def setGetNumberOfPoints(testId):
print string.ljust("Check " + testId, rpadding),
errorFlag = False
value = random.randint(1, 100)
rrPython.setNumPoints(value)
if rrPython.getNumPoints() != value:
errorFlag = True
print passMsg(errorFlag)
def setGetNumberOfPoints(testId):
print string.ljust ("Check " + testId, rpadding),
errorFlag = False
value = random.randint (1, 100)
rrPython.setNumPoints (value)
if rrPython.getNumPoints () != value:
errorFlag = True
print passMsg (errorFlag)
import rrPython
import os
modelPath = ('C:\\roadRunner\\models\\feedback.xml')
sbml = rrPython.loadSBMLFromFile(modelPath)
rrPython.setTimeStart(0.0)
rrPython.setTimeEnd(3.0)
rrPython.setNumPoints(20)
rrPython.setSteadyStateSelectionList("time S1 S2 S3 S4")
results = rrPython.simulate()
print results
import rrPython
import timeit
import cmd
modelPath = raw_input('Model location: (C:\\RoadRunner\\Models\\feedback.xml, etc.)')
rrPython.loadSBMLFromFile(modelPath)
simulations = raw_input('Number of simulations:')
start_Time = raw_input('Start time:')
start_Time = float(start_Time)
end_Time = raw_input('End time:')
end_Time = float(end_Time)
number_of_points = raw_input('Number of points:')
number_of_points = int(number_of_points)
simulations = int(simulations)
rrPython.setTimeStart(start_Time)
rrPython.setTimeEnd(end_Time)
rrPython.setNumPoints(number_of_points)
t = timeit.Timer('rrPython.simulate()','import rrPython')
totalTime = t.timeit(number = simulations)
meanTime = totalTime/simulations
print 'Average simulation time: ' + str(meanTime) + ' seconds'
import rrPython
import os
import csv
os.chdir('C:\\RoadRunner\\bin')
function = 'setNumPoints'
rrPython.loadSBMLFromFile('C:\\RoadRunner\\Models\\feedback.xml')
try:
points = rrPython.setNumPoints(10)
if str(points) is not False:
result = 'True'
else:
result = 'False'
except:
result = 'False'
PythonTestResults = open('C:\\RoadRunner\\PythonTestResults.csv','a')
writer = csv.writer(PythonTestResults)
writevar = function + '=' + result
writer.writerow([writevar])
PythonTestResults.close()
import rrPython
import os
modelPath = ('C:\\roadRunner\\models\\feedback.xml')
sbml = rrPython.loadSBMLFromFile(modelPath)
rrPython.setTimeStart(0.0)
rrPython.setTimeEnd(3.0)
rrPython.setNumPoints(20)
rrPython.setSteadyStateSelectionList("time S1 S2 S3 S4")
results = rrPython.simulate()
print results
import os
import rrPython
print 'RoadRunner Build Date: ' + rrPython.getCopyright()
startTime = 0
endTime = 5
numPoints = 50
selList="time,S1,S2"
result = rrPython.loadSBMLFromFile("..\\Models\\test_1.xml")
rrPython.setTimeStart(startTime)
rrPython.setTimeEnd(endTime)
rrPython.setNumPoints(numPoints)
rrPython.setTimeCourseSelectionList(selList)
k = rrPython.simulate()
print k
print "done"
import rrPython
import timeit
import cmd
modelPath = raw_input(
'Model location: (C:\\RoadRunner\\Models\\feedback.xml, etc.)')
rrPython.loadSBMLFromFile(modelPath)
simulations = raw_input('Number of simulations:')
start_Time = raw_input('Start time:')
start_Time = float(start_Time)
end_Time = raw_input('End time:')
end_Time = float(end_Time)
number_of_points = raw_input('Number of points:')
number_of_points = int(number_of_points)
simulations = int(simulations)
rrPython.setTimeStart(start_Time)
rrPython.setTimeEnd(end_Time)
rrPython.setNumPoints(number_of_points)
t = timeit.Timer('rrPython.simulate()', 'import rrPython')
totalTime = t.timeit(number=simulations)
meanTime = totalTime / simulations
print 'Average simulation time: ' + str(meanTime) + ' seconds'
startTime = float(text[1])
if text[0] == 'duration:':
endTime = startTime + float(text[1])
if text[0] == 'steps:':
numberOfPoints = int(text[1])+1#add one to match online sbml validation
if text[0] == 'variables:':
varlist = text[1:]
if text[0] == 'amount:':
if len(text) >1:
concheck = 1
if text[0] == 'concentration:':
if len(text) >1:
amountcheck = 1
rrPython.setTimeStart(startTime)
rrPython.setTimeEnd(endTime)
rrPython.setNumPoints(numberOfPoints)
#if concheck == 1:
# compvalues = rrPython.getCompartmentByIndex()
curtime = ['time']
species = curtime + varlist
#i=0
#pattern = re.compile('[\W_]+')
#for species[i] in species:
# species[i] = pattern.sub('',species[i])#removes non-alphanumeric characters from all variables names. Probably no longer needed.
# i+=1
species = str(species).strip("[]")
species = species.replace("'", "")
species = species.replace(" ", "")
rrPython.setSelectionList(species)
if text[0] == 'duration:':
endTime = startTime + float(text[1])
if text[0] == 'steps:':
numberOfPoints = int(
text[1]) + 1 #add one to match online sbml validation
if text[0] == 'variables:':
varlist = text[1:]
if text[0] == 'amount:':
if len(text) > 1:
concheck = 1
if text[0] == 'concentration:':
if len(text) > 1:
amountcheck = 1
rrPython.setTimeStart(startTime)
rrPython.setTimeEnd(endTime)
rrPython.setNumPoints(numberOfPoints)
#if concheck == 1:
# compvalues = rrPython.getCompartmentByIndex()
curtime = ['time']
species = curtime + varlist
#i=0
#pattern = re.compile('[\W_]+')
#for species[i] in species:
# species[i] = pattern.sub('',species[i])#removes non-alphanumeric characters from all variables names. Probably no longer needed.
# i+=1
species = str(species).strip("[]")
species = species.replace("'", "")
species = species.replace(" ", "")
rrPython.setSelectionList(species)