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updated checkpoint_xdmf method save discontinuous fields properly #328

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updated checkpoint_xdmf method save discontinuous fields properly #328

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17a12bf
updated checkpoint_xdmf method save discontinuous fields properly
gthyagi Jun 27, 2025
aa65291
added var as argument to def
gthyagi Jun 27, 2025
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33 changes: 24 additions & 9 deletions src/underworld3/discretisation.py
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Original file line number Diff line number Diff line change
Expand Up @@ -2893,40 +2893,55 @@ def checkpoint_xdmf(
"""

## The mesh Var attributes

def get_cell_field_size(h5_filename, mesh_var):
with h5py.File(h5_filename, 'r') as f:
size = f[f'cell_fields/{mesh_var.clean_name}_{mesh_var.clean_name}'].shape[0]
return size

attributes = ""
for var in meshVars:
var_filename = filename + f"mesh.{var.clean_name}.{index:05}.h5"
var_filename = filename + f".mesh.{var.clean_name}.{index:05}.h5"
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Copilot AI Jun 27, 2025

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[nitpick] Building filepaths via string concatenation can lead to errors (e.g. extra dots). Consider using os.path.join or at least a single f-string like f"{filename}.mesh.{var.clean_name}.{index:05}.h5" to improve readability and correctness.

Suggested change
var_filename = filename + f".mesh.{var.clean_name}.{index:05}.h5"
var_filename = f"{filename}.mesh.{var.clean_name}.{index:05}.h5"

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if var.num_components == 1:
variable_type = "Scalar"
else:
variable_type = "Vector"
# We should add a tensor type here ...

# Determine if data is stored on nodes (vertex_fields) or cells (cell_fields)
if not getattr(var, "continuous") or getattr(var, "degree")==0:
center = "Cell"
numItems = get_cell_field_size(var_filename, var)
field_group = "cell_fields"
else:
center = "Node"
numItems = numVertices
field_group = "vertex_fields"

var_attribute = f"""
<Attribute
Name="{var.clean_name}"
Type="{variable_type}"
Center="Node">
Center="{center}">
<DataItem ItemType="HyperSlab"
Dimensions="1 {numVertices} {var.num_components}"
Type="HyperSlab">
Dimensions="1 {numItems} {var.num_components}"
Type="HyperSlab">
<DataItem
Dimensions="3 3"
Format="XML">
0 0 0
1 1 1
1 {numVertices} {var.num_components}
1 {numItems} {var.num_components}
</DataItem>
<DataItem
DataType="Float" Precision="8"
Dimensions="1 {numVertices} {var.num_components}"
Dimensions="1 {numItems} {var.num_components}"
Format="HDF">
&{var.clean_name+"_Data"};:/vertex_fields/{var.clean_name+"_"+var.clean_name}
&{var.clean_name+"_Data"};:/{field_group}/{var.clean_name+"_"+var.clean_name}
</DataItem>
</DataItem>
</Attribute>
"""
"""
attributes += var_attribute

for var in swarmVars:
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