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# -*- coding: utf-8 -*-
##############################################################################
#
# Copyright (c) 2003-2018 by The University of Queensland
# http://www.uq.edu.au
#
# Primary Business: Queensland, Australia
# Licensed under the Apache License, version 2.0
# http://www.apache.org/licenses/LICENSE-2.0
#
# Development until 2012 by Earth Systems Science Computational Center (ESSCC)
# Development 2012-2013 by School of Earth Sciences
# Development from 2014 by Centre for Geoscience Computing (GeoComp)
#
##############################################################################
from __future__ import print_function, division
__copyright__="""Copyright (c) 2003-2018 by The University of Queensland
http://www.uq.edu.au
Primary Business: Queensland, Australia"""
__license__="""Licensed under the Apache License, version 2.0
http://www.apache.org/licenses/LICENSE-2.0"""
__url__="https://launchpad.net/escript-finley"
import esys.escriptcore.utestselect as unittest
from esys.escriptcore.testing import *
from esys.escript.modelframe import Model,Link,Simulation,ParameterSet,ESySXMLParser,DataSource
import math
from io import StringIO
from xml.dom import minidom
import numpy
import sys
class XMLDocumentTestCase(unittest.TestCase):
def setUp(self):
o1=ODETEST(debug=False)
o1.u=10
o2=ODETEST(debug=False)
o2.u=-10.
o1.f=Link(o2,"u")
o2.f=Link(o1,"u")
m=Messenger()
o1.dt=0.01
m.message=Link(o1)
s=Simulation([o1,o2,m],debug=False)
s.run()
output = StringIO()
s.writeXML(output)
output.seek(0)
outputList = output.readlines()
self.xmlList = outputList
def testFirstLine(self):
firstLine = self.xmlList[0]
self.assertEqual('<?xml version="1.0" ?>\n', firstLine)
def testEsysHeader(self):
header = self.xmlList[1]
self.assertEqual('<ESys>\n', header)
def testEsysFooter(self):
footer = self.xmlList[-1]
self.assertEqual('</ESys>\n', footer)
def testSimulationHeader(self):
pass
def testSimulationFooter(self):
pass
class SimulationTestCase(unittest.TestCase):
def setUp(self):
o1=ODETEST(debug=False)
o1.u=10
o2=ODETEST(debug=False)
o2.u=-10.
o1.f=Link(o2,"u")
o2.f=Link(o1,"u")
m=Messenger()
o1.dt=0.01
m.message=Link(o1)
self.s=Simulation([o1,o2,m],debug=False)
self.s.run()
output = StringIO()
self.s.writeXML(output)
output.seek(0)
self.xml = output.read()
def testSimulation(self):
assert "<Simulation" in self.xml, "I should see a Simulation"
def testParseAndInstanceOfSimulation(self):
xml = ESySXMLParser(self.xml)
newSim = xml.parse()[0]
assert isinstance(newSim, Simulation)
newout = StringIO()
newSim.writeXML(newout)
newout.seek(0)
xml = newout.read()
assert '<Simulation' in xml, "Missing a Simulation! It should be in this!"
class Test_LinkTestCase(unittest.TestCase):
def setUp(self):
self.o1=ODETEST(debug=False)
#self.o1.u=10
self.o2=ODETEST(debug=False)
self.o2.u=-10.
self.o1.f=Link(self.o2,"u")
self.o2.f=Link(self.o1,"u")
self.o2.declareParameter(child=self.o1)
def testLinkCreation(self):
self.o1.f=Link(self.o2,"u")
assert self.o1.f
def testLinkValue(self):
self.assertEqual(self.o1.f, -10)
def testLinkTarget(self):
pass
def testLinkDefaultAttribute(self):
Link(self.o2)
def testLinkXML(self):
s = StringIO()
self.o2.writeXML(s)
s.seek(0)
xmlout = s.read()
assert '<Link' in xmlout
def testLinkTargetXML(self):
pass
class Test_ParameterSetTestCase(unittest.TestCase):
def setUp(self):
self.p = ParameterSet()
self.p.declareParameter(gamma1=1.,gamma2=2.,gamma3=3.)
def testParameterSetCreation(self):
self.assertEqual(self.p.gamma1, 1.)
def testParameterSetXMLCreation(self):
s = StringIO()
self.p.writeXML(s)
s.seek(0)
xmlout = s.read()
assert ("gamma1" in xmlout)
assert ("gamma2" in xmlout)
assert ("gamma3" in xmlout)
esysxml=ESySXMLParser(xmlout)
parsable = esysxml.parse()[0]
assert (isinstance (parsable, ParameterSet))
assert (self._dom(self.p).getElementsByTagName("ParameterSet"))
def testParameterSetFromXML(self):
s = StringIO()
self.p.writeXML(s)
s.seek(0)
xmlout = s.read()
esysxml=ESySXMLParser(xmlout)
doc = self._class(self.p)
pset = ParameterSet.fromDom(esysxml, self._dom(self.p).getElementsByTagName("ParameterSet")[0])
assert (isinstance(pset, ParameterSet))
assert (isinstance(doc, ParameterSet))
self.assertEqual(self.p.gamma1,doc.gamma1)
def testParameterSetWithChildrenFromXML(self):
p2 = ParameterSet()
p2.declareParameter(s="abc", f=3.)
self.p.declareParameter(child=p2)
doc = self._class(self.p)
#pset = ParameterSet.fromDom(doc.getElementsByTagName("ParameterSet")[0])
self.assertEqual(self.p.child.f, doc.child.f)
def testParameterSetChild(self):
p2 = ParameterSet()
p2.declareParameter(s="abc", f=3.)
self.p.declareParameter(child=p2)
self.assertEqual(self.p.child.s, "abc")
self.assertEqual(self.p.child.f, 3.)
def _dom(self, input):
s = StringIO()
input.writeXML(s)
s.seek(0)
xmlout = s.read()
doc = minidom.parseString(xmlout)
return doc
def _class(self, input):
s = StringIO()
input.writeXML(s)
s.seek(0)
xmlout = s.read()
esysxml=ESySXMLParser(xmlout)
doc =esysxml.parse()[0]
return doc
def testFromDomInt(self):
p3 = ParameterSet()
p3.declareParameter(inttest=1)
doc = self._class(p3)
assert type(doc.inttest)==int
def testFromDomNumarrayVector(self):
p3 = ParameterSet()
mynumpy = numpy.array([3., 4., 5.], dtype=numpy.float64)
p3.declareParameter(numtest=mynumpy)
doc = self._class(p3)
assert doc.numtest.dtype == numpy.float64
assert type(doc.numtest) == numpy.ndarray
def testFromDomNumarrayMulti(self):
p3 = ParameterSet()
mynumpy = numpy.array([[1., 2., 3.], [3., 4., 5.]], dtype=numpy.float64)
p3.declareParameter(numtest=mynumpy)
doc = self._class(p3)
assert doc.numtest.dtype == numpy.float64
assert type(doc.numtest) == numpy.ndarray
def testBoolLists(self):
p4 = ParameterSet()
mylist = [True, False, False, True]
p4.declareParameter(listest=mylist)
doc = self._class(p4)
assert type(doc.listest) == numpy.ndarray
assert doc.listest.dtype == numpy.bool_
assert len(doc.listest) == len(mylist)
assert min([ mylist[i] == doc.listest[i] for i in range(len( doc.listest)) ])
def testIntLists(self):
p4 = ParameterSet()
mylist = [1,2,4]
p4.declareParameter(listest=mylist)
doc = self._class(p4)
assert type(doc.listest) == numpy.ndarray
assert doc.listest.dtype == numpy.int_
assert len(doc.listest) == len(mylist)
assert min([ mylist[i] == doc.listest[i] for i in range(len( doc.listest)) ])
def testFloatLists(self):
p4 = ParameterSet()
mylist = [1.,2.,4.]
p4.declareParameter(listest=mylist)
doc = self._class(p4)
assert type(doc.listest) == numpy.ndarray
assert doc.listest.dtype == numpy.float_
assert len(doc.listest) == len(mylist)
assert min([ mylist[i] == doc.listest[i] for i in range(len( doc.listest)) ])
def testStringLists(self):
p4 = ParameterSet()
mylist = ["a", "b", "c"]
p4.declareParameter(listest=mylist)
doc = self._class(p4)
assert type(doc.listest) == list
assert len(doc.listest) == len(mylist)
assert min([ mylist[i] == doc.listest[i] for i in range(len( doc.listest)) ])
def testDatasource(self):
p5 = ParameterSet()
myURI = DataSource("somelocalfile.txt", "text")
p5.declareParameter(uritest=myURI)
doc = self._class(p5)
self.assertEqual(myURI.uri, doc.uritest.uri)
self.assertEqual(myURI.fileformat, doc.uritest.fileformat)
assert type(doc.uritest) == DataSource
class Test_ModeltoDomTestCase(unittest.TestCase):
def _class(self):
# returns a modelframe class, generated from the xml
s = StringIO()
self.o1.writeXML(s)
s.seek(0)
self.xmlout = s.read()
esysxml=ESySXMLParser(self.xmlout)
doc =esysxml.parse()[0]
return doc
def _dom(self):
# returns a minidom dom element, generated from the xml
s = StringIO()
self.o1.writeXML(s)
s.seek(0)
self.xmlout = s.read()
doc = minidom.parseString(self.xmlout)
return doc
def setUp(self):
self.o1=ODETEST(debug=False)
self.o1.message='blah'
def testModelExists(self):
modeldoc = self._class()
assert isinstance(modeldoc, Model)
assert self._dom().getElementsByTagName("Model")
def testModelhasID(self):
assert int(self._dom().getElementsByTagName("Model")[0].getAttribute("id"))>99
class ModeltoDomTestCase(unittest.TestCase):
def _xml(self, modulename, modelname):
# returns a modelframe class, generated from the xml
return '''<?xml version="1.0" ?>
<ESys> <Simulation type="Simulation"> <Component rank="0">
<Model id="127" module="%s" type="%s">
<Parameter type="float"> <Name> a </Name> <Value> 0.9 </Value> </Parameter>
<Parameter type="Link"> <Name> f </Name> <Value> <Link> <Target> 128 </Target>
<Attribute> u </Attribute> </Link> </Value> </Parameter> <Parameter
type="float"> <Name> tend </Name> <Value>
1.0 </Value> </Parameter> <Parameter type="int"> <Name> u </Name> <Value> 10
</Value> </Parameter> <Parameter type="float"> <Name> tol </Name> <Value>
1e-08 </Value> </Parameter> <Parameter type="float"> <Name> dt </Name>
<Value>
0.01 </Value> </Parameter> <Parameter type="str"> <Name> message </Name>
<Value> current error = 9.516258e-01 </Value> </Parameter> </Model>
</Component> <Component rank="1"> <Model id="128" type="ODETEST"> <Parameter
type="float"> <Name> a </Name> <Value>
0.9 </Value> </Parameter> <Parameter type="Link"> <Name> f </Name> <Value>
<Link> <Target> 127 </Target> <Attribute> u </Attribute> </Link> </Value>
</Parameter> <Parameter type="float"> <Name> tend </Name> <Value>
1.0 </Value> </Parameter> <Parameter type="float"> <Name> u </Name> <Value>
-10.0 </Value> </Parameter> <Parameter type="float"> <Name> tol </Name>
<Value> 1e-08 </Value> </Parameter> <Parameter type="float"> <Name> dt
</Name> <Value>
0.1 </Value> </Parameter> <Parameter type="str"> <Name> message </Name> <Value>
current error = 1.904837e+01 </Value> </Parameter> </Model> </Component>
<Component rank="2"> <Model id="129" type="Messenger"> <Parameter
type="Link"> <Name> message </Name> <Value> <Link> <Target> 127 </Target>
<Attribute> message </Attribute> </Link> </Value> </Parameter> </Model>
</Component> </Simulation> <Model id="150" type="ODETEST"> <Parameter
type="float"> <Name> a </Name> <Value>
0.9 </Value> </Parameter> <Parameter type="Link"> <Name> f </Name> <Value>
<Link> <Target> 127 </Target> <Attribute> u </Attribute> </Link> </Value>
</Parameter> <Parameter type="float"> <Name> tend </Name> <Value>
1.0 </Value> </Parameter> <Parameter type="float"> <Name> u </Name> <Value>
-10.0 </Value> </Parameter> <Parameter type="float"> <Name> tol </Name>
<Value> 1e-08 </Value> </Parameter> <Parameter type="float"> <Name> dt
</Name> <Value>
0.1 </Value> </Parameter> <Parameter type="str"> <Name> message </Name> <Value>
current error = 1.904837e+01 </Value> </Parameter> </Model> <Model id="130"
type="ODETEST"> <Parameter type="float"> <Name> a </Name> <Value>
0.9 </Value> </Parameter> <Parameter type="Link"> <Name> f </Name> <Value>
<Link> <Target> 128 </Target> <Attribute> u </Attribute> </Link> </Value>
</Parameter> <Parameter type="float"> <Name> tend </Name> <Value>
1.0 </Value> </Parameter> <Parameter type="int"> <Name> u </Name> <Value> 10
</Value> </Parameter> <Parameter type="float"> <Name> tol </Name> <Value>
1e-08 </Value> </Parameter> <Parameter type="float"> <Name> dt </Name>
<Value>
0.01 </Value> </Parameter> <Parameter type="str"> <Name> message </Name>
<Value> current error = 9.516258e-01 </Value> </Parameter> </Model> <Model
id="170" type="ODETEST"> <Parameter type="float"> <Name> a </Name> <Value>
0.9 </Value> </Parameter> <Parameter type="Link"> <Name> f </Name> <Value>
<Link> <Target> 128 </Target> <Attribute> u </Attribute> </Link> </Value>
</Parameter> <Parameter type="float"> <Name> tend </Name> <Value>
1.0 </Value> </Parameter> <Parameter type="int"> <Name> u </Name> <Value> 10
</Value> </Parameter> <Parameter type="float"> <Name> tol </Name> <Value>
1e-08 </Value> </Parameter> <Parameter type="float"> <Name> dt </Name>
<Value>
0.01 </Value> </Parameter> <Parameter type="str"> <Name> message </Name>
<Value> current error = 9.516258e-01 </Value> </Parameter> </Model> </ESys>
''' % (modulename, modelname)
def testModuleAttribute(self):
esysxml=ESySXMLParser(self._xml('run_xml', 'ODETEST'))
modeldoc=esysxml.parse()[0]
def testModuleAttributeFails(self):
try:
esysxml=ESySXMLParser(self._xml('a', 'b'))
modeldoc=esysxml.parse()[0]
except ImportError:
return # correct
assert False, "This test should have resulted in an ImportError"
class Messenger(Model):
def __init__(self, *args, **kwargs):
Model.__init__(self, *args, **kwargs)
self.declareParameter(message="none")
def doInitialization(self):
self.__t=0
#print "I start talking now!"
def doStepPostprocessing(self,dt):
self.__t+=dt
#print "Message (time %e) : %s "%(self.__t,self.message)
def doFinalization(self):
#print "I have no more to say!"
pass
class ODETEST(Model):
""" implements a solver for the ODE
du/dt=a*u+f(t)
we use a implicit euler scheme :
u_n-u_{n-1}= dt*a u_n + st*f(t_n)
to get u_n we run an iterative process
u_{n.k}=u_{n-1}+dt*(a u_{n.i-1} + f(t_n))
input for this model are step size dt, end time tend and a value for
a, f and initial value for u. we need also a tolerance tol for a
stopping criterion.
"""
def __init__(self, *args, **kwargs):
Model.__init__(self, *args, **kwargs)
self.declareParameter(tend=1.,dt=0.1,a=0.9,u=10.,f=0.,message="",tol=1.e-8)
def doInitialization(self):
self.__tn=0
self.__iter=0
def doStepPreprocessing(self,dt):
self.__iter=0
self.__u_last=self.u
def doStep(self,dt):
self.__iter+=1
self.__u_old=self.u
self.u=self.__u_last+dt*(self.a*self.__u_old+self.f)
def terminate(self):
if self.__iter<1:
return False
else:
return abs(self.__u_old-self.u)<self.tol*abs(self.u)
def doStepPostprocessing(self,dt):
self.__tn+=dt
self.message="current error = %e"%abs(self.u-10.*math.exp((self.a-1.)*self.__tn))
def getSafeTimeStepSize(self,dt):
return min(self.dt,1./(abs(self.a)+1.))
def finalize(self):
return self.__tn>=self.tend
if __name__ == '__main__':
run_tests(__name__, exit_on_failure=True)
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