本文整理汇总了Python中exp.viroscopy.model.HIVGraph.HIVGraph.subgraph方法的典型用法代码示例。如果您正苦于以下问题：Python HIVGraph.subgraph方法的具体用法？Python HIVGraph.subgraph怎么用？Python HIVGraph.subgraph使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类exp.viroscopy.model.HIVGraph.HIVGraph的用法示例。
在下文中一共展示了HIVGraph.subgraph方法的2个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Python代码示例。
示例1: HIVGraphMetricsProfile
# 需要导入模块: from exp.viroscopy.model.HIVGraph import HIVGraph [as 别名]
# 或者: from exp.viroscopy.model.HIVGraph.HIVGraph import subgraph [as 别名]
class HIVGraphMetricsProfile():
def __init__(self):
#Total number of people in population
self.M = 1000
numInitialInfected = 5
#The graph is one in which edges represent a contact
undirected = True
self.graph = HIVGraph(self.M, undirected)
for i in range(self.M):
vertex = self.graph.getVertex(i)
#Set the infection time of a number of individuals to 0
if i < numInitialInfected:
vertex[HIVVertices.stateIndex] = HIVVertices.infected
p = 0.01
generator = ErdosRenyiGenerator(p)
self.graph = generator.generate(self.graph)
perm1 = numpy.random.permutation(self.M)
perm2 = numpy.random.permutation(self.M)
sizes = [200, 300, 500, 1000]
self.summary1 = []
self.summary2 = []
for size in sizes:
self.summary1.append(self.graph.subgraph(perm1[0:size]))
self.summary2.append(self.graph.subgraph(perm2[0:int(size/10)]))
print(self.graph)
def profileDistance(self):
times = numpy.arange(len(self.summary1))
#metrics = HIVGraphMetrics2(times, GraphMatch("RANK"))
metrics = HIVGraphMetrics2(times, GraphMatch("U"))
#Can try RANK and Umeyama algorithm - Umeyama is faster
self.summary2 = self.summary2[0:2]
ProfileUtils.profile('metrics.distance(self.summary1, self.summary2)', globals(), locals())示例2: testAddGraph
# 需要导入模块: from exp.viroscopy.model.HIVGraph import HIVGraph [as 别名]
# 或者: from exp.viroscopy.model.HIVGraph.HIVGraph import subgraph [as 别名]
def testAddGraph(self):
epsilon = 0.12
metrics = HIVGraphMetrics2(self.graph, epsilon)
metrics.addGraph(self.graph)
self.assertEquals(metrics.dists[0], 0.0)
self.assertEquals(metrics.meanDistance(), 0.0)
#Start a new graph
#Compute distances directly
matcher = GraphMatch("U")
graph = HIVGraph(self.graph.size)
dists = []
metrics = HIVGraphMetrics2(self.graph, epsilon)
graph.vlist.setInfected(1, 0.0)
graph.vlist.setDetected(1, 0.1, 0)
metrics.addGraph(graph)
t = graph.endTime()
subgraph1 = graph.subgraph(graph.removedIndsAt(t))
subgraph2 = self.graph.subgraph(graph.removedIndsAt(t))
permutation, distance, time = matcher.match(subgraph1, subgraph2)
lastDist = matcher.distance(subgraph1, subgraph2, permutation, True, True)
self.assertEquals(metrics.dists[-1], lastDist)
self.assertTrue(metrics.shouldBreak())
graph.vlist.setInfected(2, 2.0)
graph.vlist.setDetected(2, 2.0, 0)
metrics.addGraph(graph)
t = graph.endTime()
subgraph1 = graph.subgraph(graph.removedIndsAt(t))
subgraph2 = self.graph.subgraph(graph.removedIndsAt(t))
permutation, distance, time = matcher.match(subgraph1, subgraph2)
lastDist = matcher.distance(subgraph1, subgraph2, permutation, True, True)
self.assertEquals(metrics.dists[-1], lastDist)
self.assertTrue(metrics.shouldBreak())
graph.vlist.setInfected(7, 3.0)
graph.vlist.setDetected(7, 3.0, 0)
metrics.addGraph(graph)
t = graph.endTime()
subgraph1 = graph.subgraph(graph.removedIndsAt(t))
subgraph2 = self.graph.subgraph(graph.removedIndsAt(t))
permutation, distance, time = matcher.match(subgraph1, subgraph2)
lastDist = matcher.distance(subgraph1, subgraph2, permutation, True, True)
self.assertEquals(metrics.dists[-1], lastDist)
self.assertFalse(metrics.shouldBreak())
#Test case where one graph has zero size
graph1 = HIVGraph(10)
graph2 = HIVGraph(10)
graph1.vlist[:, HIVVertices.stateIndex] = HIVVertices.removed
metrics = HIVGraphMetrics2(graph2, epsilon)
metrics.addGraph(graph1)
#Problem is that distance is 1 when one graph is zero
self.assertEquals(len(metrics.dists), 0)