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setup3d.F90
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subroutine setup(fileName, fileType)
!***DESCRIPTION
!
! Written by Gaetan Kenway
!
! Abstract: setup3d is the main routine for setting up the 3D
! elliptic or hyperbolic mesh extrusion problem. The only input
! is the filename of an ascii-formatted plot3d file and
! information about a possible mirror.
!
! Ney Secco (2015-2016): Added boundary conditions and CGNS interface
!
! Description of Arguments
! Input:
! fileName : char* array : Filename of plot3d or cgns file.
! fileType : integer : 1-CGNS 2-Plot3d
use communication
use hypData
use hypInput
implicit none
! Input Arguments
character*(*), intent(in) :: fileName
integer(kind=intType), intent(in) :: fileType
! Working parameters
real(kind=realType), dimension(:, :), allocatable :: uniquePts, allEdgeNodes
integer(kind=intType), dimension(:), allocatable :: link, ptInd, nFace, localFace
integer(kind=intType), dimension(:), allocatable :: nte, ntePtr
integer(kind=intType), dimension(:, :), allocatable :: fullnPtr
integer(kind=intType), dimension(:, :), allocatable :: nodeConn
integer(kind=intType), dimension(:, :), allocatable :: directedNodeConn
integer(kind=intType), dimension(:), allocatable :: nEdge, nDirectedEdge
integer(kind=intType) :: nBlocks, nUnique, corners(4), iCorner
integer(kind=intType) :: nodeTotal, node1, node2, node3, node4
integer(kind=intType) :: iNode, evenNodes, minLevel, skip
integer(kind=intType) :: NODE_MAX, CELL_MAX
integer(kind=intType) :: nFaceNeighbours, firstID, nodeID, nextElemID
integer(kind=intType) :: nodeToAdd, faceToCheck, nodeToFind
integer(kind=intType) :: i, j, k, ii, jj, iii, jjj, ierr, iStart, iEnd
integer(kind=intType) :: isize, ind, icell, idim, BCToSet, il, jl, iEdge, iBCToSet
logical :: found
logical :: bcTopoError
logical :: bcError
character(5) :: faceStr
integer(kind=intType), dimension(:), pointer :: lPtr1, lPtr2
real(kind=realType), dimension(:, :), pointer :: xPtr, xPtrRowInward
real(kind=realType) :: xSum(3), vals(2, 3)
integer(kind=intType) :: mask(2, 3), nn(2), mm(2), f(3), iFace, jp2
! Only the root processor reads the mesh and does the initial processing:
rootProc: if (myid == 0) then
fType: if (fileType .eq. cgnsFileType) then ! We have a CGNS file
call readCGNS(fileName)
else if (fileType .eq. plot3dFileType) then ! We have a Plot3d file
call readPlot3d(fileName)
else if (fileType .eq. patchInput) then
! Nothing extra to do.
end if fType
! Before continue, we may need to possibly coarsen the input
! grids.
! First figure out how many times we can coarsen to prevent
minLevel = 100 ! Arbitrarly large
do ii = 1, nPatch
minLevel = min(minLevel, mgLevel(patchIO(ii)%il))
minLevel = min(minLevel, mgLevel(patchIO(ii)%jl))
end do
if (coarsen > minLevel) then
print *, ' ERROR: User specified coarsen is ', coarsen
print *, ' Can only coarsen ', minLevel, 'levels.'
stop
end if
! We now know is it 'safe' to coarsen the supplied number of levels.
skip = 2**(coarsen - 1)
allocate (patches(nPatch))
do ii = 1, nPatch
! Update the sizes
patches(ii)%il = (patchIO(ii)%il - 1) / skip + 1
patches(ii)%jl = (patchIO(ii)%jl - 1) / skip + 1
! Allocate the final sizes
allocate (patches(ii)%X(3, patches(ii)%il, patches(ii)%jl))
allocate (patches(ii)%l_index(patches(ii)%il, patches(ii)%jl))
allocate (patches(ii)%weights(patches(ii)%il, patches(ii)%jl))
patches(ii)%weights(:, :) = zero
! Copy in the values
do j = 1, patches(ii)%jl
do i = 1, patches(ii)%il
patches(ii)%X(:, i, j) = patchIO(ii)%X(:, (i - 1) * skip + 1, (j - 1) * skip + 1)
end do
end do
! Deallocate X the patchIO memory.
deallocate (patchIO(ii)%X)
end do
deallocate (patchIO)
! Now we can create the final connectivity
nodeTotal = 0
faceTotal = 0
do ii = 1, nPatch
nodeTotal = nodeTotal + patches(ii)%il * patches(ii)%jl
faceTotal = faceTotal + (patches(ii)%il - 1) * (patches(ii)%jl - 1)
end do
allocate (allEdgeNodes(3, nodeTotal), uniquePts(3, nodeTotal), link(nodeTotal))
! Assign edge nodes to allEdgeNodes
iNode = 0
do ii = 1, nPatch
do j = 1, patches(ii)%jl, patches(ii)%jl - 1
do i = 1, patches(ii)%il
iNode = iNode + 1
allEdgeNodes(:, iNode) = patches(ii)%X(:, i, j)
end do
end do
do i = 1, patches(ii)%il, patches(ii)%il - 1
do j = 2, patches(ii)%jl - 1
iNode = iNode + 1
allEdgeNodes(:, iNode) = patches(ii)%X(:, i, j)
end do
end do
end do
! Now we will call pointReduce to remove any repeated edge nodes.
! link maps from allEdgeNodes to uniquePts
if (noPointReduce) then
uniquePts = allEdgeNodes
nUnique = iNode
do i = 1, iNode
link(i) = i
end do
else
call pointReduce(allEdgeNodes, iNode, nodeTol, uniquePts, link, nUnique)
end if
! Dump edge/corner into l_index
iNode = 0
do ii = 1, nPatch
do j = 1, patches(ii)%jl, patches(ii)%jl - 1
do i = 1, patches(ii)%il
iNode = iNode + 1
patches(ii)%l_index(i, j) = link(iNode)
end do
end do
do i = 1, patches(ii)%il, patches(ii)%il - 1
do j = 2, patches(ii)%jl - 1
iNode = iNode + 1
patches(ii)%l_index(i, j) = link(iNode)
end do
end do
end do
! Now fill in the interior points into uniquePts/l_index
iNode = nUnique !Up to here nUnique only has the number of unique edge nodes
do ii = 1, nPatch
do j = 2, patches(ii)%jl - 1
do i = 2, patches(ii)%il - 1
iNode = iNode + 1
uniquePts(:, iNode) = patches(ii)%X(:, i, j)
patches(ii)%l_index(i, j) = iNode
end do
end do
end do
nUnique = iNode ! Now nUnique has the number of unique edge and interior nodes
write (*, "(a)", advance="no") '#--------------------#'
print "(1x)"
write (*, "(a)", advance="no") " Total Nodes: "
write (*, "(I7,1x)", advance="no") nodeTotal
print "(1x)"
write (*, "(a)", advance="no") " Unique Nodes:"
write (*, "(I7,1x)", advance="no") nUnique
print "(1x)"
write (*, "(a)", advance="no") " Total Faces: "
write (*, "(I7,1x)", advance="no") faceTotal
print "(1x)"
write (*, "(a)", advance="no") '#--------------------#'
print "(1x)"
! Free up all allocated memory up to here:
deallocate (link, allEdgeNodes)
! Create the conn array
allocate (fullConn(4, faceTotal))
jj = 0
do ii = 1, nPatch
do j = 1, patches(ii)%jl - 1
do i = 1, patches(ii)%il - 1
jj = jj + 1
fullConn(:, jj) = (/ &
patches(ii)%l_index(i, j), &
patches(ii)%l_index(i + 1, j), &
patches(ii)%l_index(i + 1, j + 1), &
patches(ii)%l_index(i, j + 1)/)
end do
end do
end do
! Determine if the normals are consistent:
print *, 'Normal orientation check ...'
! Allocate and initialize matrix that stores nodal connectivity directions
! I'm assuming that the maximum number of connections of a single node
! is 10
allocate (directedNodeConn(10, nUnique))
allocate (nodeConn(10, nUnique))
allocate (nEdge(nUnique), nDirectedEdge(nUnique))
nodeConn = 0
directedNodeConn = 0
nEdge = 0
nDirectedEdge = 0
! Loop over each face and increment elementes from the connectivity
! matrix acording to the connectivity direction.
do jj = 1, faceTotal
! Get nodes indices for this face
node1 = fullConn(1, jj)
node2 = fullConn(2, jj)
node3 = fullConn(3, jj)
node4 = fullConn(4, jj)
! Assign connections acording to their orientations
! The two routines are in 3D_utilities.F90
call assignN2NDirected(directedNodeConn, nDirectedEdge, node1, node2, 10, nUnique)
call assignN2NDirected(directednodeConn, nDirectedEdge, node2, node3, 10, nUnique)
call assignN2NDirected(directedNodeConn, nDirectedEdge, node3, node4, 10, nUnique)
call assignN2NDirected(directedNodeConn, nDirectedEdge, node4, node1, 10, nUnique)
!Here we must add two edges for each
call assignN2N(nodeConn, nEdge, node1, node2, 10, nUnique)
call assignN2N(nodeConn, nEdge, node1, node4, 10, nUnique)
call assignN2N(nodeConn, nEdge, node2, node3, 10, nUnique)
call assignN2N(nodeConn, nEdge, node2, node1, 10, nUnique)
call assignN2N(nodeConn, nEdge, node3, node4, 10, nUnique)
call assignN2N(nodeConn, nEdge, node3, node2, 10, nUnique)
call assignN2N(nodeConn, nEdge, node4, node1, 10, nUnique)
call assignN2N(nodeConn, nEdge, node4, node3, 10, nUnique)
end do
! Now check if we flagged any node during the assignments
if (minval(directedNodeConn) .eq. -1) then
! Say that the normals are wrong
print *, ' ERROR: Normal directions may be wrong'
print *, ' Check the following coordinates:'
! Print coordinates of nodes were the problem occurs
do i = 1, nUnique
if (directedNodeConn(1, i) .eq. -1) then
print *, uniquePts(:, i)
end if
end do
stop
else
! Say everything is ok
print *, 'Normals are consistent!'
end if
! We just determined the number of nodes conected to each
! node. Now we determine the number of faces connected to each
! node. These two pieces of information will determine the
! topology of the node.
allocate (nFace(nUnique))
nFace(:) = 0
do i = 1, faceTotal
do ii = 1, 4
nFace(fullConn(ii, i)) = nFace(fullConn(ii, i)) + 1
end do
end do
! Here we can determine the topology of every node in the
! mesh. The topology refers to the number of faces and edges each
! node is connected to.
print *, 'Determining topology ...'
allocate (fullTopoType(nUnique))
allocate (fullBCType(2, nUnique))
allocate (fullBCVal(2, 2, nUnique)) ! We can have 2 BC, and each
! can have 2 values.
! Initialze these to internal node, with defaultBC
fullTopoType = topoInternal
fullBCType = BCDefault
fullBCVal = huge(one) ! If we accidently use this and shouldn't,
! this should cause problems.
do i = 1, nUnique
if (nEdge(i) == 2 .and. nFace(i) == 1) then
! This is a corner
fullTopoType(i) = topoCorner
else if (nEdge(i) == 2 .and. nFace(i) == 2) then
! This is a degenerate corner. We can treat this as an
! internal node by using diagonals
fullTopoType(i) = topoInternal
else if (nEdge(i) == 3 .and. nface(i) == 2) then
! This is a regular edge
fullTopoType(i) = topoEdge
else if (nEdge(i) == 4 .and. nFace(i) == 2) then
! This is a bow-tie. We don't do that either.
print *, "Come on. A bow-tie? Really? No, we can't do that'"
stop
else if (nEdge(i) == 4 .and. nFace(i) == 3) then
! This is an L corner. In theory, we should be able to do
! this...but not yet
fullTopoType(i) = topoLCorner
else if (nEdge(i) == nFace(i)) then
! This is an internal node so we're ok.
fullTopoType(i) = topoInternal
else
! This is some really wonky combination which we assume we
! can't deal with. Flag this node.
fullTopoType(i) = topoUnknown
end if
end do
! Now check if we flagged any nodes during the assignments
if (minval(fullTopoType) .eq. topoUnknown) then
print *, ' ERROR: Unknown topology encountered'
print *, ' Check the following coordinates:'
! Print coordinates of flagged nodes
do i = 1, nUnique
if (fullTopoType(i) .eq. topoUnknown) then
write (*, '(*(1x,g0))') uniquePts(:, i), '(node has', nEdge(i), 'edges and', nFace(i), 'faces)'
end if
end do
stop
else
! Say everything is ok
print *, 'Topology complete.'
end if
! The nte stucture is like this:
!
! ntePtr(i)
! |
! V
! | face 1 | position of node i on face 1 | face 2 | position of node i on face 2 | ...
!
! This is why ntePtr is 2*sum(nFace) long
! Allocate the nodeToElem (nte) data array and the ptr array:
allocate (nte(2 * sum(nFace)), ntePtr(nUnique + 1))
ntePtr(1) = 1
do i = 1, nUnique
ntePtr(i + 1) = ntePtr(i) + nFace(i) * 2
end do
! Now fill-up the array
nFace(:) = 0
do i = 1, faceTotal
do ii = 1, 4
iNode = fullConn(ii, i)
jj = nFace(iNode)
! We store the index of the face, and index that this node
! is on the face
nte(ntePtr(iNode) + jj * 2) = i
nte(ntePtr(iNode) + jj * 2 + 1) = ii
! We need to keep track of the number we've already added.
nFace(iNode) = nFace(iNode) + 1
end do
end do
! nFace is now no longer needed...all the necessary info is in ntePtr
deallocate (nFace)
! Determine the maximum number of nodal neighbours. Node
! max must be at least 6 for the 3-corner nodes with a
! total of 6 cross-diagonal neighbours
NODE_MAX = 6
CELL_MAX = 0
do i = 1, nUnique
NODE_MAX = max(NODE_MAX, (ntePtr(i + 1) - ntePtr(i)) / 2)
CELL_MAX = max(CELL_MAX, (ntePtr(i + 1) - ntePtr(i)) / 2)
end do
! Finally we can get the final node pointer structure we need:
allocate (fullnPtr(NODE_MAX + 1, nUnique), fullcPtr(CELL_MAX + 1, nUnique))
nodeLoop: do iNode = 1, nUnique
internalNode: if (fullTopoType(iNode) == topoInternal) then
nFaceNeighbours = (ntePtr(iNode + 1) - ntePtr(iNode)) / 2
! Low-neighbour count nodes get doubles, others get all neighbours
if (nFaceNeighbours == 2 .or. nFaceNeighbours == 3) then
fullnPtr(1, iNode) = nFaceNeighbours * 2
else
fullnPtr(1, iNode) = nFaceNeighbours
end if
fullcPtr(1, iNode) = nFaceNeighbours
firstID = nte(ntePtr(iNode))
nodeID = mod(nte(ntePtr(iNode) + 1), 4) + 1
nextElemID = -1
iii = 2
jjj = 2
nodeLoopCycle: do while (nextElemID /= firstID)
if (nextElemID == -1) &
nextElemID = firstID
! Append the next node along that edge:
nodeToAdd = fullConn(mod(nodeID - 1, 4) + 1, nextElemID)
fullnPtr(iii, iNode) = nodeToAdd
fullcPtr(jjj, iNode) = nextElemID
iii = iii + 1
jjj = jjj + 1
! Add the diagonal if not regular node
if (nFaceNeighbours == 3 .or. nFaceNeighbours == 2) then
fullnPtr(iii, iNode) = fullConn(mod(nodeID, 4) + 1, nextElemID)
iii = iii + 1
end if
! And we need to find the face that contains the following node:
nodeToFind = fullConn(mod(nodeID + 1, 4) + 1, nextElemID)
found = .False.
jj = -1
findNextElement: do while (.not. found)
jj = jj + 1
! Find the next face
faceToCheck = nte(ntePtr(iNode) + jj * 2)
if (faceToCheck /= nextElemID) then
! Check the 4 nodes on this face
do ii = 1, 4
if (fullConn(ii, faceToCheck) == nodeToFind) then
nextElemID = faceToCheck
nodeID = ii
found = .True.
end if
end do
end if
end do findNextElement
end do nodeLoopCycle
else
! Not an internal node. Set all values to zero so we know
! they have not been processed yet:
fullNPtr(:, iNode) = 0
fullCPtr(:, iNode) = 0
end if internalNode
end do nodeLoop
! Check to make sure that there are only edge and interneral
! topology nodes if unattachedEdgesAreSymmetry is true: This can
! only be used for mirrored cases where all non interior nodes
! MUST be edges
if (unattachedEdgesAreSymmetry) then
do i = 1, nUnique
if (fullTopoType(i) /= topoInternal .and. fullTopoType(i) /= topoEdge) then
print *, "ERROR: A free corner or other topology that is not an "
print *, "edge was detected with the unattachedEdgesAreSymmetry option."
print *, "This option can only be used for configurations that become "
print *, "closed when mirrored."
stop
end if
end do
end if
! We have now set the fullNodePointer (fullnPtr) and the
! fullCellPointer (fullCPtr) for all internal nodes. These were
! straightforward since by definition they are fully surrounded
! by elements. We now have to set the nodes on boundaries. Since
! we will need to know the local structured topology it is easier
! to loop through the edges of the patches themselves and push
! the information to global node.
! First figure out which of the BCDefault edges are actually
! physical edges and assign them to be BCSplay OR Symmetry if the
! 'unattachedEdgesAreSymmetry" is true.
patchLoop0: do ii = 1, nPatch
il = patches(ii)%il
jl = patches(ii)%jl
edgeLoop0: do iEdge = 1, 4
select case (iEdge)
case (iLow)
iSize = jl
lPtr1 => patches(ii)%l_index(1, jl:1:-1)
xPtr => patches(ii)%x(:, 1, jl:1:-1)
case (iHigh)
iSize = jl
lPtr1 => patches(ii)%l_index(il, :)
xPtr => patches(ii)%x(:, il, :)
case (jLow)
iSize = il
lPtr1 => patches(ii)%l_index(:, 1)
xPtr => patches(ii)%x(:, :, 1)
case (jHigh)
iSize = il
lPtr1 => patches(ii)%l_index(il:1:-1, jl)
xPtr => patches(ii)%x(:, il:1:-1, jl)
end select
! Just check the n=2 node:
if (iSize > 2) then
i = 2
iNode = lPtr1(i)
if (fullTopoType(iNode) == topoEdge .and. BCs(iEdge, ii) == BCDefault) then
if (unattachedEdgesAreSymmetry) then
! Determine which symm type we need:
xSum(1) = sum(abs(xptr(1, :)))
xSum(2) = sum(abs(xptr(2, :)))
xSum(3) = sum(abs(xptr(3, :)))
! take dimension with lowest val
i = minloc(xSum, 1)
! However, if there are two dimensions with both xSum components
! being 0, we have the fringe case where an edge is directly
! on top of the coordinate axis.
! We need to look at the normals to find out which direction
! has the actual symmetry plane.
! Note the mod indexing only works in a zero base.
if (((xSum(mod(i, 3) + 1) - xSum(i)) < 1.e-10) .or. &
((xSum(mod(i + 1, 3) + 1) - xSum(i)) < 1.e-10)) then
print *, ""
print *, "WARNING: 'unattachedEdgesAreSymmetry' may fail when an"
print *, "edge is coincident with a coordinate axis. Set the"
print *, "symmetry BCs manually with the 'BC' option if you"
print *, "encounter negative volumes near the symmetry plane."
print *, ""
! Get the row of coordinates one inboard from the edge of the patch.
select case (iEdge)
case (iLow)
xPtrRowInward => patches(ii)%x(:, 2, jl:1:-1)
case (iHigh)
xPtrRowInward => patches(ii)%x(:, il - 1, :)
case (jLow)
xPtrRowInward => patches(ii)%x(:, :, 2)
case (jHigh)
xPtrRowInward => patches(ii)%x(:, il:1:-1, jl - 1)
end select
! Sum the absolute values of the vectors going from the
! edge to the first inboard coordinates.
xSum(1) = sum(abs(xPtrRowInward(1, :) - xptr(1, :)))
xSum(2) = sum(abs(xPtrRowInward(2, :) - xptr(2, :)))
xSum(3) = sum(abs(xPtrRowInward(3, :) - xptr(3, :)))
! Locate the max index for this sum of vectors.
! This is normal to the symmetry plane.
i = maxloc(xSum, 1)
end if
! Set the symmetry plane BCs according to which coordinate
! index corresponded to the edge coordinates being 0.
if (i == 1) then
BCs(iEdge, ii) = BCXSymm
else if (i == 2) then
BCs(iEdge, ii) = BCYSymm
else if (i == 3) then
BCs(iEdge, ii) = BCZSymm
end if
else
! Otherwise it must be a splay
BCs(iEdge, ii) = BCSplay
end if
end if
end if
end do edgeLoop0
end do patchLoop0
nAverage = 0
! error flag for issues with BCs or topology
bcError = .False.
bcTopoError = .False.
patchLoop: do ii = 1, nPatch
il = patches(ii)%il
jl = patches(ii)%jl
edgeLoop: do iEdge = 1, 4
select case (iEdge)
case (iLow)
lPtr1 => patches(ii)%l_index(1, jl:1:-1)
lPtr2 => patches(ii)%l_index(2, jl:1:-1)
xPtr => patches(ii)%x(:, 1, jl:1:-1)
iSize = jl
faceStr = 'iLow '
case (iHigh)
lPtr1 => patches(ii)%l_index(il, :)
lPtr2 => patches(ii)%l_index(il - 1, :)
xPtr => patches(ii)%x(:, il, :)
iSize = jl
faceStr = 'iHigh '
case (jLow)
lPtr1 => patches(ii)%l_index(:, 1)
lPtr2 => patches(ii)%l_index(:, 2)
xPtr => patches(ii)%x(:, :, 1)
iSize = il
faceStr = 'jLow '
case (jHigh)
lPtr1 => patches(ii)%l_index(il:1:-1, jl)
lPtr2 => patches(ii)%l_index(il:1:-1, jl - 1)
xPtr => patches(ii)%x(:, il:1:-1, jl)
iSize = il
faceStr = 'jHigh'
end select
edgeNodeLoop: do i = 1, iSize
iNode = lPtr1(i)
checkTopoType: if (fullTopoType(iNode) == topoInternal) then
! We don't have anything to do for this, BUT if the
! boundary condition is anything but BCDefault than
! it means someone explictly specifid it which is an
! error since this isn't *actually* a boundary condition
if (BCs(iEdge, ii) /= BCDefault) then
bcError = .True.
101 format(a, a, a, I3, a)
print 101, 'ERROR: A boundary condition was specifed for ', &
trim(faceStr), ' patch on Block', ii, ' but it is not a physical boundary.'
end if
else if (fullTopoType(iNode) == topoEdge) then
! By definition , edge topology nodes must have 3 neighbours
fullnPtr(1, iNode) = 3
if (i > 1 .and. i < iSize) then
! Edge topology, and internal to an edge, we can
! just read off the neighbours.
fullnPtr(2, iNode) = lPtr1(i + 1)
fullnPtr(3, iNode) = lPtr2(i)
fullnPtr(4, iNode) = lPtr1(i - 1)
fullBCType(1, iNode) = BCs(iEdge, ii)
! Set the possible boundary condition value
call setBCVal(fullBCType(1, iNode), xPtr(:, i), &
fullBCVal(1, :, iNode))
else
! This is an edge topology, but at the logical
! corner of a block. If some other edge has
! already set the BC for us, we can just skip,
! since they did the work.
if (BCs(iedge, ii) /= bcDefault) then
if (i == 1) then
fullnPTr(2, iNode) = lPtr1(i + 1)
fullnPTr(3, iNode) = lPtr2(i)
call addMissing(nodeConn(1:3, iNode), fullnPtr(2, iNode), fullNPtr(3, iNode), &
fullNPtr(4, iNode))
else ! other end
fullnPTr(3, iNode) = lPtr2(i)
fullnPTr(4, iNode) = lPtr1(i - 1)
call addMissing(nodeConn(1:3, iNode), fullnPtr(4, iNode), fullNPtr(3, iNode), &
fullNPtr(2, iNode))
end if
if (BCs(iEdge, ii) > fullBCType(1, iNode)) then
fullBCType(1, iNode) = BCs(iEdge, ii)
! Set the possible boundary condition value
call setBCVal(fullBCType(1, iNode), xPtr(:, i), &
fullBCVal(1, :, iNode))
end if
end if
end if
! Setting the cell pointer is common
fullcPtr(1, iNode) = 2
fullcPtr(2, iNode) = nte(ntePtr(iNode))
fullcPtr(3, iNode) = nte(ntePtr(iNode) + 2)
else if (fullTopoType(iNode) == topoCorner) then
! Do a sanity check: This should only occur if i==1 or i==iSize
if (i /= 1 .and. i /= iSize) then
print *, 'ERROR: Unknown corner topology error detected.', i, isize
bcTopoError = .True.
end if
! By definition , corner topology nodes must have 2 neighbours
fullnPtr(1, iNode) = 2
if (i == 1) then
fullnPtr(2, iNode) = lPtr1(i + 1)
fullnPtr(3, iNode) = lPtr2(i)
iBCToSet = 2
else ! Must be iSize
fullnPtr(2, iNode) = lPtr2(i)
fullnPtr(3, iNode) = lPtr1(i - 1)
iBCToSet = 1
end if
! Set BC
fullBCType(iBCToSet, iNode) = BCs(iEdge, ii)
! Set the possible boundary condition value
call setBCVal(fullBCType(iBCToSet, iNode), xPtr(:, i), &
fullBCVal(iBCToSet, :, iNode))
! Set the cell pointer for this node
fullcPtr(1, iNode) = 1
fullcPtr(2, iNode) = nte(ntePtr(iNode))
end if checkTopoType
end do edgeNodeLoop
end do edgeLoop
! We now do a special check to see if corners have boundary
! conditions that would require the averaging procedure. This
! will happen if the two neighbour nodes are constrained to
! the same plane. For example, having two ySymm conditions.
corners(1) = patches(ii)%l_index(1, 1)
corners(2) = patches(ii)%l_index(il, 1)
corners(3) = patches(ii)%l_index(il, jl)
corners(4) = patches(ii)%l_index(1, jl)
do iCorner = 1, 4
i = corners(iCorner) ! Node index
nn(1) = fullnPtr(2, i) ! Neighbour 1 index
nn(2) = fullnPtr(3, i) ! Neighbour 2 index
if (fullTopoType(i) == topoCorner) then
! It is an actual corner topology
mask = 0
vals = zero
do jj = 1, 2 ! Loop over the two neighbours and check
! their BC Type
select case (fullBCType(1, nn(jj)))
case (BCXSymm, BCXConst)
! This means the following: the 'jj' neighbour
! constrains the 'X' direction with value given in
! fullBCVal. The mask(jj, 1) says the 'jj'
! neighbour is constrained in 'x', with the value
! given by vals(jj, 1)
mask(jj, 1) = 1
vals(jj, 1) = fullBCVal(1, 1, nn(jj))
case (BCYSymm, BCYConst)
mask(jj, 2) = 1
vals(jj, 2) = fullBCVal(1, 1, nn(jj))
case (BCZSymm, BCZConst)
mask(jj, 3) = 1
vals(jj, 3) = fullBCVal(1, 1, nn(jj))
case (BCXYConst)
mask(jj, 1) = 1
mask(jj, 2) = 1
vals(jj, 1) = fullBCVal(1, 1, nn(jj))
vals(jj, 2) = fullBCVal(1, 2, nn(jj))
case (BCYZConst)
mask(jj, 2) = 1
mask(jj, 3) = 1
vals(jj, 2) = fullBCVal(1, 1, nn(jj))
vals(jj, 3) = fullBCVal(1, 2, nn(jj))
case (BCXZConst)
mask(jj, 1) = 1
mask(jj, 3) = 1
vals(jj, 1) = fullBCVal(1, 1, nn(jj))
vals(jj, 3) = fullBCVal(1, 2, nn(jj))
end select
end do
! Loop over each coordinate direction.
do jj = 1, 3
! Is the same coordinate constrained in each neighbour
if (mask(1, jj) == mask(2, jj) .and. mask(1, jj) == 1) then
! The same coordinate is constrained. Now check if
! the value is the essentially the same
if (abs(vals(1, jj) - vals(2, jj)) < nodeTol) then
fullBCType(:, i) = BCAverage
nAverage = nAverage + 1
end if
end if
end do
end if
end do
end do patchLoop
! if there was an error in the BC setup stop
if (bcError) then
stop
end if
do i = 1, nUnique
! Special loop for the LCorners
if (fullTopoType(i) == topoLCorner) then
! This is quite complicated. It has 4 neighbours. Two
! of the neighbours have edge topology, two of the
! neighbours have internal topology.
!
! +---------p2----------+
! | | |
! | x | |
! | | |
! p3--------p0----------p1----->
! | |
! | |
! | |
! +---------p4
! |
! |
! \|/
! Determine the two that have internal
! topology. These must be part of facex
ii = 0
jj = 0
do j = 1, 4
if (fullTopoType(nodeConn(j, i)) == topoInternal) then
ii = ii + 1
nn(ii) = nodeConn(j, i) ! Nodes on diagonal face x
else
jj = jj + 1
mm(jj) = nodeConn(j, i) ! Nodes on edge
end if
end do
! And the three faces
f(1) = nte(ntePtr(i))
f(2) = nte(ntePtr(i) + 2)
f(3) = nte(ntePtr(i) + 4)
do iFace = 1, 3
! Check if nn(1) is followed by nn(2)
do j = 1, 4
jp2 = mod(j + 1, 4) + 1
if (nn(1) == fullConn(j, f(iFace)) .and. nn(2) == fullConn(jp2, f(iFace))) then
fullnPtr(3, i) = nn(1)
fullnPtr(4, i) = nn(2)
else if (nn(2) == fullConn(j, f(iFace)) .and. nn(1) == fullConn(jp2, f(iFace))) then
fullnPtr(3, i) = nn(2)
fullnPtr(4, i) = nn(1)
end if
end do
end do
! We have now set the 'p2' and 'p3' nodes. We have to
! identify p1 and p4 which should be fairly easy now:
! This takes the missing one and adds it to the first spot
call addMissing(directedNodeConn(1:3, i), fullnPtr(3, i), fullnPtr(4, i), fullnPtr(2, i))
! Add the only other node in mm
if (mm(1) == fullnPtr(2, i)) then
fullnPtr(5, i) = mm(2)
else
fullnPtr(5, i) = mm(1)
end if
! By definition , Lcorner topology nodes must have 4 neighbours
fullnPtr(1, i) = 4
! Set the cell pointer for this node
fullcPtr(1, i) = 3
fullcPtr(2, i) = f(1)
fullcPtr(3, i) = f(2)
fullcPtr(4, i) = f(3)
! We need to set the BC Data here too.
fullBCType(1, i) = fullBCType(1, fullnPtr(2, i))
fullBCVal(1, :, i) = fullBCVal(1, :, fullnPtr(2, i))
fullBCType(2, i) = fullBCType(1, fullnPtr(5, i))
fullBCVal(2, :, i) = fullBCVal(1, :, fullnPtr(5, i))
end if
end do
if (nAverage > 0) then
print *, 'Corner averaging activated for ', nAverage, ' nodes.'
end if
! Do a sanity check to make sure that all nodes have their
! fullnPtr populated.
do i = 1, nUnique
if (fullNPtr(1, i) == 0) then
print *, 'There was a general error with topology computation for node:', uniquePts(:, i)
bcTopoError = .True.
end if
end do
! Another sanity check to make sure all nodes that are physically
! at edges have the required number of boundary conditions
! their fullnPtr populated.
do i = 1, nUnique
if (fullTopoType(i) == topoEdge .and. fullBCType(1, i) == BCDefault) then
print *, 'There was a missing boundary condition for edge node:', uniquePts(:, i)
bcTopoError = .True.
else if (fullTopoType(i) == topoCorner .and. (fullBCType(1, i) == BCDefault .or. &
fullBCType(2, i) == BCDefault)) then
print *, 'There was a missing boundary condition for corner node:', uniquePts(:, i)
bcTopoError = .True.
end if
end do
! if we ran into topology or BC errors, stop
if (bcTopoError) then
print *, 'pyHyp exited. See above errors.'
stop
end if
! Free up some more memory
deallocate (nte, ntePtr, directedNodeConn, nodeConn, nEdge, nDirectedEdge)
end if rootProc
! Now we can broadcast the required infomation to everyone. In fact
! all we need is the fullnPtr, fullcPtr and the full connectivity list
call MPI_Bcast(nUnique, 1, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(NODE_MAX, 1, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(CELL_MAX, 1, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(faceTotal, 1, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(nPatch, 1, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
! Allocate space on all procs EXCEPT the root:
if (myid /= 0) then
allocate (fullConn(4, faceTotal))
allocate (fullnPtr(NODE_MAX + 1, nUnique))
allocate (fullcPtr(CELL_MAX + 1, nUnique))
allocate (fullTopoType(nUnique))
allocate (fullBCType(2, nUnique))
allocate (fullBCVal(2, 2, nUnique))
allocate (uniquePts(3, nUnique))
end if
! Actual broadcasts
call MPI_Bcast(fullConn, 4 * faceTotal, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(fullnPtr, (NODE_MAX + 1) * nUnique, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(fullcPtr, (CELL_MAX + 1) * nUnique, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(uniquePts, 3 * nUnique, MPI_DOUBLE, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(fullTopoType, nUnique, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(fullBCType, 2 * nUnique, MPI_INTEGER, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
call MPI_Bcast(fullBCVal, 2 * 2 * nUnique, MPI_DOUBLE, 0, hyp_comm_world, ierr)
call EChk(ierr, __FILE__, __LINE__)
! We now do "partitioning". It is essentially tries to divide up the
! nodes as evenly as possible (which is always possible up to the
! number of procs) without any regard to the number of cuts or
! communication costs.
evenNodes = nUnique / nProc
istart = myid * evenNodes + 1
iend = istart + evenNodes - 1
if (myid + 1 == nProc) then
iend = nUnique