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Store Xdmf results in Mixed format

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Store element connectivity as "Mixed" format to Xdmf file. It's a long
list where first number is element code and then there is connectivity
data (starting from 0). Xdmf format does not support several
Topology-elements in Xml file format, so before it was not possible to
store e.g. both Tri3 and Quad4 elements in same problem. After this
commit this should now be possible. Paraview Xdmf3 reader is needed to
use.
This commit is contained in:
Jukka Aho
2018-09-20 19:59:45 +03:00
parent 4a57019d7b
commit e4916ebd1a
1 changed files with 67 additions and 19 deletions
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src/io.jl
+67 -19
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@@ -328,6 +328,29 @@ global const xdmf_element_mapping = Dict(
"Wedge15" => "Wedge_15",
"Hex20" => "Hex_20")
get_xdmf_element_code(::Element{Poi1}) = 1
get_xdmf_element_code(::Element{Seg2}) = 2
# get_xdmf_element_code(::Element{Polygon}) = 3
get_xdmf_element_code(::Element{Tri3}) = 4
get_xdmf_element_code(::Element{Quad4}) = 5
get_xdmf_element_code(::Element{Tet4}) = 6
get_xdmf_element_code(::Element{Pyr5}) = 7
get_xdmf_element_code(::Element{Wedge6}) = 8
get_xdmf_element_code(::Element{Hex8}) = 9
# get_xdmf_element_code(::Element{Polyhedron}) = 16
get_xdmf_element_code(::Element{Seg3}) = 34
get_xdmf_element_code(::Element{Quad9}) = 35
get_xdmf_element_code(::Element{Tri6}) = 36
get_xdmf_element_code(::Element{Quad8}) = 37
get_xdmf_element_code(::Element{Tet10}) = 38
# get_xdmf_element_code(::Element{Pyr13}) = 39
get_xdmf_element_code(::Element{Wedge15}) = 40
# get_xdmf_element_code(::Element{Wedge18}) = 41
get_xdmf_element_code(::Element{Hex20}) = 48
# get_xdmf_element_code(::Element{Hex24}) = 49
get_xdmf_element_code(::Element{Hex27}) = 50
"""
get_spatial_collection()
@@ -416,27 +439,48 @@ function update_xdmf!(xdmf::Xdmf, problem::Problem, time::Float64, fields::Vecto
add_child(geometry, X_dataitem)
# 5. save topology
all_elements = get_elements(problem)
nelements = length(all_elements)
element_types = unique(map(get_element_type, all_elements))
nelement_types = length(element_types)
@debug("Xdmf: Saving topology of $nelements elements total, $nelement_types different element types.")
for element_type in element_types
elements = collect(filter_by_element_type(element_type, all_elements))
nelements = length(elements)
@debug("Xdmf: $nelements elements of type $element_type")
sort!(elements, by=get_element_id)
element_ids = map(get_element_id, elements)
element_conn = map(element -> [node_mapping[j]-1 for j in get_connectivity(element)], elements)
element_conn = hcat(element_conn...)
element_code = split(string(element_type), ".")[end]
mesh_type = "unstructured"
if mesh_type == "unstructured"
element_conn = Int64[]
for element in get_elements(problem)
xdmf_element_code = get_xdmf_element_code(element)
xdmf_element_code > 0 || continue
push!(element_conn, xdmf_element_code)
if xdmf_element_code == 2
push!(element_conn, length(element))
end
for j in get_connectivity(element)
push!(element_conn, node_mapping[j]-1)
end
end
topology_dataitem = new_dataitem(xdmf, element_conn)
topology = new_child(frame, "Topology")
set_attribute(topology, "TopologyType", xdmf_element_mapping[element_code])
set_attribute(topology, "NumberOfElements", length(elements))
set_attribute(topology, "TopologyType", "Mixed")
add_child(topology, topology_dataitem)
else
all_elements = get_elements(problem)
nelements = length(all_elements)
element_types = unique(map(get_element_type, all_elements))
nelement_types = length(element_types)
@debug("Xdmf: Saving topology of $nelements elements total, $nelement_types different element types.")
if nelement_types != 1
error("Xdmf: only single type of element supported by structured grid type!")
end
for element_type in element_types
elements = collect(filter_by_element_type(element_type, all_elements))
nelements = length(elements)
@debug("Xdmf: $nelements elements of type $element_type")
sort!(elements, by=get_element_id)
element_ids = map(get_element_id, elements)
element_conn = map(element -> [node_mapping[j]-1 for j in get_connectivity(element)], elements)
element_conn = hcat(element_conn...)
element_code = split(string(element_type), ".")[end]
topology_dataitem = new_dataitem(xdmf, element_conn)
topology = new_child(frame, "Topology")
set_attribute(topology, "TopologyType", xdmf_element_mapping[element_code])
set_attribute(topology, "NumberOfElements", length(elements))
add_child(topology, topology_dataitem)
end
end
# 6. save requested fields
@@ -444,7 +488,11 @@ function update_xdmf!(xdmf::Xdmf, problem::Problem, time::Float64, fields::Vecto
field_dict = problem(field_name, time)
field_center = "Node"
field_node_ids = sort(collect(keys(field_dict)))
@assert node_ids == field_node_ids
if node_ids != field_node_ids
@error("geom node ids = $node_ids")
@error("field node ids = $field_node_ids")
error("!=, geometry does not match with field.")
end
field_dim = length(field_dict[first(field_node_ids)])
if field_dim == 2
@debug("Xdmf: Field dimension = 2, extending to 3")