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CSRMatrix.jl
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export CSRMatrix, insertGlobalValues
"""
An implementation of [`RowMatrix`](@ref) that uses CSR format
"""
mutable struct CSRMatrix{Data <: Number, GID <: Integer, PID <: Integer, LID <: Integer} <: RowMatrix{Data, GID, PID, LID}
rowMap::BlockMap{GID, PID, LID}
colMap::Union{BlockMap{GID, PID, LID}, Nothing}
importMV::Union{MultiVector{Data, GID, PID, LID}, Nothing}
exportMV::Union{MultiVector{Data, GID, PID, LID}, Nothing}
myGraph::CSRGraph{GID, PID, LID}
localMatrix::LocalCSRMatrix{Data, LID}
values2D::Array{Array{Data, 1}, 1}
#pull storageStatus and fillComplete from graph
#Dict keys are row indices
#first element of each tuple is a column index
#second element of each tuple is the matching entry
nonlocals::Dict{GID, Tuple{Array{Data, 1}, Array{GID, 1}}}
plist::Dict
function CSRMatrix{Data, GID, PID, LID}(rowMap::BlockMap{GID, PID, LID}, colMap::Union{BlockMap{GID, PID, LID}, Nothing}, myGraph::CSRGraph{GID, PID, LID}, localMatrix::LocalCSRMatrix{Data, LID}, plist::Dict) where {Data, GID, PID, LID}
#allocate values
localNumRows = getLocalNumRows(myGraph)
if getProfileType(myGraph) == STATIC_PROFILE
ptrs = myGraph.rowOffsets
localTotalNumEntries = ptrs[localNumRows+1]
resize!(localMatrix.values, localTotalNumEntries)
values2D = Array{Array{Data, 1}, 1}(undef, 0)
else #DYNAMIC_PROFILE
if isLocallyIndexed(myGraph)
graphIndices = myGraph.localIndices2D
else
graphIndices = myGraph.globalIndices2D
end
values2D = Array{Array{Data, 1}, 1}(undef, localNumRows)
for r = 1:length(graphIndices)
values2D[r] = Array{Data, 1}(undef, length(graphIndices[r]))
end
end
new(rowMap,
colMap,
nothing,
nothing,
myGraph,
localMatrix,
values2D,
Dict{GID, Tuple{Array{Data, 1}, Array{GID, 1}}}(),
plist)
end
end
#### Constructors ####
"""
CSRMatrix(rowMap::BlockMap, maxNumEntriesPerRow::Union{Integer, Array}, pftype::ProfileType, plist...)
creates a new CSRMatrix based on the row map and number of entries per row (plist as ...)
"""
function CSRMatrix{Data}(rowMap::BlockMap{GID, PID, LID},
maxNumEntriesPerRow::Union{Integer, Array{<:Integer, 1}},
pftype::ProfileType; plist...) where {Data, GID, PID, LID}
CSRMatrix{Data}(rowMap, maxNumEntriesPerRow, pftype, Dict(plist))
end
"""
CSRMatrix(rowMap::BlockMap, maxNumEntriesPerRow::Union{Integer, Array}, pftype::ProfileType, plist::Dict)
creates a new CSRMatrix based on the row map and number of entries per row (plist as Dict)
"""
function CSRMatrix{Data}(rowMap::BlockMap{GID, PID, LID},
maxNumEntriesPerRow::Union{Integer, Array{<:Integer, 1}},
pftype::ProfileType, plist::Dict) where {Data, GID, PID, LID}
CSRMatrix{Data}(rowMap, nothing,
maxNumEntriesPerRow, pftype, plist)
end
#= These should be covered by the following constructor
function CSRMatrix{Data}(rowMap::BlockMap{GID, PID, LID},
colMap::BlockMap{GID, PID, LID},
maxNumEntriesPerRow::Union{Integer, Array{<:Integer, 1}},
pftype::ProfileType; plist...) where {Data, GID, PID, LID}
CSRMatrix{Data}(rowMap, colMap, maxNumEntriesPerRow, pftype, Dict(plist))
end
function CSRMatrix{Data}(rowMap::BlockMap{GID, PID, LID},
colMap::BlockMap{GID, PID, LID},
maxNumEntriesPerRow::Union{Integer, Array{<:Integer, 1}},
pftype::ProfileType, plist::Dict) where {Data, GID, PID, LID}
CSRMatrix{Data}(rowMap, colMap, maxNumEntriesPerRow,
pftype, plist)
end
=#
"""
CSRMatrix(rowMap::BlockMap, colMap::Union{BlockMap, Nothing}, maxNumEntriesPerRow::Union{Integer, Array}, pftype::ProfileType,
plist...)
creates a new CSRMatrix based on the row map, col map, and number of entries per row (plist as ...)
"""
function CSRMatrix{Data}(rowMap::BlockMap{GID, PID, LID},
colMap::Union{BlockMap{GID, PID, LID}, Nothing},
maxNumEntriesPerRow::Union{Integer, Array{<:Integer, 1}},
pftype::ProfileType; plist...) where {Data, GID, PID, LID}
CSRMatrix{Data}(rowMap, colMap, maxNumEntriesPerRow, pftype, Dict(plist))
end
"""
CSRMatrix(rowMap::BlockMap, colMap::Union{BlockMap, Nothing}, maxNumEntriesPerRow::Union{Integer, Array}, pftype::ProfileType,
plist::Dict)
creates a new CSRMatrix based on the row map, col map, and number of entries per row (plist as Dict)
"""
function CSRMatrix{Data}(rowMap::BlockMap{GID, PID, LID},
colMap::Union{BlockMap{GID, PID, LID}, Nothing},
maxNumEntriesPerRow::Union{Integer, Array{<:Integer, 1}},
pftype::ProfileType, plist::Dict) where {Data, GID, PID, LID}
graph = CSRGraph(rowMap, maxNumEntriesPerRow, pftype, plist)
matrix = CSRMatrix{Data, GID, PID, LID}(rowMap, colMap,
graph, LocalCSRMatrix{Data, LID}(), plist)
resumeFill(matrix, plist)
matrix
end
"""
CSRMatrix(graph:CSRGraph, plist...)
creates a new CSRMatrix based on the CSRMap (plist as ...)
"""
function CSRMatrix{Data}(graph::CSRGraph{GID, PID, LID}; plist...
) where {Data, GID, PID, LID}
CSRMatrix{Data}(graph, Dict(plist))
end
"""
CSRMatrix(graph:CSRGraph, plist::Dict)
creates a new CSRMatrix based on the CSRMap (plist as Dict)
"""
function CSRMatrix{Data}(graph::CSRGraph{GID, PID, LID},plist::Dict
) where {Data, GID, PID, LID}
numCols = numMyElements(getColMap(graph))
localGraph = getLocalGraph(graph)
val = Array{Data, 1}(undef, length(localGraph.entries))
localMatrix = LocalCSRMatrix(numCols, val, localGraph)
CSRMatrix(graph.rowMap, graph.colMap, graph, localMatrix, plist)
end
"""
CSRMatrix(rowMap::BlockMap, colMap::BlockMap, rowOffsets::AbstractArray, colIndices::AbstractArray, values::AbstractArray, plist...)
creates a new CSRMatrix based on a row and col maps and the CSR format (plist as ...)
"""
function CSRMatrix(rowMap::BlockMap{GID, PID, LID}, colMap::BlockMap{GID, PID, LID},
rowOffsets::AbstractArray{LID, 1}, colIndices::AbstractArray{LID, 1}, values::AbstractArray{Data, 1};
plist...) where {Data, GID, PID, LID}
CSRMatrix(rowMap, colMap, rowOffsets, colIndices, values, Dict(plist))
end
"""
CSRMatrix(rowMap::BlockMap, colMap::BlockMap, rowOffsets::AbstractArray, colIndices::AbstractArray, values::AbstractArray, plist::Dict)
creates a new CSRMatrix based on a row and col maps and the CSR format (plist as Dict)
"""
function CSRMatrix(rowMap::BlockMap{GID, PID, LID}, colMap::BlockMap{GID, PID, LID},
rowOffsets::AbstractArray{LID, 1}, colIndices::AbstractArray{LID, 1}, values::AbstractArray{Data, 1},
plist::Dict) where {Data, GID, PID, LID}
#check user's input. Might throw on only some processes, causing deadlock
if length(values) != length(colIndices)
throw(InvalidArgumentError("values and columnIndices must "
* "have the same length"))
end
graph = CSRGraph(rowMap, colMap, rowOffsets, columnIndices, plist)
localGraph = getLocalGraph(graph)
numCols = numMyElements(getColMap(graph))
localMatrix = LocalCSRMatrix(numCols, values, localGraph)
CSRMatrix(rowMap, colMap, graph, localMatrix, plist)
end
"""
CSRMatrix(rowMap::BlockMap, colMap::BlockMap, localMatrix::LocalCSRMatrix plist...)
creates a new CSRMatrix based on a row and col maps and a local CSR matrix (plist as ...)
"""
function CSRMatrix(rowMap::BlockMap{GID, PID, LID}, colMap::BlockMap{GID, PID, LID},
localMatrix::LocalCSRMatrix{Data, LID}; plist...
) where {Data, GID, PID, LID}
CSRMatrix(rowMap, colMap, localMatrix, Dict(plist))
end
"""
CSRMatrix(rowMap::BlockMap, colMap::BlockMap, localMatrix::LocalCSRMatrix plist::Dict)
creates a new CSRMatrix based on a row and col maps and a local CSR matrix (plist as Dict)
"""
function CSRMatrix(rowMap::BlockMap{GID, PID, LID}, colMap::BlockMap{GID, PID, LID},
localMatrix::LocalCSRMatrix{Data, LID}, plist::Dict
) where {Data, GID, PID, LID}
graph = CSRGraph(rowMap, colMap, localMatrix.graph, plist)
matrix = CSRMatrix(rowMap, colMap, graph, localMatrix, plist)
computeGlobalConstants(matrix)
matrix
end
"""
CSRMatrix(rowMap::BlockMap, colMap::BlockMap, localMatrix::AbstractArray, plist...)
creates a new CSRMatrix based on a row and col maps and a local matrix (plist as ...)
"""
function CSRMatrix(rowMap::BlockMap{GID, PID, LID}, colMap::BlockMap{GID, PID, LID},
localMatrix::AbstractArray{Data, 2}; plist...
) where {Data, GID, PID, LID}
CSRMatrix(rowmap, colMap, localMatrix, Dict(plist))
end
"""
CSRMatrix(rowMap::BlockMap, colMap::BlockMap, localMatrix::AbstractArray, plist::Dict)
creates a new CSRMatrix based on a row and col maps and a local matrix (plist as Dict)
"""
function CSRMatrix(rowMap::BlockMap{GID, PID, LID}, colMap::BlockMap{GID, PID, LID},
localMatrix::AbstractArray{Data, 2}, plist::Dict
) where {Data, GID, PID, LID}
linearIndices = find(x -> x!=0, localMatrix)
rowIndicesIter, colIndicesIter, valuesIter = zip(
sort!(collect(zip(ind2sub(size(localMatrix), linearIndices)...,
localMatrix[linearIndices])))...)
rowIndices = collect(rowIndicesIter)
rowOffsets = Array{LID, 1}(undef, size(localMatrix, 1)+1)
row = 1
for i in LID(1):LID(length(rowIndices))
if rowIndices[i] > row
row += 1
rowOffsets[row] = i
end
end
rowOffsets[length(rowOffsets)] = length(rowIndices)+1
CSRMatrix(rowMap, colMap, rowOffsets,
collect(colIndicesIter), collect(valuesIter), plist)
end
#### Internal methods ####
"""
combineGlobalValues inserts the global row into the given matrix
"""
function combineGlobalValues(matrix::CSRMatrix{Data, GID, PID, LID},
globalRow::GID, indices::AbstractArray{GID, 1},
values::AbstractArray{Data, 1}, cm::CombineMode
) where {Data, GID, PID, LID}
if cm == ADD || cm == INSERT
insertGlobalValuesFiltered(globalRow, indices, values)
else
#TODO implement ABSMAX and REPLACE
#not implmenented in TPetra, because its not a common use case and difficult (see FIXME on line 6225)
throw(InvalidArgumentError("Not yet implemented for combine mode $cm"))
end
end
#does nothing, exists only to be a parallel to CSRGraph
computeGlobalConstants(matrix::CSRMatrix) = nothing
#Tpetra's only clears forbNorm, exists only to be a parallel to CSRGraph
clearGlobalConstants(matrix::CSRMatrix) = nothing
"""
globalAssemble sorts/assembles the matrix
"""
function globalAssemble(matrix::CSRMatrix)
comm = getComm(matrix)
if !isFillActive(matrix)
throw(InvalidStateError("Fill must be active to call this method"))
end
myNumNonLocalRows = length(matrix.nonlocals)
nooneHasNonLocalRows = maxAll(comm, myNumNonLocalRows == 0)
if nooneHasNonLocalRows
#no process has nonlocal rows, so nothing to do
return
end
#nonlocalRowMap = BlockMap{GID, PID, LID}()
numEntPerNonlocalRow = Array{Integer, 1}(undef, numNonLocalRows)
myNonlocalGlobalRows = Array{GID, 1}(undef, numNonLocalRows)
curPos = 1
for (key, val) in matrix.nonlocal
myNonlocalGlobalRows[curPos] = key
values = val[1]
globalColumns = val[2]
order = sortperm(globalColumns)
permute!(globalColumns, order)
permute!(values, order)
curPos += 1
end
#merge2
if length(globalColumns) > 0
setIndex = 1
valuesSum = 0
currentIndex = globalColumns[1]
for i = 1:length(globalColumns)
if currentIndex != globalColumns[i]
values[setIndex] = valuesSum
globalColumns[setIndex] = currentIndex
setIndex += 1
valuesSum = 0
end
valuesSum += values[i]
i += 1
end
values[setIndex] = valuesSum
globalColumns[setIndex] = currentIndex
resize!(values, setIndex)
resize!(globalColumns, setIndex)
end
numEntPerNonloalRow[curPose] = length(globalColumns)
#don't need to worry about finding the indexBase
nonlocalRowMap = BlockMap(0, myNonlocalGlobalRows, comm)
nonlocalMatrix = CSRMatrix(nonlocalRowMap, numEntPernonlocalRow, STATIC_PROFILE)
curPos = 1
for (key, val) in matrix.nonlocals
globalRow = key
vals = val[1]
globalCols = val[2]
insertGlobalValues(nonlocalMatrix, globalRow, globalCols, vals)
end
origRowMap = rowMap(matrix)
origRowMapIsOneToOne = isOneToOne(origRowMap)
if origRowMapIsOneToOne
exportToOrig = Export(nonlocalRowMap, origRowMap)
isLocallyComplete = isLocallyComplete(exportToOrig)
doExport(nonlocalMatrix, matrix, exportToOrig, ADD)
else
oneToOneRowMap = createOneToOne(origRowMap)
exportToOneToOne = Export(nonlocalRowMap, oneToOneRowMap)
isLocallyComplete = isLocallyComplete(exportToOneToOne)
oneToOneMatrix = CSRMatrix{Data}(oneToOneRowMap, 0)
doExport(nonlocalMatrix, onToOneMatrix, exportToOneToOne, ADD)
#nonlocalMatrix = null
importToOrig = Import(oneToOneRowMap, origRowMap)
doImport(oneToOneMatrix, matrix, importToOrig, ADD)
end
empty!(matrix.nonlocals)
globallyComplete = minAll(comm, isLocallyComplete)
if !globallyComplete
throw(InvalidArgumentError("On at least one process, insertGlobalValues "
* "was called with a global row index which is not in the matrix's "
* "row map on any process in its communicator."))
end
end
"""
fillLocalGraphAndMatrix takes a matrix and fills with a local matrix info
"""
function fillLocalGraphAndMatrix(matrix::CSRMatrix{Data, GID, PID, LID},
plist::Dict) where {Data, GID, PID, LID}
localNumRows = getLocalNumRows(matrix)
myGraph = matrix.myGraph
localMatrix = matrix.localMatrix
matrix.localMatrix.graph.entries = myGraph.localIndices1D
#most of the debug sections were taken out
if getProfileType(matrix) == DYNAMIC_PROFILE
numRowEntries = myGraph.numRowEntries
ptrs = Array{LID, 1}(undef, localNumRows+1)
localTotalNumEntries = computeOffsets(ptrs, numRowEntries)
inds = Array{LID, 1}(undef, localTotalNumEntries)
#work around type instability required by localMatrix.values
vals_concrete = Array{Data, 1}(undef, localTotalNumEntries)
vals = vals_concrete
localIndices2D = myGraph.localIndices2D
for row = 1:localNumRows
numEntries = numRowEntries[row]
dest = range(ptrs[row], step=1, length=numEntries)
inds[dest] = localIndices2D[row][1:numEntries]
vals_concrete[dest] = matrix.values2D[row][1:numEntries]
end
elseif getProfileType(matrix) == STATIC_PROFILE
curRowOffsets = myGraph.rowOffsets
if myGraph.storageStatus == STORAGE_1D_UNPACKED
#pack row offsets into ptrs
localTotalNumEntries = 0
ptrs = Array{LID, 1}(undef, localNumRows + 1)
numRowEntries = myGraph.numRowEntries
localTotalNumEntries = computeOffsets(ptrs, numRowEntries)
inds = Array{LID, 1}(undef, localTotalNumEntries)
#work around type instability required by localMatrix.values
vals_concrete = Array{Data, 1}(undef, localTotalNumEntries)
vals = vals_concrete
#line 1234
for row in 1:localNumRows
srcPos = curRowOffsets[row]
dstPos = ptrs[row]
dstEnd = ptrs[row+1]-1
dst = dstPos:dstEnd
src = srcPos:srcPos+dstEnd-dstPos
inds[dst] = myGraph.localIndices1D[src]
vals_concrete[dst] = localMatrix.values[src]
end
else
#dont have to pack, just set pointers
ptrs = myGraph.rowOffsets
inds = myGraph.localIndices1D
vals = localMatrix.values
end
end
#to optimize storage, make matrix and myGraph emptry
if get(plist, :optimizeStorage, true)
empty!(myGraph.localIndices2D)
empty!(myGraph.numRowEntries)
empty!(matrix.values2D)
myGraph.rowOffsets = ptrs
myGraph.localIndices1D = inds
myGraph.pftype = STATIC_PROFILE
myGraph.storageStatus = STORAGE_1D_PACKED
end
myGraph.localGraph = LocalCSRGraph(inds, ptrs)
matrix.localMatrix = LocalCSRMatrix(myGraph.localGraph, vals, getLocalNumCols(matrix))
end
function insertNonownedGlobalValues(matrix::CSRMatrix{Data, GID, PID, LID},
globalRow::GID, indices::AbstractArray{GID, 1}, values::AbstractArray{Data, 1}
) where {Data, GID, PID, LID}
curRow = matrix.nonlocals[globalRow]
curRowVals = curRow[1]
curRowInds = curRow[2]
newCapacity = length(curRowInds) + length(indices)
append!(curRowVals, values)
append!(curRowInds, indices)
end
function getView(matrix::CSRMatrix{Data, GID, PID, LID}, rowInfo::RowInfo{LID})::AbstractArray{Data, 1} where {Data, GID, PID, LID}
if getProfileType(matrix) == STATIC_PROFILE && rowInfo.allocSize > 0
range = rowInfo.offset1D:rowInfo.offset1D+rowInfo.allocSize-LID(1)
baseArray = matrix.localMatrix.values
if baseArray isa Vector{Data}
view(matrix.localMatrix.values, range)
else
view(matrix.localMatrix.values, range)
end
elseif getProfileType(matrix) == DYNAMIC_PROFILE
baseArray = matrix.values2D[rowInfo.localRow]
view(baseArray, LID(1):LID(length(baseArray)))
else
Data[]
end
end
function getDiagCopyWithoutOffsets(rowMap, colMap, A::CSRMatrix{Data}) where {Data}
errCount = 0
D = Array{Data, 1}(undef, getNumLocalRows(A))
for localRowIndex = 1:length(D)
D[localRowIndex] = 0
globalIndex = gid(rowMap, localRowIndex)
localColIndex = lid(colMap, globalIndex)
if localColIndex != 0
colInds, vals = getLocalRowView(A, localRowIndex)
offset = 1
numEnt = length(curRow)
while offset <= numEnt
if colInds[offset] == localColIndex
break;
end
offset += 1
end
if offset > numEnt
errCount += 1
else
D[localRowIndex] = vals[offset]
end
end
end
D
end
function sortAndMergeIndicesAndValues(matrix::CSRMatrix{Data, GID, PID, LID},
sorted, merged) where {Data, GID, PID, LID}
graph = getGraph(matrix)
localNumRows = getLocalNumRows(graph)
totalNumDups = 0
for localRow in LID(1):localNumRows
rowInfo = getRowInfo(graph, localRow)
if !sorted
inds, vals = getLocalRowView(matrix, rowInfo)
order = sortperm(inds)
permute!(inds, order)
permute!(vals, order)
end
if !merged
totalNumDups += mergeRowIndicesAndValues(matrix, rowInfo)
end
recycleRowInfo(rowInfo)
end
if !sorted
graph.indicesAreSorted = true
end
if !merged
graph.nodeNumEntries -= totalNumDups
graph.noRedundancies = true
end
end
function mergeRowIndicesAndValues(matrix::CSRMatrix{Data, GID, PID, LID},
rowInfo::RowInfo{LID})::LID where {Data, GID, PID, LID}
graph = getGraph(matrix)
indsView, valsView = getLocalRowView(matrix, rowInfo)
if rowInfo.numEntries != 0
newend = 1
for cur in 2:rowInfo.numEntries
if indsView[newend]::LID != indsView[cur]::LID
#new entry, save it
newend += 1
indsView[newend] = indsView[cur]::LID
valsView[newend] = valsView[cur]::Data
else
#old entry, merge it
valsView[newend] += valsView[cur]::Data
end
end
else
newend = 0
end
graph.numRowEntries[rowInfo.localRow] = newend
rowInfo.numEntries - newend
end
#### External methods ####
"""
insertGlobalValues(matrix::CSRMatrix, globalRow::Integer, indices::AbstractArray, values::AbstractArray)
For a CSR matrix, insert values into the row at the indices given
"""
function insertGlobalValues(matrix::CSRMatrix{Data, GID, PID, LID}, globalRow::Integer,
indices::AbstractArray{GID, 1}, values::AbstractArray{Data, 1}
) where {Data, GID, PID, LID}
myGraph = matrix.myGraph
localRow = lid(getRowMap(matrix), globalRow)
if localRow == 0
insertNonownedGlobalValues(matrix, globalRow, indices, values)
else
numEntriesToInsert = length(indices)
if hasColMap(matrix)
colMap = getColMap(matrix)
for k = 1:numEntriesToInsert
if !myGID(colMap, indices[k])
throw(InvalidArgumentError("Attempted to insert entries into "
* "owned row $globalRow, at the following column indices "
* "$indices. At least one of those indices ($(indices[k])"
* ") is not in the column map on this process"))
end
end
end
rowInfo = getRowInfo(myGraph, localRow)
curNumEntries = rowInfo.numEntries
newNumEntries = curNumEntries + numEntriesToInsert
if newNumEntries > rowInfo.allocSize
if (getProfileType(matrix) == STATIC_PROFILE
&& newNumEntries > rowInfo.allocSize)
throw(InvalidArgumentError("number of new indices exceed "
* "statically allocated graph structure"))
end
updateGlobalAllocAndValues(myGraph, rowInfo, newNumEntries,
matrix.values2D[localRow])
recycleRowInfo(rowInfo)
rowInfo = getRowInfo(myGraph, localRow);
end
insertIndicesAndValues(myGraph, rowInfo, indices, getView(matrix, rowInfo),
values, GLOBAL_INDICES)
recycleRowInfo(rowInfo)
end
nothing
end
"""
resumeFill(matrix::CSRMatrix, plist::Dict)
Resume fill of a CSR matrix by calling resumeFill of a CSRGraph
"""
function resumeFill(matrix::CSRMatrix, plist::Dict)
resumeFill(matrix.myGraph, plist)
clearGlobalConstants(matrix)
#graph handles fillComplete variable
end
fillComplete(matrix::CSRMatrix; plist...) = fillComplete(matrix, Dict(plist))
"""
fillComplete(matrix::CSRMatrix, plist::Dict)
return a boolean of if matrix is filled based on graph
"""
function fillComplete(matrix::CSRMatrix, plist::Dict)
fillComplete(matrix, getRowMap(matrix), getRowMap(matrix), plist)
end
"""
fillComplete(matrix::CSRMatrix, domainMap::BlockMap, rangeMap::BlockMap, plist...)
return a boolean of if matrix is filled based on graph maps
"""
function fillComplete(matrix::CSRMatrix{Data, GID, PID, LID},
domainMap::BlockMap{GID, PID, LID}, rangeMap::BlockMap{GID, PID, LID};
plist...) where {Data, GID, PID, LID}
fillComplete(matrix, domainMap, rangeMap, Dict(plist))
end
"""
fillComplete(matrix::CSRMatrix, domainMap::BlockMap, rangeMap::BlockMap, plist::Dict)
return a boolean of if matrix is filled based on graph maps
"""
function fillComplete(matrix::CSRMatrix{Data, GID, PID, LID},
domainMap::BlockMap{GID, PID, LID}, rangeMap::BlockMap{GID, PID, LID},
plist::Dict) where {Data, GID, PID, LID}
if isFillComplete(matrix)
throw(InvalidStateError(
"Matrix cannot be fill complete when fillComplete(...) is called"))
end
myGraph = matrix.myGraph
assertNoNonlocalInserts = get(plist, :noNonlocalChanges, false)
#skipping sort ghosts stuff
numProcs = numProc(getComm(matrix))
needGlobalAssemble = !assertNoNonlocalInserts && numProcs > 1
if needGlobalAssemble
globalAssemble(matrix)
else
if numProcs == 1 && length(matrix.nonlocals) != 0
throw(InvalidStateError("Cannot have nonlocal entries on a serial run. An invalid entry is present."))
end
end
setDomainRangeMaps(myGraph, domainMap, rangeMap)
if !hasColMap(myGraph)
makeColMap(myGraph)
matrix.colMap = myGraph.colMap
end
makeIndicesLocal(myGraph)
sortAndMergeIndicesAndValues(matrix, isSorted(myGraph), isMerged(myGraph))
makeImportExport(myGraph)
computeGlobalConstants(myGraph)
myGraph.fillComplete = true
checkInternalState(myGraph)
fillLocalGraphAndMatrix(matrix, plist)
end
getProfileType(mat::CSRMatrix) = getProfileType(mat.myGraph)
isStorageOptimized(mat::CSRMatrix) = isStorageOptimized(mat.myGraph)
"""
getLocalDiagOffsets(matrix::CSRMatrix)
use the graph of the matrix to get the number of diagonal offsets
"""
function getLocalDiagOffsets(matrix::CSRMatrix{Data, GID, PID, LID})::AbstractArray{LID, 1} where {Data, GID, PID, LID}
graph = matrix.myGraph
localNumRows = getLocalNumRows(graph)
getLocalDiagOffsets(graph)
end
#### Row Matrix functions ####
getRowMap(mat::CSRMatrix) = mat.rowMap
hasColMap(mat::CSRMatrix) = !isnothing(mat.colMap)
getColMap(mat::CSRMatrix) = mat.colMap
getGraph(mat::CSRMatrix) = mat.myGraph
function setColumnMapMultiVector(mat::CSRMatrix{Data, GID, PID, LID}, mv::Union{MultiVector{Data, GID, PID, LID}, Nothing}) where {Data, GID, PID, LID}
mat.importMV = mv
end
function setRowMapMultiVector(mat::CSRMatrix{Data, GID, PID, LID}, mv::Union{MultiVector{Data, GID, PID, LID}, Nothing}) where {Data, GID, PID, LID}
mat.exportMV = mv
end
getColumnMapMultiVector(mat::CSRMatrix) = mat.importMV
getRowMapMultiVector(mat::CSRMatrix) = mat.exportMV
function getGlobalRowCopy(matrix::CSRMatrix{Data, GID, PID, LID},
globalRow::Integer
)::Tuple{Array{GID, 1}, Array{Data, 1}} where {Data, GID, PID, LID}
myGraph = matrix.myGraph
rowInfo = getRowInfoFromGlobalRow(myGraph, GID(globalRow))
viewRange = 1:rowInfo.numEntries
@boundscheck if rowInfo.localRow == 0
recycleRowInfo(rowInfo)
return (GID[], Data[])
end
@inbounds if isLocallyIndexed(myGraph)
colMap = getColMap(myGraph)
curLocalIndices = getLocalView(myGraph, rowInfo)[viewRange]
curGlobalIndices = @. gid(colMap, curLocalIndices)
else
curGlobalIndices = getGlobalView(myGraph, rowInfo)[viewRange]
end
@inbounds curValues = getView(matrix, rowInfo)[viewRange]
retVal = (curGlobalIndices, curValues)
recycleRowInfo(rowInfo)
retVal
end
function getGlobalRowCopy!(copy::Tuple{<:AbstractVector{<:Integer}, <:AbstractVector{Data}},
matrix::CSRMatrix{Data, GID, PID, LID}, localRow::GID)::LID where {Data, GID, PID, LID}
myGraph = matrix.myGraph
rowInfo = getRowInfoFromGlobalRow(myGraph, GID(globalRow))
viewRange = 1:rowInfo.numEntries
@boundscheck if rowInfo.localRow == 0
recycleRowInfo(rowInfo)
return LID(0)
end
numElts = rowInfo.numEntries
@inbounds dataView = getView(matrix, rowInfo)[viewRange]
@inbounds if isGloballyIndexed(myGraph)
indsView = getGlobalView(myGraph, rowInfo[viewRange])
for i in LID(1):numElts
copy[1][i] = indsView[i]
copy[2][i] = dataView[i]
end
else
colMap = getColMap(myGraph)
indsView = getLocalView(myGraph, rowInfo)[viewRange]
for i in LID(1):numElts
copy[1][i] = gid(colMap, indsView[i])
copy[2][i] = dataView[i]
end
end
recycleRowInfo(rowInfo)
numElts
end
function getLocalRowCopy(matrix::CSRMatrix{Data, GID, PID, LID},
localRow::Integer
)::Tuple{AbstractArray{LID, 1}, AbstractArray{Data, 1}} where {
Data, GID, PID, LID}
myGraph = matrix.myGraph
rowInfo = getRowInfo(myGraph, LID(localRow))
@boundscheck if rowInfo.localRow == 0
recycleRowInfo(rowInfo)
return (LID[], Data[])
end
viewRange = 1:rowInfo.numEntries
@inbounds if isLocallyIndexed(myGraph)
curLocalIndices = Vector{LID}(getLocalView(myGraph, rowInfo)[viewRange])
else
colMap = getColMap(myGraph)
curGlobalIndices = getGlobalView(myGraph, rowInfo)[viewRange]
curLocalIndices = @. lid(colMap, curLocalIndices)
end
@inbounds curValues = Array{Data}(getView(matrix, rowInfo)[viewRange])
retVal = (curLocalIndices, curValues)
recycleRowInfo(rowInfo)
retVal
end
function getLocalRowCopy!(copy::Tuple{<:AbstractVector{<:Integer}, <:AbstractVector{Data}},
matrix::CSRMatrix{Data, GID, PID, LID}, localRow::LID)::LID where {Data, GID, PID, LID}
myGraph = matrix.myGraph
rowInfo = getRowInfo(myGraph, LID(localRow))
viewRange = 1:rowInfo.numEntries
@boundscheck if rowInfo.localRow == 0
recycleRowInfo(rowInfo)
return LID(0)
end
numElts = rowInfo.numEntries
@inbounds dataView = getView(matrix, rowInfo)[viewRange]
@inbounds if isLocallyIndexed(myGraph)
indsView = getLocalView(myGraph, rowInfo[viewRange])
for i in LID(1):numElts
copy[1][i] = indsView[i]
copy[2][i] = dataView[i]
end
else
colMap = getColMap(myGraph)
indsView = getGlobalView(myGraph, rowInfo)[viewRange]
for i in LID(1):numElts
copy[1][i] = lid(colMap, indsView[i])
copy[2][i] = dataView[i]
end
end
recycleRowInfo(rowInfo)
numElts
end
function getGlobalRowView(matrix::CSRMatrix{Data, GID, PID, LID},
globalRow::Integer
)::Tuple{AbstractArray{GID, 1}, AbstractArray{Data, 1}} where {
Data, GID, PID, LID}
if isLocallyIndexed(matrix)
throw(InvalidStateError("The matrix is locally indexed, so cannot return a "
* "view of the row with global column indices. Use "
* "getGlobalRowCopy(...) instead."))
end
myGraph = matrix.myGraph
rowInfo = getRowInfoFromGlobalRow(myGraph, globalRow)
if rowInfo.localRow != 0 && rowInfo.numEntries > 0
viewRange = 1:rowInfo.numEntries
indices = getGlobalView(myGraph, rowInfo)[viewRange]
values = getView(matrix, rowInfo)[viewRange]
else
indices = GID[]
values = Data[]
end
recycleRowInfo(rowInfo)
(indices, values)
end
function getLocalRowView(matrix::CSRMatrix{Data, GID, PID, LID},
localRow::Integer
)::Tuple{AbstractArray{LID, 1}, AbstractArray{Data, 1}} where {
Data, GID, PID, LID}
rowInfo = getRowInfo(matrix.myGraph, LID(localRow))
retVal = getLocalRowView(matrix, rowInfo)
recycleRowInfo(rowInfo)
retVal
end
function getLocalRowView(matrix::CSRMatrix{Data, GID, PID, LID},
rowInfo::RowInfo{LID}
)::Tuple{AbstractArray{LID, 1}, AbstractArray{Data, 1}} where {
Data, GID, PID, LID}
if isGloballyIndexed(matrix)
throw(InvalidStateError("The matrix is globally indexed, so cannot return a "
* "view of the row with local column indices. Use "
* "getLocalalRowCopy(...) instead."))
end
myGraph = matrix.myGraph
if rowInfo.localRow != 0 && rowInfo.numEntries > 0
viewRange = LID(1):rowInfo.numEntries
indices = view(getLocalView(myGraph, rowInfo), viewRange)
values = view(getView(matrix, rowInfo), viewRange)
else
indices = LID[]
values = Data[]
end
(indices, values)
end
Base.@propagate_inbounds @inline function getLocalRowViewPtr(
matrix::CSRMatrix{Data, GID, PID, LID}, localRow::LID
)::Tuple{Ptr{LID}, Ptr{Data}, LID} where {Data, GID, PID, LID}
row = LID(localRow)
graph = matrix.myGraph
if getProfileType(graph) == STATIC_PROFILE
offset1D = graph.rowOffsets[row]
numEntries = (length(graph.numRowEntries) == 0 ?
graph.rowOffsets[row+1] - offset1D
: graph.numRowEntries[row])
if numEntries > 0
indicesPtr = pointer(graph.localIndices1D, offset1D)
rowValues = matrix.localMatrix.values
if rowValues isa SubArray{Data, 1, Vector{Data}, Tuple{UnitRange{LID}}, true}
valuesPtr = pointer(rowValues.parent, offset1D + rowValues.indexes[1].start)
elseif rowValues isa Vector{Data}
#else should be Vector, but assert anyways
valuesPtr = pointer(rowValues, offset1D)
else
error("localMatrix.values is of unsupported type $(typeof(rowValues)).")
end
return (indicesPtr, valuesPtr, numEntries)
else
return (C_NULL, C_NULL, 0)
end
else #dynamic profile
indices = graph.localIndices2D[row]
values = matrix.values2D[row]
return (pointer(indices, 0), pointer(values, 0), length(indices))