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[matrix] Annotation of /pkg/Matrix/R/ddenseMatrix.R
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Annotation of /pkg/Matrix/R/ddenseMatrix.R

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Original Path: pkg/R/ddenseMatrix.R

1 : bates 686 ### Define Methods that can be inherited for all subclasses
2 :    
3 : maechler 1447 ## This replaces many "d..Matrix" -> "dgeMatrix" ones
4 :     ## >> but << needs all sub(sub(sub)) classes of "ddenseMatrix" listed
5 :     ## ----- in ../src/Mutils.c
6 : bates 1460
7 :     ## Should this method return 'from' without duplication when it has
8 :     ## class dgeMatrix?
9 : maechler 1447 setAs("ddenseMatrix", "dgeMatrix",
10 : bates 1463 function(from) {
11 :     if (class(from) != "dgeMatrix")
12 :     from <- .Call(dup_mMatrix_as_dgeMatrix, from)
13 :     from
14 :     })
15 : maechler 1575
16 : maechler 1447 ## d(ouble) to l(ogical):
17 : maechler 956 setAs("dgeMatrix", "lgeMatrix", d2l_Matrix)
18 :     setAs("dtrMatrix", "ltrMatrix", d2l_Matrix)
19 :     setAs("dtpMatrix", "ltpMatrix", d2l_Matrix)
20 :     setAs("dsyMatrix", "lsyMatrix", d2l_Matrix)
21 :     setAs("dspMatrix", "lspMatrix", d2l_Matrix)
22 :    
23 : bates 1460 setAs("ddenseMatrix", "CsparseMatrix",
24 :     function(from) {
25 :     if (class(from) != "dgeMatrix")
26 :     from <- .Call(dup_mMatrix_as_dgeMatrix, from)
27 :     .Call(dense_to_Csparse, from)
28 :     })
29 :    
30 :     ## special case
31 :     setAs("dgeMatrix", "dgCMatrix",
32 :     function(from) .Call(dense_to_Csparse, from))
33 :    
34 :     setAs("matrix", "CsparseMatrix",
35 : maechler 1618 function(from) {
36 :     if(is.numeric(from))
37 :     .Call(dense_to_Csparse, .Call(dup_mMatrix_as_dgeMatrix, from))
38 :     else if(is.logical(from)) ## FIXME: this works, but maybe wastefully
39 :     as(Matrix(from, sparse=TRUE), "CsparseMatrix")
40 :     else stop('not-yet-implemented coercion to "CsparseMatrix"')
41 :     })
42 : bates 1460
43 : maechler 1618
44 : bates 1460 ## special case needed in the Matrix function
45 :     setAs("matrix", "dgCMatrix",
46 :     function(from) {
47 :     storage.mode(from) <- "double"
48 :     .Call(dense_to_Csparse, from)
49 :     })
50 :    
51 :     setAs("numeric", "CsparseMatrix",
52 :     function(from)
53 :     .Call(dense_to_Csparse, .Call(dup_mMatrix_as_dgeMatrix, from)))
54 :    
55 : maechler 1391 setMethod("as.numeric", signature(x = "ddenseMatrix"),
56 :     function(x, ...) as(x, "dgeMatrix")@x)
57 :    
58 : maechler 792 ## -- see also ./Matrix.R e.g., for a show() method
59 :    
60 : bates 686 ## These methods are the 'fallback' methods for all dense numeric
61 : maechler 792 ## matrices in that they simply coerce the ddenseMatrix to a
62 :     ## dgeMatrix. Methods for special forms override these.
63 : bates 686
64 :     setMethod("norm", signature(x = "ddenseMatrix", type = "missing"),
65 :     function(x, type, ...) callGeneric(as(x, "dgeMatrix")))
66 :    
67 :     setMethod("norm", signature(x = "ddenseMatrix", type = "character"),
68 :     function(x, type, ...) callGeneric(as(x, "dgeMatrix"), type))
69 :    
70 :     setMethod("rcond", signature(x = "ddenseMatrix", type = "missing"),
71 :     function(x, type, ...) callGeneric(as(x, "dgeMatrix")))
72 :    
73 :     setMethod("rcond", signature(x = "ddenseMatrix", type = "character"),
74 :     function(x, type, ...) callGeneric(as(x, "dgeMatrix"), type))
75 :    
76 : maechler 946 ## Not really useful; now require *identical* class for result:
77 :     ## setMethod("t", signature(x = "ddenseMatrix"),
78 :     ## function(x) callGeneric(as(x, "dgeMatrix")))
79 : bates 686
80 : maechler 1087 setMethod("tcrossprod", signature(x = "ddenseMatrix", y = "missing"),
81 :     function(x, y = NULL) callGeneric(as(x, "dgeMatrix")))
82 : bates 686
83 :     setMethod("crossprod", signature(x = "ddenseMatrix", y = "missing"),
84 :     function(x, y = NULL) callGeneric(as(x, "dgeMatrix")))
85 :    
86 :     setMethod("diag", signature(x = "ddenseMatrix"),
87 :     function(x = 1, nrow, ncol = n) callGeneric(as(x, "dgeMatrix")))
88 :    
89 : bates 1463 ## These methods cause an infinite loop in pre-2.4.0
90 :     ## setMethod("solve", signature(a = "ddenseMatrix", b = "missing"),
91 :     ## function(a, b, ...) callGeneric(as(a, "dgeMatrix")))
92 : bates 686
93 : bates 1463 ## setMethod("solve", signature(a = "ddenseMatrix", b = "ANY"),
94 :     ## function(a, b, ...) callGeneric(as(a, "dgeMatrix"), b))
95 : bates 686
96 : bates 1463 ## General method for dense matrix multiplication in case specific methods
97 :     ## have not been defined.
98 :     setMethod("%*%", signature(x = "ddenseMatrix", y = "ddenseMatrix"),
99 :     function(x, y) .Call(dgeMatrix_matrix_mm,
100 :     .Call(dup_mMatrix_as_dgeMatrix, x), y, FALSE),
101 :     valueClass = "dgeMatrix")
102 :    
103 : bates 686 setMethod("lu", signature(x = "ddenseMatrix"),
104 :     function(x, ...) callGeneric(as(x, "dgeMatrix")))
105 :    
106 : maechler 1654 setMethod("chol", signature(x = "ddenseMatrix", pivot = "ANY"), cholMat)
107 :    
108 : maechler 856 setMethod("determinant", signature(x = "ddenseMatrix", logarithm = "missing"),
109 : bates 686 function(x, logarithm, ...) callGeneric(as(x, "dgeMatrix")))
110 :    
111 : maechler 856 setMethod("determinant", signature(x = "ddenseMatrix", logarithm = "logical"),
112 : bates 686 function(x, logarithm, ...)
113 :     callGeneric(as(x, "dgeMatrix"), logarithm))
114 :    
115 : maechler 954 ## now done for "dMatrix":
116 :     ## setMethod("expm", signature(x = "ddenseMatrix"),
117 :     ## function(x) callGeneric(as(x, "dgeMatrix")))
118 : bates 686
119 :     setMethod("Schur", signature(x = "ddenseMatrix", vectors = "missing"),
120 :     function(x, vectors, ...) callGeneric(as(x, "dgeMatrix")))
121 :    
122 :     setMethod("Schur", signature(x = "ddenseMatrix", vectors = "logical"),
123 :     function(x, vectors, ...) callGeneric(as(x, "dgeMatrix"), vectors))
124 :    
125 : maechler 792
126 : maechler 1331 ## Cheap version: work via "dgeMatrix" and use the group methods there:
127 :     ## FIXME(?): try to preserve "symmetric", "triangular", ...
128 :     setMethod("Arith", ## "+", "-", "*", "^", "%%", "%/%", "/"
129 :     signature(e1 = "ddenseMatrix", e2 = "ddenseMatrix"),
130 :     function(e1, e2) callGeneric(as(e1, "dgeMatrix"),
131 :     as(e2, "dgeMatrix")))
132 :     setMethod("Arith",
133 :     signature(e1 = "ddenseMatrix", e2 = "numeric"),
134 :     function(e1, e2) callGeneric(as(e1, "dgeMatrix"), e2))
135 :     setMethod("Arith",
136 :     signature(e1 = "numeric", e2 = "ddenseMatrix"),
137 :     function(e1, e2) callGeneric(e1, as(e2, "dgeMatrix")))
138 : maechler 908
139 : maechler 1331 setMethod("Math",
140 :     signature(x = "ddenseMatrix"),
141 :     function(x) callGeneric(as(x, "dgeMatrix")))
142 :    
143 :    
144 : maechler 1575 ### FIXME: band() et al should be extended from "ddense" to "dense" !
145 :     ### However, needs much work to generalize dup_mMatrix_as_dgeMatrix()
146 :    
147 : bates 1453 ## NB: have extra tril(), triu() methods for symmetric ["dsy" and "dsp"] and
148 :     ## for triangular ["dtr" and "dtp"]
149 :     setMethod("tril", "ddenseMatrix",
150 :     function(x, k = 0, ...) {
151 :     k <- as.integer(k[1])
152 :     dd <- dim(x); sqr <- dd[1] == dd[2]
153 :     stopifnot(-dd[1] <= k, k <= dd[1]) # had k <= 0
154 :     ## returns "lower triangular" if k <= 0 && sqr
155 :     .Call(ddense_band, x, -dd[1], k)
156 :     })
157 :    
158 :     setMethod("triu", "ddenseMatrix",
159 :     function(x, k = 0, ...) {
160 :     k <- as.integer(k[1])
161 :     dd <- dim(x); sqr <- dd[1] == dd[2]
162 :     stopifnot(-dd[1] <= k, k <= dd[1]) # had k >= 0
163 :     ## returns "upper triangular" if k >= 0
164 :     .Call(ddense_band, x, k, dd[2])
165 :     })
166 :    
167 :     setMethod("band", "ddenseMatrix",
168 :     function(x, k1, k2, ...) {
169 :     k1 <- as.integer(k1[1])
170 :     k2 <- as.integer(k2[1])
171 :     dd <- dim(x); sqr <- dd[1] == dd[2]
172 :     stopifnot(-dd[1] <= k1, k1 <= k2, k2 <= dd[1])
173 :     r <- .Call(ddense_band, x, k1, k2)
174 :     if (k1 < 0 && k1 == -k2 && isSymmetric(x)) ## symmetric
175 :     as(r, paste(.M.kind(x), "syMatrix", sep=''))
176 :     else
177 :     r
178 :     })

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