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Contexts #4

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dbfaad6
Update for new computation environment routines.
chrispbradley Apr 10, 2018
d961f90
Merge branch 'develop' of https://github.com/OpenCMISS-Examples/monod…
chrispbradley Apr 11, 2018
6b76650
Fixes for contexts.
chrispbradley Apr 27, 2018
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21 changes: 13 additions & 8 deletions src/python/monodomain_2D_vary_parameters_spatially.py
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Original file line number Diff line number Diff line change
Expand Up @@ -57,29 +57,34 @@
cellMLParametersFieldUserNumber = 8
cellMLIntermediateFieldUserNumber = 9

worldRegion = iron.Region()
iron.Context.WorldRegionGet(worldRegion)

# Set the OpenCMISS random seed so that we can test this example by using the
# same parallel decomposition
numberOfRandomSeeds = iron.RandomSeedsSizeGet()
numberOfRandomSeeds = iron.Context.RandomSeedsSizeGet()
randomSeeds = [0]*numberOfRandomSeeds
randomSeeds[0] = 100
iron.RandomSeedsSet(randomSeeds)
iron.Context.RandomSeedsSet(randomSeeds)

#DOC-START parallel information
# Get the number of computational nodes and this computational node number
numberOfComputationalNodes = iron.ComputationalNumberOfNodesGet()
computationalNodeNumber = iron.ComputationalNodeNumberGet()
computationEnvironment = iron.ComputationEnvironment()
iron.Context.ComputationEnvironmentGet(computationEnvironment)
numberOfComputationalNodes = computationEnvironment.NumberOfWorldNodesGet()
computationalNodeNumber = computationEnvironment.WorldNodeNumberGet()
#DOC-END parallel information

#DOC-START initialisation
# Create a 2D rectangular cartesian coordinate system
coordinateSystem = iron.CoordinateSystem()
coordinateSystem.CreateStart(coordinateSystemUserNumber)
coordinateSystem.CreateStart(coordinateSystemUserNumber,iron.Context)
coordinateSystem.DimensionSet(2)
coordinateSystem.CreateFinish()

# Create a region and assign the coordinate system to the region
region = iron.Region()
region.CreateStart(regionUserNumber,iron.WorldRegion)
region.CreateStart(regionUserNumber,worldRegion)
region.LabelSet("Region")
region.coordinateSystem = coordinateSystem
region.CreateFinish()
Expand All @@ -88,7 +93,7 @@
#DOC-START basis
# Define a bilinear Lagrange basis
basis = iron.Basis()
basis.CreateStart(basisUserNumber)
basis.CreateStart(basisUserNumber,iron.Context)
basis.type = iron.BasisTypes.LAGRANGE_HERMITE_TP
basis.numberOfXi = 2
basis.interpolationXi = [iron.BasisInterpolationSpecifications.LINEAR_LAGRANGE]*2
Expand Down Expand Up @@ -281,7 +286,7 @@
problemSpecification = [iron.ProblemClasses.BIOELECTRICS,
iron.ProblemTypes.MONODOMAIN_EQUATION,
iron.ProblemSubtypes.MONODOMAIN_GUDUNOV_SPLIT]
problem.CreateStart(problemUserNumber, problemSpecification)
problem.CreateStart(problemUserNumber,iron.Context,problemSpecification)
problem.CreateFinish()
#DOC-END define monodomain problem

Expand Down