SCM

SCM Repository

[matrix] Diff of /pkg/Matrix/R/diagMatrix.R
ViewVC logotype

Diff of /pkg/Matrix/R/diagMatrix.R

Parent Directory Parent Directory | Revision Log Revision Log | View Patch Patch

revision 1805, Tue Mar 27 16:46:03 2007 UTC revision 2341, Mon Mar 2 17:53:13 2009 UTC
# Line 16  Line 16 
16      if(missing(x)) ## unit diagonal matrix      if(missing(x)) ## unit diagonal matrix
17          new("ddiMatrix", Dim = c(n,n), diag = "U")          new("ddiMatrix", Dim = c(n,n), diag = "U")
18      else {      else {
19          stopifnot(length(x) == n)          lx <- length(x)
20            stopifnot(lx == 1 || lx == n) # but keep 'x' short for now
21          if(is.logical(x))          if(is.logical(x))
22              cl <- "ldiMatrix"              cl <- "ldiMatrix"
23          else if(is.numeric(x)) {          else if(is.numeric(x)) {
# Line 26  Line 27 
27          else if(is.complex(x)) {          else if(is.complex(x)) {
28              cl <- "zdiMatrix"  # will not yet work              cl <- "zdiMatrix"  # will not yet work
29          } else stop("'x' has invalid data type")          } else stop("'x' has invalid data type")
30          new(cl, Dim = c(n,n), diag = "N", x = x)          new(cl, Dim = c(n,n), diag = "N",
31                x = if(lx == 1) rep.int(x,n) else x)
32      }      }
33  }  }
34    
35    .sparseDiagonal <- function(n, x = rep.int(1,n), uplo = "U", shape = "t") {
36        stopifnot(n == (n. <- as.integer(n)), (n <- n.) >= 0)
37        if((lx <- length(x)) == 1) x <- rep.int(x, n)
38        else if(lx != n) stop("length(x) must be 1 or n")
39        stopifnot(is.character(shape), nchar(shape) == 1,
40                  any(shape == c("t","s","g"))) # triangular / symmetric / general
41        kind <-
42            if(is.double(x)) "d"
43            else if(is.logical(x)) "l"
44            else { ## for now
45                storage.mode(x) <- "double"
46                "d"
47            }
48        new(paste(kind, shape, "CMatrix", sep=''),
49            Dim = c(n,n), x = x, uplo = uplo,
50            i = if(n) 0:(n - 1L) else integer(0), p = 0:n)
51    }
52    
53    ## Pkg 'spdep' had (relatively slow) versions of this as_dsCMatrix_I()
54    .symDiagonal <- function(n, x = rep.int(1,n), uplo = "U")
55        .sparseDiagonal(n, x, uplo, shape = "s")
56    
57    ## instead of   diagU2N(as(Diagonal(n), "CsparseMatrix")), diag = "N" in any case:
58    .trDiagonal <- function(n, x = rep.int(1,n), uplo = "U")
59        .sparseDiagonal(n, x, uplo, shape = "t")
60    
61    
62  ### This is modified from a post of Bert Gunter to R-help on  1 Sep 2005.  ### This is modified from a post of Bert Gunter to R-help on  1 Sep 2005.
63  ### Bert's code built on a post by Andy Liaw who most probably was influenced  ### Bert's code built on a post by Andy Liaw who most probably was influenced
64  ### by earlier posts, notably one by Scott Chasalow on S-news, 16 Jan 2002  ### by earlier posts, notably one by Scott Chasalow on S-news, 16 Jan 2002
65  ### who posted his bdiag() function written in December 1995.  ### who posted his bdiag() function written in December 1995.
66    if(FALSE)##--- no longer used:
67  bdiag <- function(...) {  .bdiag <- function(lst) {
68      if(nargs() == 0) return(new("dgCMatrix"))      ### block-diagonal matrix [a dgTMatrix] from list of matrices
69      ## else :      stopifnot(is.list(lst), length(lst) >= 1)
70      mlist <- if (nargs() == 1) as.list(...) else list(...)      dims <- sapply(lst, dim, USE.NAMES=FALSE)
     dims <- sapply(mlist, dim)  
71      ## make sure we had all matrices:      ## make sure we had all matrices:
72      if(!(is.matrix(dims) && nrow(dims) == 2))      if(!(is.matrix(dims) && nrow(dims) == 2))
73          stop("some arguments are not matrices")          stop("some arguments are not matrices")
74      csdim <- rbind(rep.int(0:0, 2),      csdim <- rbind(rep.int(0L, 2),
75                     apply(sapply(mlist, dim), 1, cumsum))                     apply(dims, 1, cumsum))
76      ret <- new("dgTMatrix", Dim = as.integer(csdim[nrow(csdim),]))      r <- new("dgTMatrix")
77        r@Dim <- as.integer(csdim[nrow(csdim),])
78      add1 <- matrix(1:0, 2,2)      add1 <- matrix(1:0, 2,2)
79      for(i in seq_along(mlist)) {      for(i in seq_along(lst)) {
80          indx <- apply(csdim[i:(i+1),] + add1, 2, function(n) n[1]:n[2])          indx <- apply(csdim[i:(i+1),] + add1, 2, function(n) n[1]:n[2])
81          if(is.null(dim(indx))) ## non-square matrix          if(is.null(dim(indx))) ## non-square matrix
82              ret[indx[[1]],indx[[2]]] <- mlist[[i]]              r[indx[[1]],indx[[2]]] <- lst[[i]]
83          else ## square matrix          else ## square matrix
84              ret[indx[,1],indx[,2]] <- mlist[[i]]              r[indx[,1], indx[,2]] <- lst[[i]]
85        }
86        r
87    }
88    ## expand(<mer>) needed something like bdiag() for lower-triangular
89    ## (Tsparse) Matrices; hence Doug Bates provided a much more efficient
90    ##  implementation for those; now extended and generalized:
91    .bdiag <- function(lst) {
92        ## block-diagonal matrix [a dgTMatrix] from list of matrices
93        stopifnot(is.list(lst), (nl <- length(lst)) >= 1)
94    
95        Tlst <- lapply(lapply(lst, Matrix:::as_Csp2), # includes "diagU2N"
96                       as, "TsparseMatrix")
97        if(nl == 1) return(Tlst[[1]])
98        ## else
99        i_off <- c(0L, cumsum(sapply(Tlst, nrow)))
100        j_off <- c(0L, cumsum(sapply(Tlst, ncol)))
101    
102        clss <- sapply(Tlst, class)
103        knds <- substr(clss, 2, 2)
104        sym  <- knds == "s" # symmetric ones
105        tri  <- knds == "t" # triangular ones
106        use.n <- any(is.n <- substr(clss,1,1) == "n")
107        if(use.n && !(use.n <- all(is.n)))
108            Tlst[is.n] <- lapply(Tlst[is.n], as, "lMatrix")
109        if(all(sym)) { ## result should be *symmetric*
110            uplos <- sapply(Tlst, slot, "uplo") ## either "U" or "L"
111            tLU <- table(uplos)# of length 1 or 2 ..
112            if(length(tLU) == 1) { ## all "U" or all "L"
113                useU <- uplos[1] == "U"
114            } else { ## length(tLU) == 2, counting "L" and "U"
115                useU <- diff(tLU) >= 0
116                if(useU && (hasL <- tLU[1] > 0))
117                    Tlst[hasL] <- lapply(Tlst[hasL], t)
118                else if(!useU && (hasU <- tLU[2] > 0))
119                    Tlst[hasU] <- lapply(Tlst[hasU], t)
120            }
121            if(use.n) { ## return nsparseMatrix :
122                r <- new("nsTMatrix")
123            } else {
124                r <- new("dsTMatrix")
125                r@x <- unlist(lapply(Tlst, slot, "x"))
126            }
127            r@uplo <- if(useU) "U" else "L"
128        }
129        else if(all(tri) && { ULs <- sapply(Tlst, slot, "uplo")##  "U" or "L"
130                              all(ULs[1L] == ULs[-1L]) } ## all upper or all lower
131           ){ ## *triangular* result
132    
133            if(use.n) { ## return nsparseMatrix :
134                r <- new("ntTMatrix")
135            } else {
136                r <- new("dtTMatrix")
137                r@x <- unlist(lapply(Tlst, slot, "x"))
138            }
139            r@uplo <- ULs[1L]
140      }      }
141      ## slightly debatable if we really should return Csparse.. :      else {
142      as(ret, "CsparseMatrix")          if(any(sym))
143                Tlst[sym] <- lapply(Tlst[sym], as, "generalMatrix")
144            if(use.n) { ## return nsparseMatrix :
145                r <- new("ngTMatrix")
146            } else {
147                r <- new("dgTMatrix")
148                r@x <- unlist(lapply(Tlst, slot, "x"))
149            }
150        }
151        r@Dim <- c(i_off[nl+1], j_off[nl + 1])
152        r@i <- unlist(lapply(1:nl, function(k) Tlst[[k]]@i + i_off[k]))
153        r@j <- unlist(lapply(1:nl, function(k) Tlst[[k]]@j + j_off[k]))
154        r
155    }
156    
157    bdiag <- function(...) {
158        if((nA <- nargs()) == 0) return(new("dgCMatrix"))
159        if(nA == 1 && !is.list(...))
160            return(as(..., "CsparseMatrix"))
161        alis <- if(nA == 1 && is.list(..1)) ..1 else list(...)
162        if(length(alis) == 1)
163            return(as(alis[[1]], "CsparseMatrix"))
164    
165        ## else : two or more arguments
166        as(.bdiag(alis), "CsparseMatrix")
167  }  }
168    
169  diag2T <- function(from) {  
170      i <- if(from@diag == "U") integer(0) else seq_len(from@Dim[1]) - 1:1  .diag2tT <- function(from, uplo = "U", kind = .M.kind(from)) {
171      new(paste(.M.kind(from), "tTMatrix", sep=''),      ## to triangular Tsparse
172        i <- if(from@diag == "U") integer(0) else seq_len(from@Dim[1]) - 1L
173        new(paste(kind, "tTMatrix", sep=''),
174          diag = from@diag, Dim = from@Dim, Dimnames = from@Dimnames,          diag = from@diag, Dim = from@Dim, Dimnames = from@Dimnames,
175            uplo = uplo,
176          x = from@x, # <- ok for diag = "U" and "N" (!)          x = from@x, # <- ok for diag = "U" and "N" (!)
177          i = i, j = i)          i = i, j = i)
178  }  }
179    
180  setAs("diagonalMatrix", "triangularMatrix", diag2T)  .diag2sT <- function(from, uplo = "U", kind = .M.kind(from)) {
181  setAs("diagonalMatrix", "sparseMatrix", diag2T)      ## to symmetric Tsparse
182        n <- from@Dim[1]
183        i <- seq_len(n) - 1L
184        new(paste(kind, "sTMatrix", sep=''),
185            Dim = from@Dim, Dimnames = from@Dimnames,
186            i = i, j = i, uplo = uplo,
187            x = if(from@diag == "N") from@x else ## "U"-diag
188            rep.int(switch(kind,
189                           "d" = 1.,
190                           "l" =,
191                           "n" = TRUE,
192                           ## otherwise
193                           stop("'", kind,"' kind not yet implemented")), n))
194    }
195    
196    ## diagonal -> triangular,  upper / lower depending on "partner":
197    diag2tT.u <- function(d, x, kind = .M.kind(d))
198        .diag2tT(d, uplo = if(is(x,"triangularMatrix")) x@uplo else "U", kind)
199    
200    ## diagonal -> sparse {triangular OR symmetric} (upper / lower) depending on "partner":
201    diag2Tsmart <- function(d, x, kind = .M.kind(d)) {
202        clx <- getClassDef(class(x))
203        if(extends(clx, "symmetricMatrix"))
204            .diag2sT(d, uplo = x@uplo, kind)
205        else
206            .diag2tT(d, uplo = if(extends(clx,"triangularMatrix")) x@uplo else "U", kind)
207    }
208    
209    
210    ## In order to evade method dispatch ambiguity warnings,
211    ## and because we can save a .M.kind() call, we use this explicit
212    ## "hack"  instead of signature  x = "diagonalMatrix" :
213    ##
214    ## ddi*:
215    diag2tT <- function(from) .diag2tT(from, "U", "d")
216    setAs("ddiMatrix", "triangularMatrix", diag2tT)
217    ##_no_longer_ setAs("ddiMatrix", "sparseMatrix", diag2tT)
218  ## needed too (otherwise <dense> -> Tsparse is taken):  ## needed too (otherwise <dense> -> Tsparse is taken):
219  setAs("diagonalMatrix", "TsparseMatrix", diag2T)  setAs("ddiMatrix", "TsparseMatrix", diag2tT)
220  ## is better than this:  setAs("ddiMatrix", "CsparseMatrix",
221  ## setAs("diagonalMatrix", "sparseMatrix",        function(from) as(.diag2tT(from, "U", "d"), "CsparseMatrix"))
222  ##       function(from)  setAs("ddiMatrix", "symmetricMatrix",
223  ##        as(from, if(is(from, "dMatrix")) "dgCMatrix" else "lgCMatrix"))        function(from) .diag2sT(from, "U", "d"))
224  setAs("diagonalMatrix", "CsparseMatrix",  ##
225        function(from) as(diag2T(from), "CsparseMatrix"))  ## ldi*:
226    diag2tT <- function(from) .diag2tT(from, "U", "l")
227    setAs("ldiMatrix", "triangularMatrix", diag2tT)
228    ##_no_longer_ setAs("ldiMatrix", "sparseMatrix", diag2tT)
229    ## needed too (otherwise <dense> -> Tsparse is taken):
230    setAs("ldiMatrix", "TsparseMatrix", diag2tT)
231    setAs("ldiMatrix", "CsparseMatrix",
232          function(from) as(.diag2tT(from, "U", "l"), "CsparseMatrix"))
233    setAs("ldiMatrix", "symmetricMatrix",
234          function(from) .diag2sT(from, "U", "l"))
235    
236  setAs("diagonalMatrix", "matrix",  
237    setAs("diagonalMatrix", "nMatrix",
238        function(from) {        function(from) {
239            n <- from@Dim[1]            n <- from@Dim[1]
240            diag(x = if(from@diag == "U") { if(is.numeric(from@x)) 1. else TRUE            i <- if(from@diag == "U") integer(0) else which(isN0(from@x)) - 1L
241                                       } else from@x,            new("ntTMatrix", i = i, j = i, diag = from@diag,
242                 nrow = n, ncol = n)                Dim = from@Dim, Dimnames = from@Dimnames)
243        })        })
244    
245  setAs("diagonalMatrix", "generalMatrix", # prefer sparse:  setAs("diagonalMatrix", "nsparseMatrix", function(from) as(from, "nMatrix"))
       function(from) as(from, paste(.M.kind(from), "gCMatrix", sep='')))  
   
 .diag.x <- function(m) {  
     if(m@diag == "U")  
         rep.int(if(is.numeric(m@x)) 1. else TRUE,  
                 m@Dim[1])  
     else m@x  
 }  
246    
247  .diag.2N <- function(m) {  ## Cheap fast substitute for diag() which *does* preserve the mode of x :
248      if(m@diag == "U") m@diag <- "N"  mkDiag <- function(x, n) {
249      m      y <- matrix(as0(mod=mode(x)), n,n)
250        if (n > 0) y[1L + 0:(n - 1L) * (n + 1L)] <- x
251        y
252  }  }
253    
254  ## given the above, the following  4  coercions should be all unneeded;  setAs("diagonalMatrix", "matrix",
 ## we prefer triangular to general:  
 setAs("ddiMatrix", "dgTMatrix",  
255        function(from) {        function(from) {
256            .Deprecated("as(, \"sparseMatrix\")")            ## want "ldiMatrix" -> <logical> "matrix" :
257            n <- from@Dim[1]            mkDiag(if(from@diag == "U") as1(from@x) else from@x,
258            i <- seq_len(n) - 1:1                   n = from@Dim[1])
259            new("dgTMatrix", i = i, j = i, x = .diag.x(from),        })
               Dim = c(n,n), Dimnames = from@Dimnames) })  
260    
261  setAs("ddiMatrix", "dgCMatrix",  setMethod("as.vector", signature(x = "diagonalMatrix", mode="missing"),
262        function(from) as(as(from, "sparseMatrix"), "dgCMatrix"))            function(x, mode) {
263                  n <- x@Dim[1]
264                  mod.x <- mode(x@x)
265                  r <- vector(mod.x, length = n^2)
266                  if(n)
267                      r[1 + 0:(n - 1) * (n + 1)] <-
268                          if(x@diag == "U") as1(mod=mod.x) else x@x
269                  r
270              })
271    
272  setAs("ldiMatrix", "lgTMatrix",  setAs("diagonalMatrix", "generalMatrix", # prefer sparse:
273        function(from) {        function(from) as(as(from, "CsparseMatrix"), "generalMatrix"))
           .Deprecated("as(, \"sparseMatrix\")")  
           n <- from@Dim[1]  
           if(from@diag == "U") { # unit-diagonal  
               x <- rep.int(TRUE, n)  
               i <- seq_len(n) - 1:1  
           } else { # "normal"  
               nz <- nz.NA(from@x, na. = TRUE)  
               x <- from@x[nz]  
               i <- which(nz) - 1:1  
           }  
           new("lgTMatrix", i = i, j = i, x = x,  
               Dim = c(n,n), Dimnames = from@Dimnames) })  
274    
275  setAs("ldiMatrix", "lgCMatrix",  setAs("diagonalMatrix", "denseMatrix",
276        function(from) as(as(from, "lgTMatrix"), "lgCMatrix"))        function(from) as(as(from, "CsparseMatrix"), "denseMatrix"))
277    
278    .diag.x <- function(m) if(m@diag == "U") rep.int(as1(m@x), m@Dim[1]) else m@x
279    
280    .diag.2N <- function(m) {
281        if(m@diag == "U") m@diag <- "N"
282        m
283    }
284    
 if(FALSE) # now have faster  "ddense" -> "dge"  
285  setAs("ddiMatrix", "dgeMatrix",  setAs("ddiMatrix", "dgeMatrix",
286        function(from) as(as(from, "matrix"), "dgeMatrix"))        function(from) .Call(dup_mMatrix_as_dgeMatrix, from))
287    setAs("ddiMatrix", "ddenseMatrix",
288          function(from) as(as(from, "triangularMatrix"),"denseMatrix"))
289    setAs("ldiMatrix", "ldenseMatrix",
290          function(from) as(as(from, "triangularMatrix"),"denseMatrix"))
291    
292    
293  setAs("matrix", "diagonalMatrix",  setAs("matrix", "diagonalMatrix",
294        function(from) {        function(from) {
295            d <- dim(from)            d <- dim(from)
296            if(d[1] != (n <- d[2])) stop("non-square matrix")            if(d[1] != (n <- d[2])) stop("non-square matrix")
297            if(any(from[row(from) != col(from)] != 0))            if(any(from[row(from) != col(from)] != 0))
298                stop("has non-zero off-diagonal entries")                stop("matrix with non-zero off-diagonals cannot be coerced to diagonalMatrix")
299            x <- diag(from)            x <- diag(from)
300            if(is.logical(x)) {            if(is.logical(x)) {
301                cl <- "ldiMatrix"                cl <- "ldiMatrix"
302                uni <- all(x)                uni <- allTrue(x) ## uni := {is it unit-diagonal ?}
303            } else {            } else {
304                cl <- "ddiMatrix"                cl <- "ddiMatrix"
305                uni <- all(x == 1)                uni <- allTrue(x == 1)
306                storage.mode(x) <- "double"                storage.mode(x) <- "double"
307            } ## TODO: complex            } ## TODO: complex
308            new(cl, Dim = c(n,n), diag = if(uni) "U" else "N",            new(cl, Dim = c(n,n), diag = if(uni) "U" else "N",
# Line 165  Line 319 
319            x <- diag(from)            x <- diag(from)
320            if(is.logical(x)) {            if(is.logical(x)) {
321                cl <- "ldiMatrix"                cl <- "ldiMatrix"
322                uni <- all(x)                uni <- allTrue(x)
323            } else {            } else {
324                cl <- "ddiMatrix"                cl <- "ddiMatrix"
325                uni <- all(x == 1)                uni <- allTrue(x == 1)
326                storage.mode(x) <- "double"                storage.mode(x) <- "double"
327            }            } ## TODO: complex
328            new(cl, Dim = c(n,n), diag = if(uni) "U" else "N",            new(cl, Dim = c(n,n), diag = if(uni) "U" else "N",
329                x = if(uni) x[FALSE] else x)                x = if(uni) x[FALSE] else x)
330        })        })
331    
332    
333  setMethod("diag", signature(x = "diagonalMatrix"),  setMethod("diag", signature(x = "diagonalMatrix"),
334            function(x = 1, nrow, ncol = n) .diag.x(x))            function(x = 1, nrow, ncol) .diag.x(x))
   
335    
336  subDiag <- function(x, i, j, drop) {  subDiag <- function(x, i, j, ..., drop) {
337      x <- as(x, "sparseMatrix")      x <- as(x, "TsparseMatrix")
338      x <- if(missing(i))      x <- if(missing(i))
339          x[, j, drop=drop]          x[, j, drop=drop]
340      else if(missing(j))      else if(missing(j))
341          x[i, , drop=drop]          x[i, , drop=drop]
342      else      else
343          x[i,j, drop=drop]          x[i,j, drop=drop]
344      if(isDiagonal(x)) as(x, "diagonalMatrix") else x      if(isS4(x) && isDiagonal(x)) as(x, "diagonalMatrix") else x
345  }  }
346    
347  setMethod("[", signature(x = "diagonalMatrix", i = "index",  setMethod("[", signature(x = "diagonalMatrix", i = "index",
348                           j = "index", drop = "logical"), subDiag)                           j = "index", drop = "logical"), subDiag)
349  setMethod("[", signature(x = "diagonalMatrix", i = "index",  setMethod("[", signature(x = "diagonalMatrix", i = "index",
350                          j = "missing", drop = "logical"),                          j = "missing", drop = "logical"),
351            function(x, i, drop) subDiag(x, i=i, drop=drop))            function(x, i, j, ..., drop) subDiag(x, i=i, drop=drop))
352  setMethod("[", signature(x = "diagonalMatrix", i = "missing",  setMethod("[", signature(x = "diagonalMatrix", i = "missing",
353                           j = "index", drop = "logical"),                           j = "index", drop = "logical"),
354            function(x, j, drop) subDiag(x, j=j, drop=drop))            function(x, i, j, ..., drop) subDiag(x, j=j, drop=drop))
355    
356  ## When you assign to a diagonalMatrix, the result should be  ## When you assign to a diagonalMatrix, the result should be
357  ## diagonal or sparse ---  ## diagonal or sparse ---
358  ## FIXME: this now fails because the "denseMatrix" methods come first in dispatch  ## FIXME: this now fails because the "denseMatrix" methods come first in dispatch
359  replDiag <- function(x, i, j, value) {  ## Only(?) current bug:  x[i] <- value  is wrong when  i is *vector*
360      x <- as(x, "sparseMatrix")  replDiag <- function(x, i, j, ..., value) {
361        x <- as(x, "TsparseMatrix")
362      if(missing(i))      if(missing(i))
363          x[, j] <- value          x[, j] <- value
364      else if(missing(j))      else if(missing(j)) { ##  x[i , ] <- v  *OR*   x[i] <- v
365            na <- nargs()
366    ##         message("diagnosing replDiag() -- nargs()= ", na)
367            if(na == 4)
368          x[i, ] <- value          x[i, ] <- value
369      else          else if(na == 3)
370                x[i] <- value
371            else stop("Internal bug: nargs()=",na,"; please report")
372        } else
373          x[i,j] <- value          x[i,j] <- value
374      if(isDiagonal(x)) as(x, "diagonalMatrix") else x      if(isDiagonal(x)) as(x, "diagonalMatrix") else x
375  }  }
376    
377  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index",  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index",
378                                  j = "index", value = "replValue"), replDiag)                                  j = "index", value = "replValue"), replDiag)
379    
380  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index",  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index",
381                                  j = "missing", value = "replValue"),                                  j = "missing", value = "replValue"),
382                   function(x, i, value) replDiag(x, i=i, value=value))                   function(x,i,j, ..., value) {
383                         ## message("before replDiag() -- nargs()= ", nargs())
384                         if(nargs() == 3)
385                             replDiag(x, i=i, value=value)
386                         else ## nargs() == 4 :
387                             replDiag(x, i=i, , value=value)
388                     })
389    
390    setReplaceMethod("[", signature(x = "diagonalMatrix",
391                                    i = "matrix", # 2-col.matrix
392                                    j = "missing", value = "replValue"),
393                     function(x,i,j, ..., value) {
394                         if(ncol(i) == 2) {
395                             if(all((ii <- i[,1]) == i[,2])) { # replace in diagonal only
396                                 if(x@diag == "U") {
397                                     one <- as1(x@x)
398                                     if(any(value != one | is.na(value))) {
399                                         x@diag <- "N"
400                                         x@x <- rep.int(one, x@Dim[1])
401                                     }
402                                 }
403                                 x@x[ii] <- value
404                                 x
405                             } else { ## no longer diagonal, but remain sparse:
406                                 x <- as(x, "TsparseMatrix")
407                                 x[i] <- value
408                                 x
409                             }
410                         }
411                         else { # behave as "base R": use as if vector
412                             x <- as(x, "matrix")
413                             x[i] <- value
414                             Matrix(x)
415                         }
416                     })
417    
418  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing",  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing",
419                                  j = "index", value = "replValue"),                                  j = "index", value = "replValue"),
420                   function(x, j, value) replDiag(x, j=j, value=value))                   function(x,i,j, ..., value) replDiag(x, j=j, value=value))
421    
422    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing", j = "index",
423                                    value = "sparseMatrix"),
424                     function (x, i, j, ..., value)
425                     callGeneric(x=x, , j=j, value = as(value, "sparseVector")))
426    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index", j = "missing",
427                                    value = "sparseMatrix"),
428                     function (x, i, j, ..., value)
429                     callGeneric(x=x, i=i, , value = as(value, "sparseVector")))
430    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index", j = "index",
431                                    value = "sparseMatrix"),
432                     function (x, i, j, ..., value)
433                     callGeneric(x=x, i=i, j=j, value = as(value, "sparseVector")))
434    
435    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing", j = "index",
436                                    value = "sparseVector"),
437                     replDiag)
438    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index", j = "missing",
439                                    value = "sparseVector"),
440                     replDiag)
441    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "index", j = "index",
442                                    value = "sparseVector"),
443                     replDiag)
444    
445    
446  setMethod("t", signature(x = "diagonalMatrix"),  setMethod("t", signature(x = "diagonalMatrix"),
# Line 232  Line 451 
451  setMethod("isTriangular", signature(object = "diagonalMatrix"),  setMethod("isTriangular", signature(object = "diagonalMatrix"),
452            function(object) TRUE)            function(object) TRUE)
453  setMethod("isSymmetric", signature(object = "diagonalMatrix"),  setMethod("isSymmetric", signature(object = "diagonalMatrix"),
454            function(object) TRUE)            function(object, ...) TRUE)
455    
456    setMethod("symmpart", signature(x = "diagonalMatrix"), function(x) x)
457    setMethod("skewpart", signature(x = "diagonalMatrix"), setZero)
458    
459  setMethod("chol", signature(x = "ddiMatrix"),# pivot = "ANY"  setMethod("chol", signature(x = "ddiMatrix"),
460            function(x, pivot) {            function(x, pivot, ...) {
461                if(any(x@x < 0)) stop("chol() is undefined for diagonal matrix with negative entries")                if(x@diag == "U") return(x)
462                  ## else
463                  if(any(x@x < 0))
464                      stop("chol() is undefined for diagonal matrix with negative entries")
465                x@x <- sqrt(x@x)                x@x <- sqrt(x@x)
466                x                x
467            })            })
468  ## chol(L) is L for logical diagonal:  ## chol(L) is L for logical diagonal:
469  setMethod("chol", signature(x = "ldiMatrix"), function(x, pivot) x)  setMethod("chol", signature(x = "ldiMatrix"), function(x, pivot, ...) x)
470    
471  setMethod("!", "ldiMatrix", function(e1) {  setMethod("determinant", signature(x = "diagonalMatrix", logarithm = "logical"),
472      if(e1@diag == "N")            function(x, logarithm, ...) mkDet(.diag.x(x), logarithm))
473          e1@x <- !e1@x  
474      else { ## "U"  setMethod("norm", signature(x = "diagonalMatrix", type = "character"),
475          e1@diag <- "N"            function(x, type, ...) {
476          e1@x <- rep.int(FALSE, e1@Dim[1])                if((n <- x@Dim[1]) == 0) return(0) # as for "sparseMatrix"
477                  type <- toupper(substr(type[1], 1, 1))
478                  isU <- (x@diag == "U") # unit-diagonal
479                  if(type == "F") sqrt(if(isU) n else sum(x@x^2))
480                  else { ## norm == "I","1","O","M" :
481                      if(isU) 1 else max(abs(x@x))
482      }      }
     e1  
483  })  })
484    
485    
486    
487  ## Basic Matrix Multiplication {many more to add}  ## Basic Matrix Multiplication {many more to add}
488  ##       ---------------------  ##       ---------------------
489  ## Note that "ldi" logical are treated as numeric  ## Note that "ldi" logical are treated as numeric
490  diagdiagprod <- function(x, y) {  diagdiagprod <- function(x, y) {
491      if(any(dim(x) != dim(y))) stop("non-matching dimensions")      n <- dimCheck(x,y)[1]
492      if(x@diag != "U") {      if(x@diag != "U") {
493          if(y@diag != "U") {          if(y@diag != "U") {
494              nx <- x@x * y@x              nx <- x@x * y@x
# Line 285  Line 516 
516    
517    
518  diagmatprod <- function(x, y) {  diagmatprod <- function(x, y) {
519        ## x is diagonalMatrix
520      dx <- dim(x)      dx <- dim(x)
521      dy <- dim(y)      dy <- dim(y)
522      if(dx[2] != dy[1]) stop("non-matching dimensions")      if(dx[2] != dy[1]) stop("non-matching dimensions")
523      n <- dx[1]      n <- dx[1]
524      as(if(x@diag == "U") y else x@x * y, "Matrix")      as(if(x@diag == "U") y else x@x * y, "Matrix")
525  }  }
   
526  setMethod("%*%", signature(x = "diagonalMatrix", y = "matrix"),  setMethod("%*%", signature(x = "diagonalMatrix", y = "matrix"),
527            diagmatprod)            diagmatprod)
528    ## sneaky .. :
529  formals(diagmatprod) <- alist(x=, y=NULL)  formals(diagmatprod) <- alist(x=, y=NULL)
530  setMethod("crossprod", signature(x = "diagonalMatrix", y = "matrix"),  setMethod("crossprod", signature(x = "diagonalMatrix", y = "matrix"),
531            diagmatprod)            diagmatprod)
 setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "matrix"),  
           diagmatprod)  
532    
533  diagdgeprod <- function(x, y) {  diagGeprod <- function(x, y) {
534      dx <- dim(x)      dx <- dim(x)
535      dy <- dim(y)      dy <- dim(y)
536      if(dx[2] != dy[1]) stop("non-matching dimensions")      if(dx[2] != dy[1]) stop("non-matching dimensions")
# Line 308  Line 538 
538          y@x <- x@x * y@x          y@x <- x@x * y@x
539      y      y
540  }  }
541  setMethod("%*%", signature(x = "diagonalMatrix", y = "dgeMatrix"),  setMethod("%*%", signature(x= "diagonalMatrix", y= "dgeMatrix"), diagGeprod)
542            diagdgeprod, valueClass = "dgeMatrix")  setMethod("%*%", signature(x= "diagonalMatrix", y= "lgeMatrix"), diagGeprod)
543  formals(diagdgeprod) <- alist(x=, y=NULL)  formals(diagGeprod) <- alist(x=, y=NULL)
544  setMethod("crossprod", signature(x = "diagonalMatrix", y = "dgeMatrix"),  setMethod("crossprod", signature(x = "diagonalMatrix", y = "dgeMatrix"),
545            diagdgeprod, valueClass = "dgeMatrix")            diagGeprod, valueClass = "dgeMatrix")
546    setMethod("crossprod", signature(x = "diagonalMatrix", y = "lgeMatrix"),
547              diagGeprod)
548    
549  setMethod("%*%", signature(x = "matrix", y = "diagonalMatrix"),  matdiagprod <- function(x, y) {
           function(x, y) {  
550                dx <- dim(x)                dx <- dim(x)
551                dy <- dim(y)                dy <- dim(y)
552                if(dx[2] != dy[1]) stop("non-matching dimensions")                if(dx[2] != dy[1]) stop("non-matching dimensions")
553                as(if(y@diag == "U") x else x * rep(y@x, each = dx[1]), "Matrix")      Matrix(if(y@diag == "U") x else x * rep(y@x, each = dx[1]))
554            })  }
555    setMethod("%*%", signature(x = "matrix", y = "diagonalMatrix"),
556              matdiagprod)
557    formals(matdiagprod) <- alist(x=, y=NULL)
558    setMethod("tcrossprod", signature(x = "matrix", y = "diagonalMatrix"),
559              matdiagprod)
560    
561  setMethod("%*%", signature(x = "dgeMatrix", y = "diagonalMatrix"),  gediagprod <- function(x, y) {
           function(x, y) {  
562                dx <- dim(x)                dx <- dim(x)
563                dy <- dim(y)                dy <- dim(y)
564                if(dx[2] != dy[1]) stop("non-matching dimensions")                if(dx[2] != dy[1]) stop("non-matching dimensions")
565                if(y@diag == "N")                if(y@diag == "N")
566                    x@x <- x@x * rep(y@x, each = dx[1])                    x@x <- x@x * rep(y@x, each = dx[1])
567                x                x
568            })  }
569    setMethod("%*%", signature(x= "dgeMatrix", y= "diagonalMatrix"), gediagprod)
570    setMethod("%*%", signature(x= "lgeMatrix", y= "diagonalMatrix"), gediagprod)
571    formals(gediagprod) <- alist(x=, y=NULL)
572    setMethod("tcrossprod", signature(x = "dgeMatrix", y = "diagonalMatrix"),
573              gediagprod)
574    setMethod("tcrossprod", signature(x = "lgeMatrix", y = "diagonalMatrix"),
575              gediagprod)
576    
577  ## crossprod {more of these}  ## crossprod {more of these}
578    
579  ## tcrossprod --- all are not yet there: do the dense ones here:  ## tcrossprod --- all are not yet there: do the dense ones here:
580    
581    setMethod("%*%", signature(x = "diagonalMatrix", y = "denseMatrix"),
582              function(x, y) if(x@diag == "U") y else x %*% as(y, "generalMatrix"))
583    setMethod("%*%", signature(x = "denseMatrix", y = "diagonalMatrix"),
584              function(x, y) if(y@diag == "U") x else as(x, "generalMatrix") %*% y)
585    
586    
587  ## FIXME:  ## FIXME:
588  ## setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "denseMatrix"),  ## setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "denseMatrix"),
589  ##        function(x, y = NULL) {  ##        function(x, y = NULL) {
# Line 346  Line 594 
594  ##           })  ##           })
595    
596  setMethod("crossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),  setMethod("crossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),
597            function(x, y = NULL) { x <- as(x, "sparseMatrix"); callGeneric() })            function(x, y = NULL) crossprod(as(x, "TsparseMatrix"), y))
598    
599  setMethod("crossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),  setMethod("crossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),
600            function(x, y = NULL) { y <- as(y, "sparseMatrix"); callGeneric() })            function(x, y = NULL) crossprod(x, as(y, "TsparseMatrix")))
601    
602  setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),  setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),
603            function(x, y = NULL) { x <- as(x, "sparseMatrix"); callGeneric() })            function(x, y = NULL) tcrossprod(as(x, "TsparseMatrix"), y))
604    
605  setMethod("tcrossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),  setMethod("tcrossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),
606            function(x, y = NULL) { y <- as(y, "sparseMatrix"); callGeneric() })            function(x, y = NULL) tcrossprod(x, as(y, "TsparseMatrix")))
607    
608    
609  ## FIXME?: In theory, this can be done *FASTER*, in some cases, via tapply1()  ## FIXME?: In theory, this can be done *FASTER*, in some cases, via tapply1()
610  setMethod("%*%", signature(x = "diagonalMatrix", y = "sparseMatrix"),  setMethod("%*%", signature(x = "diagonalMatrix", y = "sparseMatrix"),
611            function(x, y) as(x, "sparseMatrix") %*% y)            function(x, y) as(x, "TsparseMatrix") %*% y)
612    setMethod("%*%", signature(x = "sparseMatrix", y = "diagonalMatrix"),
613              function(x, y) x %*% as(y, "TsparseMatrix"))
614  ## NB: The previous is *not* triggering for  "ddi" o "dgC" (= distance 3)  ## NB: The previous is *not* triggering for  "ddi" o "dgC" (= distance 3)
615  ##     since there's a "ddense" o "Csparse" at dist. 2 => triggers first.  ##     since there's a "ddense" o "Csparse" at dist. 2 => triggers first.
616  ## ==> do this:  ## ==> do this:
# Line 372  Line 622 
622  ## TODO: Write tests in ./tests/ which ensure that many "ops" with diagonal*  ## TODO: Write tests in ./tests/ which ensure that many "ops" with diagonal*
623  ##       do indeed work by going through sparse (and *not* ddense)!  ##       do indeed work by going through sparse (and *not* ddense)!
624    
 setMethod("%*%", signature(x = "sparseMatrix", y = "diagonalMatrix"),  
           function(x, y) x %*% as(y, "sparseMatrix"))  
625    
626    
627  setMethod("solve", signature(a = "diagonalMatrix", b = "missing"),  setMethod("solve", signature(a = "diagonalMatrix", b = "missing"),
# Line 396  Line 644 
644  setMethod("solve", signature(a = "diagonalMatrix", b = "Matrix"),  setMethod("solve", signature(a = "diagonalMatrix", b = "Matrix"),
645            solveDiag)            solveDiag)
646    
647    ## Schur()  ---> ./eigen.R
648    
649    
650    
651  ### ---------------- diagonal  o  sparse  -----------------------------  ###---------------- <Ops> (<Arith>, <Logic>, <Compare> ) ----------------------
   
652    
653  ## Use function for several signatures, in order to evade  ## Use function for several signatures, in order to evade
654  ## ambiguous dispatch for "ddi", since there's also Arith(ddense., ddense.)  ## ambiguous dispatch for "ddi", since there's also Arith(ddense., ddense.)
655  diagOdiag <- function(e1,e2) { # result should also be diagonal  diagOdiag <- function(e1,e2) {
656        ## result should also be diagonal _ if possible _
657      r <- callGeneric(.diag.x(e1), .diag.x(e2)) # error if not "compatible"      r <- callGeneric(.diag.x(e1), .diag.x(e2)) # error if not "compatible"
658        ## Check what happens with non-diagonals, i.e. (0 o 0), (FALSE o 0), ...:
659        r00 <- callGeneric(if(is.numeric(e1@x)) 0 else FALSE,
660                           if(is.numeric(e2@x)) 0 else FALSE)
661        if(is0(r00)) { ##  r00 == 0 or FALSE --- result *is* diagonal
662      if(is.numeric(r)) {      if(is.numeric(r)) {
663          if(is.numeric(e2@x)) {          if(is.numeric(e2@x)) {
664              e2@x <- r; return(.diag.2N(e2)) }              e2@x <- r; return(.diag.2N(e2)) }
# Line 419  Line 672 
672      e1@x <- r      e1@x <- r
673      .diag.2N(e1)      .diag.2N(e1)
674  }  }
675        else { ## result not diagonal, but at least symmetric:
676            isNum <- (is.numeric(r) || is.numeric(r00))
677            isLog <- (is.logical(r) || is.logical(r00))
678    
679            if(getOption("verbose"))
680                message("exploding  <diag>  o  <diag>  into dense matrix")
681            d <- e1@Dim
682            n <- d[1]
683            stopifnot(length(r) == n)
684            xx <- as.vector(matrix(rbind(r, matrix(r00,n,n)), n,n))
685            newcl <-
686                paste(if(isNum) "d" else if(isLog) {
687                    if(!any(is.na(r)) && !any(is.na(r00))) "n" else "l"
688                } else stop("not yet implemented .. please report")
689                      ,
690                      "syMatrix", sep='')
691    
692            new(newcl, Dim = e1@Dim, Dimnames = e1@Dimnames, x = xx)
693        }
694    }
695    
696    ### This would be *the* way, but we get tons of "ambiguous method dispatch"
697    ## we use this hack instead of signature  x = "diagonalMatrix" :
698    diCls <- names(getClass("diagonalMatrix")@subclasses)
699    if(FALSE) {
700  setMethod("Ops", signature(e1 = "diagonalMatrix", e2 = "diagonalMatrix"),  setMethod("Ops", signature(e1 = "diagonalMatrix", e2 = "diagonalMatrix"),
701            diagOdiag)            diagOdiag)
702  ## These two are just for method disambiguation:  } else { ## These are just for method disambiguation:
703  setMethod("Ops", signature(e1 = "ddiMatrix", e2 = "diagonalMatrix"),      for(c1 in diCls)
704            diagOdiag)          for(c2 in diCls)
705  setMethod("Ops", signature(e1 = "diagonalMatrix", e2 = "ddiMatrix"),              setMethod("Ops", signature(e1 = c1, e2 = c2), diagOdiag)
706            diagOdiag)  }
707    
708    ## FIXME:    diagonal  o  triangular  |-->  triangular
709    ## -----     diagonal  o  symmetric   |-->  symmetric
710    ##    {also when other is sparse: do these "here" --
711    ##     before conversion to sparse, since that loses "diagonality"}
712    
713  ## For almost everything else, diag* shall be treated "as sparse" :  ## For almost everything else, diag* shall be treated "as sparse" :
714  ## These are cheap implementations via coercion  ## These are cheap implementations via coercion
715    
716  ## for disambiguation  ## For disambiguation --- define this for "sparseMatrix" , then for "ANY";
717  setMethod("Ops", signature(e1 = "diagonalMatrix", e2 = "sparseMatrix"),  ## and because we can save an .M.kind() call, we use this explicit
718            function(e1,e2) callGeneric(as(e1, "sparseMatrix"), e2))  ## "hack" for all diagonalMatrix *subclasses* instead of just "diagonalMatrix" :
719  setMethod("Ops", signature(e1 = "sparseMatrix", e2 = "diagonalMatrix"),  ##
720            function(e1,e2) callGeneric(e1, as(e2, "sparseMatrix")))  ## ddi*:
721  ## in general:  setMethod("Ops", signature(e1 = "ddiMatrix", e2 = "sparseMatrix"),
722  setMethod("Ops", signature(e1 = "diagonalMatrix", e2 = "ANY"),            function(e1,e2) callGeneric(diag2Tsmart(e1,e2, "d"), e2))
723            function(e1,e2) callGeneric(as(e1,"sparseMatrix"), e2))  setMethod("Ops", signature(e1 = "sparseMatrix", e2 = "ddiMatrix"),
724  setMethod("Ops", signature(e1 = "ANY", e2 = "diagonalMatrix"),            function(e1,e2) callGeneric(e1, diag2Tsmart(e2,e1, "d")))
725            function(e1,e2) callGeneric(e1, as(e2,"sparseMatrix")))  ## ldi*
726    setMethod("Ops", signature(e1 = "ldiMatrix", e2 = "sparseMatrix"),
727              function(e1,e2) callGeneric(diag2Tsmart(e1,e2, "l"), e2))
728    setMethod("Ops", signature(e1 = "sparseMatrix", e2 = "ldiMatrix"),
729              function(e1,e2) callGeneric(e1, diag2Tsmart(e2,e1, "l")))
730    
731    ## Ops:  Arith  --> numeric : "dMatrix"
732    ##       Compare --> logical
733    ##       Logic   --> logical: "lMatrix"
734    
735    ##  other = "numeric" : stay diagonal if possible
736    ## ddi*: Arith: result numeric, potentially ddiMatrix
737    setMethod("Arith", signature(e1 = "ddiMatrix", e2 = "numeric"),
738              function(e1,e2) {
739                  n <- e1@Dim[1]; nsq <- n^2
740                  f0 <- callGeneric(0, e2)
741                  if(all(is0(f0))) { # remain diagonal
742                      L1 <- (le <- length(e2)) == 1L
743                      if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)
744                      if(e1@diag == "U" && any((r <- callGeneric(1, e2)) != 1)) {
745                          e1@diag <- "N"
746                          if(L1) r <- rep.int(r, n)
747                      } else
748                          r <- callGeneric(e1@x, e2)
749                      e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
750                      return(e1)
751                  }
752                  callGeneric(diag2tT.u(e1,e2, "d"), e2)
753              })
754    
755    setMethod("Arith", signature(e1 = "numeric", e2 = "ddiMatrix"),
756              function(e1,e2) {
757                  n <- e2@Dim[1]; nsq <- n^2
758                  f0 <- callGeneric(e1, 0)
759                  if(all(is0(f0))) { # remain diagonal
760                      L1 <- (le <- length(e1)) == 1L
761                      if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)
762                      if(e2@diag == "U" && any((r <- callGeneric(e1, 1)) != 1)) {
763                          e2@diag <- "N"
764                          if(L1) r <- rep.int(r, n)
765                      } else
766                          r <- callGeneric(e1, e2@x)
767                      e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
768                      return(e2)
769                  }
770                  callGeneric(e1, diag2tT.u(e2,e1, "d"))
771              })
772    
773    ## ldi* Arith --> result numeric, potentially ddiMatrix
774    setMethod("Arith", signature(e1 = "ldiMatrix", e2 = "numeric"),
775              function(e1,e2) {
776                  n <- e1@Dim[1]; nsq <- n^2
777                  f0 <- callGeneric(0, e2)
778                  if(all(is0(f0))) { # remain diagonal
779                      L1 <- (le <- length(e2)) == 1L
780                      if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)
781                      if(e1@diag == "U" && any((r <- callGeneric(1, e2)) != 1)) {
782                          e1@diag <- "N"
783                          if(L1) r <- rep.int(r, n)
784                      } else
785                          r <- callGeneric(e1@x, e2)
786                      e1 <- copyClass(e1, "ddiMatrix", c("diag", "Dim", "Dimnames"))
787                      e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
788                      return(e1)
789                  }
790                  callGeneric(diag2tT.u(e1,e2, "d"), e2)
791              })
792    
793    setMethod("Arith", signature(e1 = "numeric", e2 = "ldiMatrix"),
794              function(e1,e2) {
795                  n <- e2@Dim[1]; nsq <- n^2
796                  f0 <- callGeneric(e1, 0)
797                  if(all(is0(f0))) { # remain diagonal
798                      L1 <- (le <- length(e1)) == 1L
799                      if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)
800                      if(e2@diag == "U" && any((r <- callGeneric(e1, 1)) != 1)) {
801                          e2@diag <- "N"
802                          if(L1) r <- rep.int(r, n)
803                      } else
804                          r <- callGeneric(e1, e2@x)
805                      e2 <- copyClass(e2, "ddiMatrix", c("diag", "Dim", "Dimnames"))
806                      e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
807                      return(e2)
808                  }
809                  callGeneric(e1, diag2tT.u(e2,e1, "d"))
810              })
811    
812    ## ddi*: for "Ops" without Arith --> result logical, potentially ldi
813    setMethod("Ops", signature(e1 = "ddiMatrix", e2 = "numeric"),
814              function(e1,e2) {
815                  n <- e1@Dim[1]; nsq <- n^2
816                  f0 <- callGeneric(0, e2)
817                  if(all(is0(f0))) { # remain diagonal
818                      L1 <- (le <- length(e2)) == 1L
819                      if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)
820                      if(e1@diag == "U" && any((r <- callGeneric(1, e2)) != 1)) {
821                          e1@diag <- "N"
822                          if(L1) r <- rep.int(r, n)
823                      } else
824                          r <- callGeneric(e1@x, e2)
825                      e1 <- copyClass(e1, "ldiMatrix", c("diag", "Dim", "Dimnames"))
826                      e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
827                      return(e1)
828                  }
829                  callGeneric(diag2tT.u(e1,e2, "l"), e2)
830              })
831    
832    setMethod("Ops", signature(e1 = "numeric", e2 = "ddiMatrix"),
833              function(e1,e2) {
834                  n <- e2@Dim[1]; nsq <- n^2
835                  f0 <- callGeneric(e1, 0)
836                  if(all(is0(f0))) { # remain diagonal
837                      L1 <- (le <- length(e1)) == 1L
838                      if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)
839                      if(e2@diag == "U" && any((r <- callGeneric(e1, 1)) != 1)) {
840                          e2@diag <- "N"
841                          if(L1) r <- rep.int(r, n)
842                      } else
843                          r <- callGeneric(e1, e2@x)
844                      e2 <- copyClass(e2, "ldiMatrix", c("diag", "Dim", "Dimnames"))
845                      e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
846                      return(e2)
847                  }
848                  callGeneric(e1, diag2tT.u(e2,e1, "l"))
849              })
850    
851    ## ldi*: for "Ops" without Arith --> result logical, potentially ldi
852    setMethod("Ops", signature(e1 = "ldiMatrix", e2 = "numeric"),
853              function(e1,e2) {
854                  n <- e1@Dim[1]; nsq <- n^2
855                  f0 <- callGeneric(FALSE, e2)
856                  if(all(is0(f0))) { # remain diagonal
857                      L1 <- (le <- length(e2)) == 1L
858                      if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)
859                      if(e1@diag == "U" && any((r <- callGeneric(TRUE, e2)) != 1)) {
860                          e1@diag <- "N"
861                          if(L1) r <- rep.int(r, n)
862                      } else
863                          r <- callGeneric(e1@x, e2)
864                      e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
865                      return(e1)
866                  }
867                  callGeneric(diag2tT.u(e1,e2, "l"), e2)
868              })
869    
870    setMethod("Ops", signature(e1 = "numeric", e2 = "ldiMatrix"),
871              function(e1,e2) {
872                  n <- e2@Dim[1]; nsq <- n^2
873                  f0 <- callGeneric(e1, FALSE)
874                  if(all(is0(f0))) { # remain diagonal
875                      L1 <- (le <- length(e1)) == 1L
876                      if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)
877                      if(e2@diag == "U" && any((r <- callGeneric(e1, TRUE)) != 1)) {
878                          e2@diag <- "N"
879                          if(L1) r <- rep.int(r, n)
880                      } else
881                          r <- callGeneric(e1, e2@x)
882                      e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]
883                      return(e2)
884                  }
885                  callGeneric(e1, diag2tT.u(e2,e1, "l"))
886              })
887    
888    
889    
890    ## Not {"sparseMatrix", "numeric} :  {"denseMatrix", "matrix", ... }
891    for(other in c("ANY", "Matrix", "dMatrix")) {
892        ## ddi*:
893        setMethod("Ops", signature(e1 = "ddiMatrix", e2 = other),
894                  function(e1,e2) callGeneric(diag2tT.u(e1,e2, "d"), e2))
895        setMethod("Ops", signature(e1 = other, e2 = "ddiMatrix"),
896                  function(e1,e2) callGeneric(e1, diag2tT.u(e2,e1, "d")))
897        ## ldi*:
898        setMethod("Ops", signature(e1 = "ldiMatrix", e2 = other),
899                  function(e1,e2) callGeneric(diag2tT.u(e1,e2, "l"), e2))
900        setMethod("Ops", signature(e1 = other, e2 = "ldiMatrix"),
901                  function(e1,e2) callGeneric(e1, diag2tT.u(e2,e1, "l")))
902    }
903    
904    ## Direct subclasses of "denseMatrix": currently ddenseMatrix, ldense... :
905    dense.subCl <- local({ dM.scl <- getClass("denseMatrix")@subclasses
906                           names(dM.scl)[sapply(dM.scl, slot, "distance") == 1] })
907    for(DI in diCls) {
908        for(c2 in c(dense.subCl, "Matrix")) {
909            for(Fun in c("*", "^", "&")) {
910                setMethod(Fun, signature(e1 = DI, e2 = c2),
911                          function(e1,e2) callGeneric(e1, Diagonal(x = diag(e2))))
912                setMethod(Fun, signature(e1 = c2, e2 = DI),
913                          function(e1,e2) callGeneric(Diagonal(x = diag(e1)), e2))
914            }
915            ## NB: This arguably implicitly uses  0/0 :== 0  to keep diagonality
916            for(Fun in c("%%", "%/%", "/")) {
917                setMethod(Fun, signature(e1 = DI, e2 = c2),
918                          function(e1,e2) callGeneric(e1, Diagonal(x = diag(e2))))
919            }
920        }
921    }
922    
923    
924    ### "Summary" : "max"   "min"   "range" "prod"  "sum"   "any"   "all"
925    ### ----------  any, all: separately here
926    for(cl in diCls) {
927    setMethod("any", cl,
928              function (x, ..., na.rm) {
929                  if(any(x@Dim == 0)) FALSE
930                  else if(x@diag == "U") TRUE else any(x@x, ..., na.rm = na.rm)
931              })
932    setMethod("all",  cl, function (x, ..., na.rm) {
933        n <- x@Dim[1]
934        if(n >= 2) FALSE
935        else if(n == 0 || x@diag == "U") TRUE
936        else all(x@x, ..., na.rm = na.rm)
937    })
938    setMethod("prod", cl, function (x, ..., na.rm) {
939        n <- x@Dim[1]
940        if(n >= 2) 0
941        else if(n == 0 || x@diag == "U") 1
942        else ## n == 1, diag = "N" :
943            prod(x@x, ..., na.rm = na.rm)
944    })
945    
946    setMethod("sum", cl,
947              function(x, ..., na.rm) {
948                  r <- sum(x@x, ..., na.rm = na.rm)# double or integer, correctly
949                  if(x@diag == "U" && !is.na(r)) r + x@Dim[1] else r
950              })
951    }
952    
953    ## The remaining ones are  max, min, range :
954    
955    setMethod("Summary", "ddiMatrix",
956              function(x, ..., na.rm) {
957                  if(any(x@Dim == 0)) callGeneric(numeric(0), ..., na.rm=na.rm)
958                  else if(x@diag == "U")
959                      callGeneric(x@x, 0, 1, ..., na.rm=na.rm)
960                  else callGeneric(x@x, 0, ..., na.rm=na.rm)
961              })
962    setMethod("Summary", "ldiMatrix",
963              function(x, ..., na.rm) {
964                  if(any(x@Dim == 0)) callGeneric(logical(0), ..., na.rm=na.rm)
965                  else if(x@diag == "U")
966                      callGeneric(x@x, FALSE, TRUE, ..., na.rm=na.rm)
967                  else callGeneric(x@x, FALSE, ..., na.rm=na.rm)
968              })
969    
970    
971    
# Line 455  Line 980 
980      invisible(x)      invisible(x)
981  }  }
982    
983    ## somewhat consistent with "print" for sparseMatrix :
984    setMethod("print", signature(x = "diagonalMatrix"), prDiag)
985    
986  setMethod("show", signature(object = "diagonalMatrix"),  setMethod("show", signature(object = "diagonalMatrix"),
987            function(object) {            function(object) {
988                d <- dim(object)                d <- dim(object)
989                cl <- class(object)                cl <- class(object)
990                cat(sprintf('%d x %d diagonal matrix of class "%s"\n',                cat(sprintf('%d x %d diagonal matrix of class "%s"',
991                            d[1], d[2], cl))                            d[1], d[2], cl))
992                  if(d[1] < 50) {
993                      cat("\n")
994                prDiag(object)                prDiag(object)
995                  } else {
996                      cat(", with diagonal entries\n")
997                      show(diag(object))
998                      invisible(object)
999                  }
1000            })            })

Legend:
Removed from v.1805  
changed lines
  Added in v.2341

root@r-forge.r-project.org
ViewVC Help
Powered by ViewVC 1.0.0  
Thanks to:
Vienna University of Economics and Business Powered By FusionForge