def writingAndReadingExecution(self):
antimonyStr = '''
model myModel
S1 -> S2; k1*S1;
S1 = 10; S2 = 0;
k1 = 1;
end
'''
phrasedmlStr = '''
model1 = model "myModel"
sim1 = simulate uniform(0, 5, 100)
task1 = run sim1 on model1
plot "Figure 1" time vs S1, S2
report time vs S1, S2
'''
import tellurium as te
# Create experiment
exp = te.experiment(antimonyStr, phrasedmlStr)
# Run and store with results
tmpdir = tempfile.mkdtemp()
exp.exportAsCombineWithOutputs(os.path.join(tmpdir, 'test.omex'))
# Execute the created archive
te.executeOMEX('test.omex', workingDir=tmpdir)
shutil.rmtree(tmpdir)
"""
Running the Combine Showcase.
https://github.com/SemsProject/CombineArchiveShowCase
"""
# redirect backend, so plots only in files and not shown
import matplotlib.pyplot
matplotlib.pyplot.switch_backend("Agg")
# running all SED-ML simulations in archive
# outputs are stored next to the respective SED-ML files in the workingDir
import os.path
import tellurium as te
omexDir = os.path.dirname(os.path.realpath(__file__))
omexPath = os.path.join(omexDir, "CombineArchiveShowCase.omex")
workingDir = os.path.join(omexDir, "_te_CombineArchiveShowCase")
te.executeOMEX(omexPath, workingDir=workingDir)