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

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revision 956, Fri Sep 30 17:28:00 2005 UTC revision 1618, Fri Oct 6 15:44:01 2006 UTC
# Line 1  Line 1 
1  ### Define Methods that can be inherited for all subclasses  ### Define Methods that can be inherited for all subclasses
2    
3    ## This replaces many "d..Matrix" -> "dgeMatrix" ones
4    ## >> but << needs all sub(sub(sub)) classes of "ddenseMatrix" listed
5    ##   -----  in  ../src/Mutils.c
6    
7    ## Should this method return 'from' without duplication when it has
8    ## class dgeMatrix?
9    setAs("ddenseMatrix", "dgeMatrix",
10          function(from) {
11              if (class(from) != "dgeMatrix")
12                  from <- .Call(dup_mMatrix_as_dgeMatrix, from)
13              from
14          })
15    
16    ## d(ouble) to l(ogical):
17  setAs("dgeMatrix", "lgeMatrix", d2l_Matrix)  setAs("dgeMatrix", "lgeMatrix", d2l_Matrix)
18  setAs("dtrMatrix", "ltrMatrix", d2l_Matrix)  setAs("dtrMatrix", "ltrMatrix", d2l_Matrix)
19  setAs("dtpMatrix", "ltpMatrix", d2l_Matrix)  setAs("dtpMatrix", "ltpMatrix", d2l_Matrix)
20  setAs("dsyMatrix", "lsyMatrix", d2l_Matrix)  setAs("dsyMatrix", "lsyMatrix", d2l_Matrix)
21  setAs("dspMatrix", "lspMatrix", d2l_Matrix)  setAs("dspMatrix", "lspMatrix", d2l_Matrix)
22    
23    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          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    
43    
44    ## 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    setMethod("as.numeric", signature(x = "ddenseMatrix"),
56              function(x, ...) as(x, "dgeMatrix")@x)
57    
58  ## -- see also ./Matrix.R  e.g., for a show() method  ## -- see also ./Matrix.R  e.g., for a show() method
59    
60  ## These methods are the 'fallback' methods for all dense numeric  ## These methods are the 'fallback' methods for all dense numeric
# Line 28  Line 77 
77  ## setMethod("t", signature(x = "ddenseMatrix"),  ## setMethod("t", signature(x = "ddenseMatrix"),
78  ##        function(x) callGeneric(as(x, "dgeMatrix")))  ##        function(x) callGeneric(as(x, "dgeMatrix")))
79    
80  setMethod("tcrossprod", signature(x = "ddenseMatrix"),  setMethod("tcrossprod", signature(x = "ddenseMatrix", y = "missing"),
81            function(x) callGeneric(as(x, "dgeMatrix")))            function(x, y = NULL) callGeneric(as(x, "dgeMatrix")))
82    
83  setMethod("crossprod", signature(x = "ddenseMatrix", y = "missing"),  setMethod("crossprod", signature(x = "ddenseMatrix", y = "missing"),
84            function(x, y = NULL) callGeneric(as(x, "dgeMatrix")))            function(x, y = NULL) callGeneric(as(x, "dgeMatrix")))
# Line 37  Line 86 
86  setMethod("diag", signature(x = "ddenseMatrix"),  setMethod("diag", signature(x = "ddenseMatrix"),
87            function(x = 1, nrow, ncol = n) callGeneric(as(x, "dgeMatrix")))            function(x = 1, nrow, ncol = n) callGeneric(as(x, "dgeMatrix")))
88    
89  setMethod("solve", signature(a = "ddenseMatrix", b = "missing"),  ## These methods cause an infinite loop in pre-2.4.0
90            function(a, b, ...) callGeneric(as(a, "dgeMatrix")))  ## setMethod("solve", signature(a = "ddenseMatrix", b = "missing"),
91    ##           function(a, b, ...) callGeneric(as(a, "dgeMatrix")))
92  setMethod("solve", signature(a = "ddenseMatrix", b = "ANY"),  
93            function(a, b, ...) callGeneric(as(a, "dgeMatrix"), b))  ## setMethod("solve", signature(a = "ddenseMatrix", b = "ANY"),
94    ##           function(a, b, ...) callGeneric(as(a, "dgeMatrix"), b))
95    
96    ## 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  setMethod("lu", signature(x = "ddenseMatrix"),  setMethod("lu", signature(x = "ddenseMatrix"),
104            function(x, ...) callGeneric(as(x, "dgeMatrix")))            function(x, ...) callGeneric(as(x, "dgeMatrix")))
# Line 64  Line 121 
121            function(x, vectors, ...) callGeneric(as(x, "dgeMatrix"), vectors))            function(x, vectors, ...) callGeneric(as(x, "dgeMatrix"), vectors))
122    
123    
124  ### NAMESPACE must export this -- also only for R version 2.2.x:  ## Cheap version: work via "dgeMatrix" and use the group methods there:
125  if(paste(R.version$major, R.version$minor, sep=".") >= "2.2") {  ## FIXME(?): try to preserve "symmetric", "triangular", ...
126      ## for R 2.2.x (and later):  setMethod("Arith", ##  "+", "-", "*", "^", "%%", "%/%", "/"
127              signature(e1 = "ddenseMatrix", e2 = "ddenseMatrix"),
128              function(e1, e2) callGeneric(as(e1, "dgeMatrix"),
129                                           as(e2, "dgeMatrix")))
130    setMethod("Arith",
131              signature(e1 = "ddenseMatrix", e2 = "numeric"),
132              function(e1, e2) callGeneric(as(e1, "dgeMatrix"), e2))
133    setMethod("Arith",
134              signature(e1 = "numeric", e2 = "ddenseMatrix"),
135              function(e1, e2) callGeneric(e1, as(e2, "dgeMatrix")))
136    
137    setMethod("Math",
138              signature(x = "ddenseMatrix"),
139              function(x) callGeneric(as(x, "dgeMatrix")))
140    
141    
142    
143    ### for R 2.2.x (and later): -- -- -- -- -- -- -- -- -- -- -- -- -- -- --
144    
145  ### cbind2  ### cbind2
146      setMethod("cbind2", signature(x = "ddenseMatrix", y = "numeric"),      setMethod("cbind2", signature(x = "ddenseMatrix", y = "numeric"),
# Line 169  Line 243 
243                        x = c(rbind2(as(x,"matrix"), as(y,"matrix"))))                        x = c(rbind2(as(x,"matrix"), as(y,"matrix"))))
244                })                })
245    
246  }## R-2.2.x ff  ### FIXME: band() et al should be extended from "ddense" to "dense" !
247    ###        However, needs much work to generalize dup_mMatrix_as_dgeMatrix()
248    
249    ## NB: have extra tril(), triu() methods for symmetric ["dsy" and "dsp"] and
250    ##     for triangular ["dtr" and "dtp"]
251    setMethod("tril", "ddenseMatrix",
252              function(x, k = 0, ...) {
253                  k <- as.integer(k[1])
254                  dd <- dim(x); sqr <- dd[1] == dd[2]
255                  stopifnot(-dd[1] <= k, k <= dd[1]) # had k <= 0
256                  ## returns "lower triangular" if k <= 0 && sqr
257                  .Call(ddense_band, x, -dd[1], k)
258              })
259    
260    setMethod("triu", "ddenseMatrix",
261              function(x, k = 0, ...) {
262                  k <- as.integer(k[1])
263                  dd <- dim(x); sqr <- dd[1] == dd[2]
264                  stopifnot(-dd[1] <= k, k <= dd[1]) # had k >= 0
265                  ## returns "upper triangular" if k >= 0
266                  .Call(ddense_band, x, k, dd[2])
267              })
268    
269    setMethod("band", "ddenseMatrix",
270              function(x, k1, k2, ...) {
271                  k1 <- as.integer(k1[1])
272                  k2 <- as.integer(k2[1])
273                  dd <- dim(x); sqr <- dd[1] == dd[2]
274                  stopifnot(-dd[1] <= k1, k1 <= k2, k2 <= dd[1])
275                  r <- .Call(ddense_band, x, k1, k2)
276                  if (k1 < 0  &&  k1 == -k2  && isSymmetric(x)) ## symmetric
277                      as(r, paste(.M.kind(x), "syMatrix", sep=''))
278                  else
279                      r
280              })

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