195 // Return a list of imports for the given array of nodes.
196 function packageImports(nodes) {
197 var map = {},
198 imports = [];
199
200 // Compute a map from name to node.
201 nodes.forEach(function(d) {
202 map[d.name] = d;
203 });
204
205 // For each import, construct a link from the source to target node.
206 nodes.forEach(function(d) {
207 if (d.imports) d.imports.forEach(function(i) {
208 imports.push({source: map[d.name], target: map[i]});
209 });
210 });
211
212 return imports;
213 }
214 bundle_edges(data);
215 </script>"""
216 ############################################
217 with open(sys.argv[3],"w") as x:
218 x.write(top + middle + bottom)