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380 lines
12 KiB
380 lines
12 KiB
from mesh_utils import *
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#######################################################
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## ##
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## PART TO MODIFY ##
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## ##
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#######################################################
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#######################################################
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directory = "./" # Absolute path to the model files
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fileName = "PW" # Name of the .g and .json files
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unit = 1.0 # Unit of the input (in meters) -> 1.0 for meters or 2.54e-2 for inches
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mesh_size = 0.02 # Mesh size in the unit used
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unit2trunc = 4 # Number of significant digits in the regular mesh
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#number_of_layers = 5 # Number of PML layers to generate
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#sigma = 0.01
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########################################
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## MAIN FUNCTION ##
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########################################
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# Setup full file path and mesh size
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name = f"{directory}/{fileName}"
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regularElementSize = truncate_to_significant_figures(mesh_size, 4)
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# Load and configure volume mesh
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mesh = geo.VolumeMesh.from_exodus(f"{name}.g")
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config = mesh.apply_config(f"{name}.json")
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BC = geo.BoundaryCondition
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print_boundary_conditions()
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# Check PEC boundaries
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pec_faces = mesh.face_sets_with_bc(BC.PEC)
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if len(pec_faces) == 0:
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print("Error: No PEC faces found.")
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print("PEC face set size:", len(pec_faces))
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###########################################
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## Generate Regular Airbox Mesh ##
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###########################################
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regular = mesh.make_Airbox_pml_grid_mesh(regularElementSize, pec_faces)
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regVertices = np.array(regular.vertices)
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#print("Regular Vertices = ", regular.vertices)
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print("------------------------------------------------")
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print("Shape of regular vertices = ", regVertices.shape)
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print("------------------------------------------------")
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reg_min = np.min(regVertices, axis=0)
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reg_max = np.max(regVertices, axis=0)
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print("########################################")
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print(" Regular Grid Bounding Box")
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print("########################################")
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print(f"X range: {reg_min[0]:.6f} to {reg_max[0]:.6f}")
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print(f"Y range: {reg_min[1]:.6f} to {reg_max[1]:.6f}")
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print(f"Z range: {reg_min[2]:.6f} to {reg_max[2]:.6f}")
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print(f"Box Size (dx, dy, dz): {reg_max - reg_min}")
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print("########################################")
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# First vertex is used as the reference node
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referenceNode = regular.vertices[:, 0]
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print("First Node from regular tets = ", referenceNode)
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regularVertices = regular.vertices.shape[0]
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export_bc_surfaces(regular, "Regular", BC)
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########################################
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## Generate Irregular Mesh ##
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########################################
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irregular = mesh.make_hybrid_mesh_Airbox(
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regularElementSize,
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pec_faces,
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max_volume=(regularElementSize ** 3) * (np.sqrt(2) / 12)
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)
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print("------------------------------------------------")
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#print("Irregular Vertices = ", irregular.vertices)
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print("Irregular Vertices Shape = ", irregular.vertices.shape)
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print("------------------------------------------------")
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export_bc_surfaces(irregular, "Irregular", BC)
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# -------------------------------
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# Deduplicate and export node list
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# The unique set of nodes
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# The indices of the first occurrences
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# A mapping array from original to deduplicated nodes
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# The count of how many times each unique row occurred (but unused here)
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# -------------------------------
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print("Shape of regular vertices:", np.array(regular.vertices).T.shape)
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print("Shape of irregular vertices:", np.array(irregular.vertices).T.shape)
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# Stack all vertex coordinates for deduplication
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totalNodes = np.vstack((
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np.array(irregular.vertices).T,
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np.array(regular.vertices).T,
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))
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print("🔢 Number of nodes before rounding/deduplication:", totalNodes.shape[0])
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print("TotalNodes = ",totalNodes.shape)
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# 2. Round coordinates to a precision (e.g., 1e-8)
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precision = 8
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totalNodes = np.round(totalNodes, decimals=precision)
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# Deduplicate and get mapping to global IDs
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totalNodes, indices, verticesMap, _ = np.unique(totalNodes, axis=0, return_index=True, return_inverse=True, return_counts=True)
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print("✅ Number of unique nodes after rounding:", totalNodes.shape[0])
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# Save to .node file
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np.savetxt(f'{name}.node', totalNodes, newline="\n3 0 0\n" , fmt='%f', header=f"{unit}\n{totalNodes.shape[0]}", comments='')
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print("Total deduplicated nodes:", totalNodes.shape[0])
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########################################
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## IRREGULAR ELEMENTS ##
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########################################
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offset = 0
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# Build face BC array for irregular mesh
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selected_BC = [BC.PEC]
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output_BC_number = [1]
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irregularFacesBC = build_face_bc_array_custom(irregular, BC, selected_BC, output_BC_number)
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# Build element and face BC arrays for irregular mesh
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irregularElementArray, irregularBcArray = build_element_and_bc_arrays(
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irregular, irregularFacesBC, verticesMap, offset=offset)
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print("Unique face BC values in irregularFacesBC:")
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print(np.unique(irregularFacesBC))
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offset += irregular.vertices.shape[1]
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########################################
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## REGULAR ELEMENTS ##
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########################################
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### This section processes regular mesh elements by assigning boundary conditions (BCs),
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### building element connectivity arrays, and canonically ordering nodes for consistency.
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selected_BC = [BC.PML_Excitation]
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output_BC_number = [2]
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regularFacesBC = build_face_bc_array_custom(regular, BC, selected_BC, output_BC_number)
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elementArray, bcArray = build_element_and_bc_arrays(regular, regularFacesBC, verticesMap,offset=offset)
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offset += regular.vertices.shape[1]
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print("Unique face BC values in regularFacesBC:")
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print(np.unique(regularFacesBC))
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print("Shape of elementArray:", elementArray.shape)
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print("Max vertex index used:", np.max(elementArray))
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surfs = irregular.extract_surfaces(irregular.face_sets_with_bc(BC.PEC))
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surfs.save_stl(f"{name}_regular_pec_surfaces.stl")
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surfs = regular.extract_surfaces(regular.face_sets_with_bc(BC.NCB))
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surfs.save_stl(f"{name}_regular_ncbc_surfaces.stl")
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surfs = regular.extract_surfaces(regular.face_sets_with_bc(BC.ABC))
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surfs.save_stl(f"{name}_regular_abc_surfaces.stl")
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########################################
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## BUILD FULL ARRAYS ##
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########################################
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# Concatenate tetrahedral elements in order: PML, regular, irregular
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full_element_array = np.vstack([irregularElementArray, elementArray])
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# Total element counts
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Nirreg = irregularElementArray.shape[0]
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Nreg = elementArray.shape[0]
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Ntotal = Nirreg + Nreg
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assert full_element_array.shape[0] == Ntotal
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########################################
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## MATERIAL ASSIGNMENT ##
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########################################
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material_flags = np.zeros(Ntotal, dtype=np.int64)
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########################################
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## BUILD BC ARRAY ##
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########################################
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# Ensure BC arrays match the stacked order
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bc_full_array = np.vstack([
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irregularBcArray, # shape: (Nirreg, 4)
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bcArray, # regular, shape: (Nreg, 4)
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])
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assert bc_full_array.shape == (Ntotal, 4)
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print("Unique BC codes in full BC array:",np.unique(bc_full_array))
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#################################
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## GROUPING REGULARS ##
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#################################
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# Concatenate tetrahedral elements in order: PML, regular, irregular
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combined_element_array = np.vstack([elementArray])
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combined_bc_array = np.vstack([
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bcArray, # regular, shape: (Nreg, 4)
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])
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temp_material_flags = np.zeros(Nreg, dtype=np.int64)
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print("Unique bc IDS = ", np.unique(combined_bc_array))
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print("==================================================")
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print("Grouping regular elements by geometry...")
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print("==================================================")
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# Bounding box of regular airbox
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minX = np.min(regVertices[0, :])
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maxX = np.max(regVertices[0, :])
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minY = np.min(regVertices[1, :])
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maxY = np.max(regVertices[1, :])
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minZ = np.min(regVertices[2, :])
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maxZ = np.max(regVertices[2, :])
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reg_corner = np.array([minX, minY, minZ])
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reg_dims = np.array([maxX - minX, maxY - minY, maxZ - minZ])
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print("Bounding box for regular region grouping:")
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print(reg_corner, reg_corner + reg_dims)
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Excitation_minZ = minZ
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Excitation_maxZ = maxZ
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Excitation_minX = minX
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Excitation_maxX = maxX
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Excitation_minY = minY
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Excitation_maxY = maxY
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thickness = 0
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pml_bounds=(thickness,thickness,thickness)
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reg_indices = group_tets_by_box_and_pml( elementArray=combined_element_array, bcArray=combined_bc_array, totalNodes=totalNodes,
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materialArray=temp_material_flags, region_corner=reg_corner , region_dims=reg_dims ,
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excluded_bc_values=[2,3], min_group_size=100)
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print("=====================================")
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vals, counts = np.unique(reg_indices, return_counts=True)
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print("Counts (including 0):")
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for v, c in zip(vals, counts):
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print(f"{int(v)}: {int(c)}")
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print("=====================================")
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#################################
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## CONSTRUCT FINAL INDEX ##
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#################################
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print("==================================================")
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print("Constructing overall global regular indices ...")
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print("==================================================")
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# Combine all tets and group indices
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full_element_array = np.vstack([irregularElementArray, elementArray])
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final_indices = np.hstack([
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np.zeros(irregularElementArray.shape[0], dtype=np.int64), # Irregular
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reg_indices # Regular
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])
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print("=====================================")
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vals, counts = np.unique(final_indices, return_counts=True)
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print("Final Counts (including 0):")
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for v, c in zip(vals, counts):
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print(f"{int(v)}: {int(c)}")
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print("=====================================")
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print("final_indices shape:", final_indices.shape)
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print("Max group ID = ", np.sort(np.unique(final_indices)))
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assert final_indices.shape[0] == full_element_array.shape[0], \
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"Mismatch between final_indices and total element count!"
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# Save .regular group file (now matches .tetra)
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total_group_count = np.max(final_indices) + 1
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np.savetxt(f"{name}.regular", final_indices, fmt='%d', header=str(total_group_count), comments='')
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print(f"Saved {final_indices.shape[0]} group indices to {name}.regular")
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########################################
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## WRITE TO .tetra FILE ##
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########################################
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c_with_extra = np.ones((2 * Ntotal, 5), dtype=np.int64) * (-1)
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# Even rows: material + connectivity
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c_with_extra[::2] = np.hstack((
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material_flags.reshape(-1, 1),
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full_element_array
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))
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# Odd rows: face BCs
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c_with_extra[1::2, 1:] = bc_full_array
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# Format as DataFrame for easier output
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df = pd.DataFrame(c_with_extra, dtype=np.int64).where(lambda x: x != -1, np.nan)
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# Insert element count header
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header_row = pd.Series([Ntotal] + [np.nan] * 4, index=df.columns)
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df = pd.concat([header_row.to_frame().T, df], ignore_index=True)
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# Save as .tetra file
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df = df.astype("Int64")
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df.to_csv(f"{name}.tetra", sep=' ', index=False, header=False)
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print(f"✅ Saved {Ntotal} tetrahedra to {name}.tetra")
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#################################
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## WRITE FILES ##
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#################################
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print("Writing freespace.m...")
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with open("freespace.m", "w") as f:
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# First 6 rows: identity tensors
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f.write("standard\n")
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f.write("1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00\n")
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f.write("0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00\n")
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f.write("0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00\n")
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f.write("1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00\n")
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f.write("0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00\n")
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f.write("0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00\n")
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# 3 rows of zero vectors (dispersion parameters)
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for _ in range(3):
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f.write("0.000000e+00 0.000000e+00 0.000000e+00\n")
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print("Writing .bc file...")
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with open(f"{name}.bc", "w") as f:
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f.write("4\n")
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f.write("0 none\n")
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f.write("1 pec\n")
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f.write(f"2 planeWave Excitation 1.0 0.0 0.0 0 1 0 0.0 0.0 {Excitation_minZ}\n")
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f.write("3 abc 1\n")
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with open(f"{name}.prop", "w") as f:
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f.write("./\n")
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f.write("freespace\n")
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