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GmshDiscreteModels.jl
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const D2=2
const D3=3
const POINT=15
const UNSET = 0
function GmshDiscreteModel(mshfile; renumber=true)
@check_if_loaded
if !isfile(mshfile)
error("Msh file not found: $mshfile")
end
gmsh.initialize()
gmsh.option.setNumber("General.Terminal", 1)
gmsh.option.setNumber("Mesh.SaveAll", 1)
gmsh.option.setNumber("Mesh.MedImportGroupsOfNodes", 1)
gmsh.open(mshfile)
renumber && gmsh.model.mesh.renumberNodes()
renumber && gmsh.model.mesh.renumberElements()
model = GmshDiscreteModel(gmsh)
gmsh.finalize()
model
end
function GmshDiscreteModel(gmsh::Module)
Dc = _setup_cell_dim(gmsh)
Dp = _setup_point_dim(gmsh,Dc)
node_to_coords = _setup_node_coords(gmsh,Dp)
nnodes = length(node_to_coords)
vertex_to_node, node_to_vertex = _setup_nodes_and_vertices(gmsh,node_to_coords)
grid, cell_to_entity = _setup_grid(gmsh,Dc,Dp,node_to_coords,node_to_vertex)
cell_to_vertices, vertex_to_node, node_to_vertex = _setup_cell_to_vertices(grid,vertex_to_node,node_to_vertex)
grid_topology = UnstructuredGridTopology(grid,cell_to_vertices,vertex_to_node)
labeling = _setup_labeling(gmsh,grid,grid_topology,cell_to_entity,vertex_to_node,node_to_vertex)
UnstructuredDiscreteModel(grid,grid_topology,labeling)
end
function _setup_nodes_and_vertices(gmsh,node_to_coords)
nnodes = length(node_to_coords)
dimTags = gmsh.model.getEntities()
if _has_periodic_bcs(gmsh,dimTags)
dimTags = gmsh.model.getEntities()
vertex_to_node, node_to_vertex = _setup_nodes_and_vertices_periodic(gmsh,dimTags,nnodes)
else
vertex_to_node = 1:nnodes
node_to_vertex = vertex_to_node
end
vertex_to_node, node_to_vertex
end
function _setup_nodes_and_vertices_periodic(gmsh,dimTags,nnodes)
if _order_from_dimtags(gmsh,dimTags) != 1
gmsh.finalize()
error("For the moment only for first-order elements on periodic BCs")
end
node_to_node_master = fill(UNSET,nnodes)
_node_to_node_master!(node_to_node_master,gmsh,dimTags)
slave_to_node_slave = findall(node_to_node_master .!= UNSET)
slave_to_node_master = node_to_node_master[slave_to_node_slave]
node_to_vertex = fill(UNSET,nnodes)
vertex_to_node = findall(node_to_node_master .== UNSET)
node_to_vertex[vertex_to_node] = 1:length(vertex_to_node)
nmax = 20
for i in 1:nmax
node_to_vertex[slave_to_node_slave] = node_to_vertex[slave_to_node_master]
if all(j->j!=0,node_to_vertex)
break
end
if i == nmax
@unreachable
end
end
vertex_to_node, node_to_vertex
end
function _setup_grid(gmsh,Dc,Dp,node_to_coords,node_to_vertex)
if ( Dp == 3 && Dc == 2 ) || ( Dp == 2 && Dc == 1 )
orient_if_simplex = false
else
orient_if_simplex = true
end
cell_to_nodes, nminD = _setup_connectivity(gmsh,Dc,node_to_vertex,orient_if_simplex)
cell_to_type, reffes, orientation = _setup_reffes(gmsh,Dc,orient_if_simplex)
cell_to_entity = _setup_cell_to_entity(
gmsh,Dc,length(cell_to_nodes),nminD)
if ( Dp == 3 && Dc == 2 ) || ( Dp == 2 && Dc == 1 )
cell_coords = lazy_map(Broadcasting(Reindex(node_to_coords)),cell_to_nodes)
ctype_shapefuns = map(get_shapefuns,reffes)
cell_shapefuns = expand_cell_data(ctype_shapefuns,cell_to_type)
cell_map = lazy_map(linear_combination,cell_coords,cell_shapefuns)
ctype_x = fill(zero(VectorValue{Dc,Float64}),length(ctype_shapefuns))
cell_x = expand_cell_data(ctype_x,cell_to_type)
cell_Jt = lazy_map(∇,cell_map)
cell_n = lazy_map(Operation(_unit_outward_normal),cell_Jt)
cell_nx = lazy_map(evaluate,cell_n,cell_x) |> collect
facet_normal = lazy_map(constant_field,cell_nx)
else
facet_normal = nothing
end
grid = UnstructuredGrid(
node_to_coords,
cell_to_nodes,
reffes,
cell_to_type,
orientation,
facet_normal)
(grid, cell_to_entity)
end
function _unit_outward_normal(v::MultiValue{Tuple{1,2}})
n1 = v[1,2]
n2 = -v[1,1]
n = VectorValue(n1,n2)
n/norm(n)
end
function _unit_outward_normal(v::MultiValue{Tuple{2,3}})
n1 = v[1,2]*v[2,3] - v[1,3]*v[2,2]
n2 = v[1,3]*v[2,1] - v[1,1]*v[2,3]
n3 = v[1,1]*v[2,2] - v[1,2]*v[2,1]
n = VectorValue(n1,n2,n3)
n/norm(n)
end
function _setup_cell_to_vertices(grid,vertex_to_node,node_to_vertex)
nnodes = num_nodes(grid)
reffes = get_reffes(grid)
if minimum(num_dims,reffes) == 0 || maximum(get_order,reffes) == 1
cell_to_nodes = get_cell_node_ids(grid)
cell_to_vertices = #
_reindex_cell_to_vertices(cell_to_nodes,node_to_vertex,nnodes)
else
@assert node_to_vertex == 1:nnodes
cell_to_vertices, vertex_to_node, node_to_vertex = #
_generate_cell_to_vertices_from_grid(grid)
end
cell_to_vertices, vertex_to_node, node_to_vertex
end
function _reindex_cell_to_vertices(cell_to_nodes,node_to_vertex,nnodes)
if isa(node_to_vertex,AbstractVector)
cell_to_vertices = Table(lazy_map(Broadcasting(Reindex(node_to_vertex)),cell_to_nodes))
else
@assert node_to_vertex == 1:nnodes
cell_to_vertices = cell_to_nodes
end
cell_to_vertices
end
function _has_periodic_bcs(gmsh,dimTags)
for (dim,tag) in dimTags
tagMaster, nodeTags, = gmsh.model.mesh.getPeriodicNodes(dim,tag)
if length(nodeTags) > 0
return true
end
end
return false
end
function _node_to_node_master!(node_to_node_master,gmsh,dimTags)
for (dim,tag) in dimTags
tagMaster, nodeTags, nodeTagsMaster, = gmsh.model.mesh.getPeriodicNodes(dim,tag)
if length(nodeTags) > 0
node_to_node_master[nodeTags] .= nodeTagsMaster
end
end
end
function _order_from_dimtags(gmsh,dimTags)
max_order = -1
for (dim,tag) in dimTags
elemTypes, = gmsh.model.mesh.getElements(dim,tag)
for etype in elemTypes
order = _order_from_etype(gmsh,etype)
max_order = max(max_order,order)
end
end
if max_order == -1
gmsh.finalize()
error("No elements found")
end
max_order
end
function _setup_cell_dim(gmsh)
elemTypes, = gmsh.model.mesh.getElements()
D = -1
for etype in elemTypes
_,dim = gmsh.model.mesh.getElementProperties(etype)
D = max(D,dim)
end
if D == -1
gmsh.finalize()
error("No elements in the msh file.")
end
D
end
function _setup_point_dim(gmsh,Dc)
if Dc == D3
return Dc
end
nodeTags, coord, parametricCoord = gmsh.model.mesh.getNodes()
for node in nodeTags # Search a non-zero z-coordinate
k = (node-1)*D3 + D3
xk = coord[k]
if !(xk + 1 ≈ 1)
return D3
end
end
for node in nodeTags # Search a non-zero y-coordinate
j = (node-1)*D3 + D2
xj = coord[j]
if !(xj + 1 ≈ 1)
return D2
end
end
Dc
end
function _setup_node_coords(gmsh,D)
nodeTags, coord, parametricCoord = gmsh.model.mesh.getNodes()
nmin = minimum(nodeTags)
nmax = maximum(nodeTags)
nnodes = length(nodeTags)
if !(nmax == nnodes && nmin == 1)
gmsh.finalize()
error("Only consecutive node tags allowed.")
end
node_to_coords = zeros(Point{D,Float64},nnodes)
_fill_node_coords!(node_to_coords,nodeTags,coord,D)
node_to_coords
end
function _fill_node_coords!(node_to_coords,nodeTags,coord,D,Dp=D3)
m = zero(Mutable(Point{D,Float64}))
for node in nodeTags
for j in 1:D
k = (node-1)*Dp + j
xj = coord[k]
m[j] = xj
end
node_to_coords[node] = m
end
end
function _setup_connectivity(gmsh,d,node_to_vertex,orient_if_simplex)
elemTypes, elemTags, nodeTags = gmsh.model.mesh.getElements(d)
if length(elemTypes) == 0
ncells = 0
ndata = 0
nmin = 1
cell_to_nodes_prts = zeros(Int,ncells+1)
cell_to_nodes_data = zeros(Int32,ndata)
cell_to_nodes = Table(cell_to_nodes_data,cell_to_nodes_prts)
return (cell_to_nodes, nmin)
end
ncells, nmin, nmax = _check_cell_tags(elemTags)
etype_to_nlnodes = _setup_etype_to_nlnodes(elemTypes,gmsh)
etype_to_lnode_to_glnode = _setup_etype_to_lnode_to_glnode(elemTypes,gmsh)
ndata = sum([length(t) for t in nodeTags])
cell_to_nodes_data = zeros(Int,ndata)
cell_to_nodes_prts = zeros(Int32,ncells+1)
_fill_connectivity!(
cell_to_nodes_data,
cell_to_nodes_prts,
nmin-1,
etype_to_nlnodes,
etype_to_lnode_to_glnode,
elemTypes,
elemTags,
nodeTags,
d,
node_to_vertex,
orient_if_simplex)
cell_to_nodes = Table(cell_to_nodes_data,cell_to_nodes_prts)
(cell_to_nodes, nmin)
end
function _check_cell_tags(elemTags)
nmin::Int = minimum( minimum, elemTags )
nmax::Int = maximum( maximum, elemTags )
ncells = sum([length(t) for t in elemTags])
if !( (nmax-nmin+1) == ncells)
gmsh.finalize()
error("Only consecutive elem tags allowed.")
end
(ncells,nmin,nmax)
end
function _setup_etype_to_nlnodes(elemTypes,gmsh)
netypes = maximum(elemTypes)
etype_to_nlnodes = zeros(Int,netypes)
for etype in elemTypes
name, dim, order, numv, parv =
gmsh.model.mesh.getElementProperties(etype)
etype_to_nlnodes[etype] = numv
end
etype_to_nlnodes
end
function _fill_connectivity!(
cell_to_nodes_data,
cell_to_nodes_prts,
o,
etype_to_nlnodes,
etype_to_lnode_to_glnode,
elemTypes,
elemTags,
nodeTags,
d,
node_to_vertex,
orient_if_simplex)
for (j,etype) in enumerate(elemTypes)
nlnodes = etype_to_nlnodes[etype]
i_to_cell = elemTags[j]
for cell in i_to_cell
cell_to_nodes_prts[cell+1-o] = nlnodes
end
end
length_to_ptrs!(cell_to_nodes_prts)
c = array_cache(etype_to_lnode_to_glnode)
for (j,etype) in enumerate(elemTypes)
nlnodes = etype_to_nlnodes[etype]
i_to_cell = elemTags[j]
i_lnode_to_node = nodeTags[j]
glnode_to_lnode = getindex!(c,etype_to_lnode_to_glnode,etype)
if (nlnodes == d+1) && orient_if_simplex
# what we do here has to match with the OrientationStyle we
# use when building the UnstructuredGrid
_orient_simplex_connectivities!(nlnodes,i_lnode_to_node,node_to_vertex)
else
_permute_connectivities!(nlnodes,i_lnode_to_node,glnode_to_lnode)
end
for (i,cell) in enumerate(i_to_cell)
a = cell_to_nodes_prts[cell-o]-1
for lnode in 1:nlnodes
node = i_lnode_to_node[(i-1)*nlnodes+lnode]
cell_to_nodes_data[a+lnode] = node
end
end
end
end
function _orient_simplex_connectivities!(nlnodes,i_lnode_to_node,node_to_vertex)
aux = zeros(eltype(i_lnode_to_node),nlnodes)
offset = nlnodes-1
for i in 1:nlnodes:length(i_lnode_to_node)
nodes = i_lnode_to_node[i:i+offset]
vertices = view(node_to_vertex,nodes)
perm = sortperm(vertices)
i_lnode_to_node[i:i+offset] = nodes[perm]
end
end
function _permute_connectivities!(nlnodes,i_lnode_to_node,perm)
aux = zeros(eltype(i_lnode_to_node),nlnodes)
offset = nlnodes-1
for i in 1:nlnodes:length(i_lnode_to_node)
aux = i_lnode_to_node[i:i+offset]
i_lnode_to_node[i:i+offset] = aux[perm]
end
end
function _setup_reffes(gmsh,d,orient_if_simplex)
elemTypes, elemTags, nodeTags = gmsh.model.mesh.getElements(d)
if !(length(elemTypes)==1)
gmsh.finalize()
s = """
Only one element type per dimension allowed for the moment.
Dimension $d has $(length(elemTypes)) different element types
"""
error(s)
end
ncells, nmin, nmax = _check_cell_tags(elemTags)
cell_to_type = fill(Int8(1),ncells)
etype::Int = first(elemTypes)
name, dim, order::Int, numv, parv = gmsh.model.mesh.getElementProperties(etype)
if order == 0 && etype == POINT
order = 1
end
reffe = _reffe_from_etype(gmsh,etype)
reffes = [reffe,]
boo = is_simplex(get_polytope(reffe)) && orient_if_simplex
orientation = boo ? Oriented() : NonOriented()
(cell_to_type, reffes, orientation)
end
function _reffe_from_etype(gmsh,etype)
if etype == 1
SEG2
elseif etype == 2
TRI3
elseif etype == 3
QUAD4
elseif etype == 4
TET4
elseif etype == 5
HEX8
elseif etype == POINT
VERTEX1
else
_lagrangian_reffe_from_etype(gmsh,etype)
end
end
function _polytope_from_etype(gmsh,etype)
name, = gmsh.model.mesh.getElementProperties(etype)
if contains(name,"Point")
VERTEX
elseif contains(name,"Line")
SEGMENT
elseif contains(name,"Triangle")
TRI
elseif contains(name,"Tetrahedron")
TET
elseif contains(name,"Quadrilateral")
QUAD
elseif contains(name,"Hexahedron")
HEX
else
gmsh.finalize()
error("Unsupported element. $name, elemType: $etype")
end
end
function _lagrangian_reffe_from_etype(gmsh,etype)
order = _order_from_etype(gmsh,etype)
polytope = _polytope_from_etype(gmsh,etype)
reffe = LagrangianRefFE(Float64,polytope,order)
_check_reffe(gmsh,etype,reffe)
reffe
end
function _order_from_etype(gmsh,etype)
_,_,order = gmsh.model.mesh.getElementProperties(etype)
Int(order)
end
function _check_reffe(gmsh,etype,reffe)
name,dim,order,nnodes,coords,nverts = gmsh.model.mesh.getElementProperties(etype)
if num_dims(reffe) != dim ||
get_order(reffe) != order ||
num_nodes(reffe) != nnodes ||
num_vertices(get_polytope(reffe)) != nverts
gmsh.finalize()
error("Unsuported element. $name, elemType: $etype")
end
end
function _setup_etype_to_lnode_to_glnode(elemTypes,gmsh)
netypes = maximum(elemTypes)
etype_to_glnode_to_lnode_data = Int[]
etype_to_glnode_to_lnode_ptrs = zeros(Int,netypes+1)
for etype in elemTypes
ln_to_gln =_get_lnode_to_glnode(gmsh,etype)
append!(etype_to_glnode_to_lnode_data,ln_to_gln)
etype_to_glnode_to_lnode_ptrs[etype+1] = length(ln_to_gln)
end
length_to_ptrs!(etype_to_glnode_to_lnode_ptrs)
Table( etype_to_glnode_to_lnode_data, etype_to_glnode_to_lnode_ptrs )
end
function _get_node_coordinates(gmsh,etype)
name,dim,order,nnodes,coords,nverts = gmsh.model.mesh.getElementProperties(etype)
dim = Int(dim)
node_to_coords = zeros(Point{dim,Float64},nnodes)
_fill_node_coords!(node_to_coords,1:nnodes,coords,dim,dim)
node_to_coords
end
function _get_lnode_to_glnode(gmsh,etype)
reffe = _reffe_from_etype(gmsh,etype)
_get_lnode_to_glnode(gmsh,etype,reffe)
end
function _get_lnode_to_glnode(gmsh,etype,reffe::ReferenceFE{0})
[1]
end
function _get_lnode_to_glnode(gmsh,etype,reffe)
order = get_order(reffe)
glcoords = _get_node_coordinates(gmsh,etype)
lcoords = get_node_coordinates(reffe)
ln_to_gln = _link_equisipaced_coords(lcoords,glcoords,order)
if length(unique(ln_to_gln)) != length(ln_to_gln)
gmsh.finalize()
error("Unsuported element. $name, elemType: $etype")
end
ln_to_gln
end
function _link_equisipaced_coords(a,b,n)
a_to_int = _integer_coords(a,n)
b_to_int = _integer_coords(b,n)
int_to_b = Dict(b_to_int.=>1:length(b))
map(Reindex(int_to_b),a_to_int)
end
function _integer_coords(X,n)
xmin,xmax = _bounding_box(X)
map(X) do x
_integer_coords(x,xmin,xmax,n)
end
end
function _integer_coords(x,xmin,xmax,n)
f = (x-xmin)./(xmax-xmin) .*n
Point( Int.(round.(Tuple(f))) )
end
function _bounding_box(X)
xmin = xmax = X[1]
for x in X
xmin = min.(xmin,x)
xmax = max.(xmax,x)
end
xmin,xmax
end
function _setup_cell_to_entity(gmsh,d,ncells,nmin)
cell_to_entity = fill(UNSET,ncells)
entities = gmsh.model.getEntities(d)
for e in entities
_, elemTags, _ = gmsh.model.mesh.getElements(e[1], e[2])
_fill_cell_to_entity!(cell_to_entity,elemTags,e[2],nmin-1)
end
cell_to_entity
end
function _fill_cell_to_entity!(cell_to_entity,elemTags,entity,o)
for i_to_cell in elemTags
for cell in i_to_cell
cell_to_entity[cell-o] = entity
end
end
end
function _setup_labeling(gmsh,grid,grid_topology,cell_to_entity,vertex_to_node,node_to_vertex)
D = num_cell_dims(grid)
dim_to_gface_to_nodes, dim_gface_to_entity = _setup_faces(gmsh,D,node_to_vertex)
push!(dim_to_gface_to_nodes,get_cell_node_ids(grid))
push!(dim_gface_to_entity,cell_to_entity)
dim_to_group_to_entities = _setup_dim_to_group_to_entities(gmsh)
dim_to_group_to_name = _setup_dim_to_group_to_name(gmsh)
dim_to_offset = _setup_dim_to_offset(gmsh)
nnodes = num_nodes(grid)
node_to_label = _setup_node_to_label(gmsh,dim_to_offset,nnodes)
labeling = _setup_face_labels(
vertex_to_node,
node_to_vertex,
grid_topology,
dim_to_gface_to_nodes,
dim_gface_to_entity,
dim_to_offset,
dim_to_group_to_entities,
dim_to_group_to_name,
node_to_label)
labeling
end
function _setup_faces(gmsh,D,node_to_vertex)
dim_to_gface_to_nodes = []
dim_gface_to_entity = []
for d in 0:(D-1)
orient_if_simplex = true
face_to_nodes, nmin = _setup_connectivity(gmsh,d,node_to_vertex,orient_if_simplex)
face_to_entity = _setup_cell_to_entity(gmsh,d,length(face_to_nodes),nmin)
push!(dim_to_gface_to_nodes,face_to_nodes)
push!(dim_gface_to_entity,face_to_entity)
end
(dim_to_gface_to_nodes, dim_gface_to_entity)
end
function _setup_dim_to_group_to_entities(gmsh)
dim_to_group_to_entities = Vector{Vector{Int}}[]
for d in 0:D3
pgs = gmsh.model.getPhysicalGroups(d)
n = length(pgs)
group_to_entities = Vector{Int}[]
for pg in pgs
es = gmsh.model.getEntitiesForPhysicalGroup(pg...)
entities = Int[]
for e in es
push!(entities,e)
end
push!(group_to_entities,entities)
end
push!(dim_to_group_to_entities,group_to_entities)
end
dim_to_group_to_entities
end
function _setup_dim_to_group_to_name(gmsh)
u = 1
dim_to_group_to_name = Vector{String}[]
for d in 0:D3
pgs = gmsh.model.getPhysicalGroups(d)
n = length(pgs)
names = String[]
for pg in pgs
_name = gmsh.model.getPhysicalName(pg...)
if _name == ""
name = "untitled$u"
u += 1
else
name = _name
end
push!(names,name)
end
push!(dim_to_group_to_name,names)
end
dim_to_group_to_name
end
function _setup_dim_to_offset(gmsh)
entities = gmsh.model.getEntities()
dim_to_nentities = zeros(Int,D3+1)
for e in entities
d = e[1]
id = e[2]
_id = dim_to_nentities[d+1]
dim_to_nentities[d+1] = max(id,_id)
end
dim_to_offset = zeros(Int,D3+1)
for d=1:D3
dim_to_offset[d+1] += dim_to_nentities[d-1+1] + dim_to_offset[d-1+1]
end
dim_to_offset
end
function _setup_node_to_label(gmsh,dim_to_offset,nnodes)
node_to_label = zeros(Int,nnodes)
entities = gmsh.model.getEntities()
for (dim, entity) in entities
nodes, _, _ = gmsh.model.mesh.getNodes(dim, entity)
node_to_label[nodes] .= (entity + dim_to_offset[dim+1])
end
node_to_label
end
function _setup_face_labels(
vertex_to_node,
node_to_vertex,
grid_topology,
dim_to_gface_to_nodes,
dim_gface_to_entity,
dim_to_offset,
dim_to_group_to_entities,
dim_to_group_to_name,
node_to_label)
vertex_to_label = node_to_label[vertex_to_node]
D = num_cell_dims(grid_topology)
dim_to_face_to_label = [vertex_to_label,]
for d in 1:D
z = fill(UNSET,num_faces(grid_topology,d))
push!(dim_to_face_to_label,z)
end
_fill_dim_to_face_to_label!(
node_to_vertex,
dim_to_face_to_label,
grid_topology,
dim_to_gface_to_nodes,
dim_gface_to_entity,
dim_to_offset)
tag_to_name, tag_to_groups, _ = _setup_tag_to_name(dim_to_group_to_name)
tag_to_labels = _setup_tag_to_labels(
tag_to_groups,dim_to_group_to_entities,dim_to_offset)
FaceLabeling(dim_to_face_to_label,tag_to_labels,tag_to_name)
end
function _fill_dim_to_face_to_label!(
node_to_vertex,
dim_to_face_to_label,
grid_topology,
dim_to_gface_to_nodes,
dim_gface_to_entity,
dim_to_offset)
D = length(dim_to_face_to_label)-1
d = D
cell_to_entity = dim_gface_to_entity[d+1]
cell_to_label = dim_to_face_to_label[d+1]
offset = dim_to_offset[d+1]
_apply_offset_for_cells!(cell_to_label,cell_to_entity,offset)
for d in 0:(D-1)
gface_to_nodes = dim_to_gface_to_nodes[d+1]
face_to_nodes = get_faces(grid_topology,d,0)
node_to_faces = get_faces(grid_topology,0,d)
gface_to_face = _setup_gface_to_face(
node_to_vertex,
face_to_nodes,
node_to_faces,
gface_to_nodes)
face_to_label = dim_to_face_to_label[d+1]
gface_to_entity = dim_gface_to_entity[d+1]
offset = dim_to_offset[d+1]
_apply_offset_for_faces!(face_to_label,gface_to_entity,gface_to_face,offset)
end
for d = 0:(D-1)
for j in (d+1):D
dface_to_jfaces = get_faces(grid_topology,d,j)
dface_to_label = dim_to_face_to_label[d+1]
jface_to_label = dim_to_face_to_label[j+1]
_fix_dface_to_label!(dface_to_label,jface_to_label,dface_to_jfaces)
end
end
end
function _apply_offset_for_cells!(cell_to_label,cell_to_entity,offset)
ncells = length(cell_to_label)
for cell in 1:ncells
entity = cell_to_entity[cell]
cell_to_label[cell] = entity+offset
end
end
function _apply_offset_for_faces!(face_to_label,gface_to_entity,gface_to_face,offset)
ngfaces = length(gface_to_face)
for gface in 1:ngfaces
entity = gface_to_entity[gface]
face = gface_to_face[gface]
face_to_label[face] = entity+offset
end
end
function _setup_gface_to_face(
node_to_vertex,
face_to_nodes,
node_to_faces,
gface_to_nodes)
gface_to_face = _find_gface_to_face(
node_to_vertex,
face_to_nodes.data,
face_to_nodes.ptrs,
node_to_faces.data,
node_to_faces.ptrs,
gface_to_nodes.data,
gface_to_nodes.ptrs)
gface_to_face
end
function _find_gface_to_face(
node_to_vertex,
face_to_nodes_data,
face_to_nodes_ptrs,
node_to_faces_data::AbstractVector{T},
node_to_faces_ptrs,
gface_to_nodes_data,
gface_to_nodes_ptrs) where T
ngfaces = length(gface_to_nodes_ptrs) - 1
gface_to_face = fill(T(UNSET),ngfaces)
n = max_cells_around_vertex(node_to_faces_ptrs)
faces_around = fill(UNSET,n)
faces_around_scratch = fill(UNSET,n)
_fill_gface_to_face!(
gface_to_face,
node_to_vertex,
face_to_nodes_data,
face_to_nodes_ptrs,
node_to_faces_data,
node_to_faces_ptrs,
gface_to_nodes_data,
gface_to_nodes_ptrs,
faces_around,
faces_around_scratch)
gface_to_face
end
function _fill_gface_to_face!(
gface_to_face,
node_to_vertex,
face_to_nodes_data,
face_to_nodes_ptrs,
node_to_faces_data,
node_to_faces_ptrs,
gface_to_nodes_data,
gface_to_nodes_ptrs,
faces_around,
faces_around_scratch)
ngfaces = length(gface_to_nodes_ptrs) - 1
nfaces_around = UNSET
nfaces_around_scratch = UNSET
for gface in 1:ngfaces
a = gface_to_nodes_ptrs[gface]-1
b = gface_to_nodes_ptrs[gface+1]
nlnodes = b-(a+1)
for lnode in 1:nlnodes
node = gface_to_nodes_data[lnode+a]
vertex = node_to_vertex[node]
if lnode == 1
nfaces_around = _fill_cells_around_scratch!(
faces_around,
vertex,
node_to_faces_data,
node_to_faces_ptrs)
elseif vertex != UNSET
nfaces_around_scratch = _fill_cells_around_scratch!(
faces_around_scratch,
vertex,
node_to_faces_data,
node_to_faces_ptrs)
_set_intersection!(
faces_around,faces_around_scratch,
nfaces_around,nfaces_around_scratch)
end
end
for face in faces_around
if face != UNSET
gface_to_face[gface] = face
break
end
end
end
end
function _fix_dface_to_label!(dface_to_label,jface_to_label,dface_to_jfaces)
ndfaces = length(dface_to_label)
@assert ndfaces == length(dface_to_jfaces)
for dface in 1:ndfaces
dlabel = dface_to_label[dface]
if dlabel != UNSET
continue
end
jfaces = dface_to_jfaces[dface]
for jface in jfaces
jlabel = jface_to_label[jface]
if jlabel != UNSET
dface_to_label[dface] = jlabel
break
end
end
end
end
function _setup_tag_to_name(dim_to_group_to_name)
tag_to_name = String[]
tag_to_groups = Vector{Tuple{Int,Int}}[]
name_to_tag = Dict{String,Int}()
tag = 1
for (dim, group_to_name) in enumerate(dim_to_group_to_name)
for (id,name) in enumerate(group_to_name)
group = (dim,id)
if !haskey(name_to_tag,name)
push!(tag_to_name,name)
groups = [group,]
push!(tag_to_groups,groups)
name_to_tag[name] = tag
tag += 1
else
_tag = name_to_tag[name]
groups = tag_to_groups[_tag]
push!(groups,group)
end
end
end
(tag_to_name, tag_to_groups, name_to_tag)
end
function _setup_tag_to_labels(
tag_to_groups,dim_to_group_to_entities,dim_to_offset)
tag_to_labels = Vector{Int}[]
for groups in tag_to_groups
labels = Int[]
for group in groups
dim, id = group
offset = dim_to_offset[dim]
entities = dim_to_group_to_entities[dim][id]
for entity in entities
label = entity + offset
push!(labels,label)
end
end
push!(tag_to_labels,labels)
end
tag_to_labels
end
## Parallel related
function GmshDiscreteModel(parts::AbstractVector, args...;kwargs...)
GmshDiscreteModel(parts,args...;kwargs...) do g,np
if np == 1
fill(Int32(1),size(g,1))
else
Metis.partition(g,np)
end
end
end
function GmshDiscreteModel(
do_partition,
parts::AbstractVector,
args...;kwargs...)
smodel = GmshDiscreteModel(args...;kwargs...)
g = GridapDistributed.compute_cell_graph(smodel)
np = length(parts)
cell_to_part = do_partition(g,np)
DiscreteModel(parts,smodel,cell_to_part,g)
end
# Native serial Gridap if not parts given
function GmshDiscreteModel(parts::Nothing, args...;kwargs...)
GmshDiscreteModel(args...;kwargs...)
end
function Gridap.DiscreteModelFromFile(filename::AbstractString,::Val{:msh})
GmshDiscreteModel(filename)
end