1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
|
#### "ndenseMatrix" - virtual class of nonzero pattern dense matrices
#### ------------
#### Contains nge*; ntr*, ntp*; nsy*, nsp*; ndi*
### NOTA BENE: Much of this is *very* parallel to ./ldenseMatrix.R
### ~~~~~~~~~~~~~~~~
## packed <-> non-packed :
setAs("nspMatrix", "nsyMatrix", ## 1L for "n*", 0L for "l*" : vv
nsp2nsy <- function(from) .Call(lspMatrix_as_lsyMatrix, from, 1L))
setAs("nsyMatrix", "nspMatrix",
nsy2nsp <- function(from) .Call(lsyMatrix_as_lspMatrix, from, 1L))
setAs("ntpMatrix", "ntrMatrix",
ntp2ntr <- function(from) .Call(ltpMatrix_as_ltrMatrix, from, 1L))
setAs("ntrMatrix", "ntpMatrix",
ntr2ntp <- function(from) .Call(ltrMatrix_as_ltpMatrix, from, 1L))
## Nonzero Pattern -> Double {of same structure}:
setAs("ngeMatrix", "dgeMatrix", function(from) n2d_Matrix(from, "ngeMatrix"))
setAs("nsyMatrix", "dsyMatrix", function(from) n2d_Matrix(from, "nsyMatrix"))
setAs("nspMatrix", "dspMatrix", function(from) n2d_Matrix(from, "nspMatrix"))
setAs("ntrMatrix", "dtrMatrix", function(from) n2d_Matrix(from, "ntrMatrix"))
setAs("ntpMatrix", "dtpMatrix", function(from) n2d_Matrix(from, "ntpMatrix"))
setAs("ndenseMatrix", "ldenseMatrix", function(from) n2l_Matrix(from))
setAs("ngeMatrix", "lgeMatrix", function(from) n2l_Matrix(from, "ngeMatrix"))
setAs("nsyMatrix", "lsyMatrix", function(from) n2l_Matrix(from, "nsyMatrix"))
setAs("nspMatrix", "lspMatrix", function(from) n2l_Matrix(from, "nspMatrix"))
setAs("ntrMatrix", "ltrMatrix", function(from) n2l_Matrix(from, "ntrMatrix"))
setAs("ntpMatrix", "ltpMatrix", function(from) n2l_Matrix(from, "ntpMatrix"))
## all need be coercable to "ngeMatrix":
setAs("nsyMatrix", "ngeMatrix",
nsy2nge <- function(from) .Call(lsyMatrix_as_lgeMatrix, from, 1L))
setAs("ntrMatrix", "ngeMatrix",
ntr2nge <- function(from) .Call(ltrMatrix_as_lgeMatrix, from, 1L))
setAs("ntpMatrix", "ngeMatrix", function(from) ntr2nge(ntp2ntr(from)))
setAs("nspMatrix", "ngeMatrix", function(from) nsy2nge(nsp2nsy(from)))
## and the reverse
setAs("ngeMatrix", "ntpMatrix", function(from) ntr2ntp(as(from, "ntrMatrix")))
setAs("ngeMatrix", "nspMatrix", function(from) nsy2nsp(as(from, "nsyMatrix")))
### -> symmetric :
setAs("ngeMatrix", "nsyMatrix",
function(from) {
if(isSymmetric(from))
new("nsyMatrix", x = from@x, Dim = from@Dim,
Dimnames = from@Dimnames, factors = from@factors)
else
stop("not a symmetric matrix; consider forceSymmetric() or symmpart()")
})
setAs("ngeMatrix", "ntrMatrix",
function(from) {
if(isT <- isTriangular(from))
new("ntrMatrix", x = from@x, Dim = from@Dim,
Dimnames = from@Dimnames, uplo = attr(isT, "kind") %||% "U")
## TODO: also check 'diag'
else stop("not a triangular matrix")
})
### ldense* <-> "matrix" :
## 1) "nge* :
setAs("ngeMatrix", "matrix", ge2mat)
setAs("matrix", "ngeMatrix",
function(from) {
new("ngeMatrix",
x = as.logical(from),
Dim = as.integer(dim(from)),
Dimnames = .M.DN(from))
})
## 2) base others on "nge*":
setAs("matrix", "nsyMatrix",
function(from) as(as(from, "ngeMatrix"), "nsyMatrix"))
setAs("matrix", "nspMatrix", function(from) nsy2nsp(as(from, "nsyMatrix")))
setAs("matrix", "ntrMatrix",
function(from) as(as(from, "ngeMatrix"), "ntrMatrix"))
setAs("matrix", "ntpMatrix", function(from) ntr2ntp(as(from, "ntrMatrix")))
## Useful if this was called e.g. for as(*, "nsyMatrix"), but it isn't
setAs("matrix", "ndenseMatrix", function(from) as(from, "ngeMatrix"))
setAs("ndenseMatrix", "matrix", ## uses the above l*M. -> lgeM.
function(from) as(as(from, "ngeMatrix"), "matrix"))
## dense |-> compressed :
## go via "l" because dense_to_Csparse can't be used for "n" [missing CHOLMOD function]
setAs("ndenseMatrix", "CsparseMatrix",
function(from) as(as(as(from, "lMatrix"), "CsparseMatrix"), "nMatrix"))
setAs("ndenseMatrix", "nsparseMatrix",
function(from) as(as(as(from, "lMatrix"), "sparseMatrix"), "nMatrix"))
setAs("ndenseMatrix", "sparseMatrix", function(from) as(from, "nsparseMatrix"))
setAs("ndenseMatrix", "TsparseMatrix",
function(from) {
if(is(from, "generalMatrix")) {
## cheap but not so efficient:
ij <- which(as(from,"matrix"), arr.ind = TRUE, useNames = FALSE) - 1L
new("ngTMatrix", i = ij[,1], j = ij[,2],
Dim = from@Dim, Dimnames = from@Dimnames,
factors = from@factors)
}
else
## triangular or symmetric (have *no* diagonal nMatrix)
## is delicate {packed or not, upper /lower indices ..} -> easy way
as(as(as(from, "lMatrix"), "TsparseMatrix"), "nMatrix")
})
## Not sure, if these are needed or more efficient than the above:
## First one probably is
setAs("ngeMatrix", "ngTMatrix",
function(from) {
## cheap but not so efficient:
ij <- which(as(from,"matrix"), arr.ind = TRUE, useNames = FALSE) - 1L
new("ngTMatrix", i = ij[,1], j = ij[,2],
Dim = from@Dim, Dimnames = from@Dimnames,
factors = from@factors)
})
setAs("ngeMatrix", "ngCMatrix",
function(from) as(as(from, "ngTMatrix"), "ngCMatrix"))
setMethod("as.logical", signature(x = "ndenseMatrix"),
function(x, ...) as(x, "ngeMatrix")@x)
###----------------------------------------------------------------------
setMethod("t", signature(x = "ngeMatrix"), t_geMatrix)
setMethod("t", signature(x = "ntrMatrix"), t_trMatrix)
setMethod("t", signature(x = "nsyMatrix"), t_trMatrix)
setMethod("t", signature(x = "ntpMatrix"),
function(x) as(t(as(x, "ntrMatrix")), "ntpMatrix"))
setMethod("t", signature(x = "nspMatrix"),
function(x) as(t(as(x, "nsyMatrix")), "nspMatrix"))
## NOTE: "&" and "|" are now in group "Logic" c "Ops" --> ./Ops.R
## "!" is in ./not.R
setMethod("as.vector", "ndenseMatrix",
function(x, mode) as.vector(as(x, "ngeMatrix")@x, mode))
setMethod("norm", signature(x = "ndenseMatrix", type = "character"),
function(x, type, ...)
if(identical("2", type))
norm2(x)
else
.Call(dgeMatrix_norm, as(as(x,"dMatrix"),"dgeMatrix"), type),
valueClass = "numeric")
setMethod("rcond", signature(x = "ndenseMatrix", norm = "character"),
.rcond_via_d, valueClass = "numeric")
|
