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

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pkg/R/diagMatrix.R revision 2239, Mon Jul 28 19:26:40 2008 UTC pkg/Matrix/R/diagMatrix.R revision 2912, Sat Sep 14 17:09:49 2013 UTC
# Line 5  Line 5 
5  ##          but *not* diag() extractor!  ##          but *not* diag() extractor!
6  Diagonal <- function(n, x = NULL)  Diagonal <- function(n, x = NULL)
7  {  {
8      ## Allow  Diagonal(4)  and  Diagonal(x=1:5)      ## Allow  Diagonal(4), Diagonal(x=1:5), and  Diagonal(4, TRUE)
9      if(missing(n))      n <- if(missing(n)) length(x) else {
         n <- length(x)  
     else {  
10          stopifnot(length(n) == 1, n == as.integer(n), n >= 0)          stopifnot(length(n) == 1, n == as.integer(n), n >= 0)
11          n <- as.integer(n)          as.integer(n)
12      }      }
13    
14      if(missing(x)) ## unit diagonal matrix      if(missing(x)) ## unit diagonal matrix
15          new("ddiMatrix", Dim = c(n,n), diag = "U")          new("ddiMatrix", Dim = c(n,n), diag = "U")
16      else {      else {
17          lx <- length(x)          lx <- length(x)
18          stopifnot(lx == 1 || lx == n) # but keep 'x' short for now          lx.1 <- lx == 1L
19            stopifnot(lx.1 || lx == n) # but keep 'x' short for now
20          if(is.logical(x))          if(is.logical(x))
21              cl <- "ldiMatrix"              cl <- "ldiMatrix"
22          else if(is.numeric(x)) {          else if(is.numeric(x)) {
# Line 27  Line 26 
26          else if(is.complex(x)) {          else if(is.complex(x)) {
27              cl <- "zdiMatrix"  # will not yet work              cl <- "zdiMatrix"  # will not yet work
28          } else stop("'x' has invalid data type")          } else stop("'x' has invalid data type")
29            if(lx.1 && !is.na(x) && x == 1) # cheap check for uni-diagonal..
30                new(cl, Dim = c(n,n), diag = "U")
31            else
32          new(cl, Dim = c(n,n), diag = "N",          new(cl, Dim = c(n,n), diag = "N",
33              x = if(lx == 1) rep.int(x,n) else x)                  x = if(lx.1) rep.int(x,n) else x)
34      }      }
35  }  }
36    
37  .sparseDiagonal <- function(n, x = rep.int(1,n), uplo = "U", shape = "t") {  .sparseDiagonal <- function(n, x = 1, uplo = "U",
38                                shape = if(missing(cols)) "t" else "g",
39                                unitri, kind,
40                                cols = if(n) 0:(n - 1L) else integer(0))
41    {
42      stopifnot(n == (n. <- as.integer(n)), (n <- n.) >= 0)      stopifnot(n == (n. <- as.integer(n)), (n <- n.) >= 0)
43      if((lx <- length(x)) == 1) x <- rep.int(x, n)      if(!(mcols <- missing(cols)))
44      else if(lx != n) stop("length(x) must be 1 or n")          stopifnot(0 <= (cols <- as.integer(cols)), cols < n)
45      stopifnot(is.character(shape), nchar(shape) == 1,      m <- length(cols)
46                any(shape == c("t","s","g"))) # triangular / symmetric / general      if(missing(kind))
47      kind <-      kind <-
48          if(is.double(x)) "d"          if(is.double(x)) "d"
49          else if(is.logical(x)) "l"          else if(is.logical(x)) "l"
# Line 45  Line 51 
51              storage.mode(x) <- "double"              storage.mode(x) <- "double"
52              "d"              "d"
53          }          }
54      new(paste(kind, shape, "CMatrix", sep=''),      else stopifnot(any(kind == c("d","l","n")))
55          Dim = c(n,n), x = x, uplo = uplo,      stopifnot(is.character(shape), nchar(shape) == 1,
56          i = if(n) 0:(n - 1L) else integer(0), p = 0:n)                any(shape == c("t","s","g"))) # triangular / symmetric / general
57        if((missing(unitri) || unitri) && shape == "t" &&
58           (mcols || cols == 0:(n-1L)) &&
59           ((any(kind == c("l", "n")) && allTrue(x)) ||
60            (    kind == "d"          && allTrue(x == 1)))) { ## uni-triangular
61            new(paste0(kind,"tCMatrix"), Dim = c(n,n),
62                       uplo = uplo, diag = "U", p = rep.int(0L, n+1L))
63        }
64        else if(kind == "n") {
65            if(shape == "g")
66                new("ngCMatrix", Dim = c(n,m), i = cols, p = 0:m)
67            else new(paste0("n", shape, "CMatrix"), Dim = c(n,m), uplo = uplo,
68                     i = cols, p = 0:m)
69        }
70        else { ## kind != "n" -- have x slot :
71            if((lx <- length(x)) == 1) x <- rep.int(x, m)
72            else if(lx != m) stop("length(x) must be either 1 or #{cols}")
73            if(shape == "g")
74                new(paste0(kind, "gCMatrix"), Dim = c(n,m),
75                    x = x, i = cols, p = 0:m)
76            else new(paste0(kind, shape, "CMatrix"), Dim = c(n,m), uplo = uplo,
77                     x = x, i = cols, p = 0:m)
78        }
79  }  }
80    
81  ## Pkg 'spdep' had (relatively slow) versions of this as_dsCMatrix_I()  ## Pkg 'spdep' had (relatively slow) versions of this as_dsCMatrix_I()
82  .symDiagonal <- function(n, x = rep.int(1,n), uplo = "U")  .symDiagonal <- function(n, x = rep.int(1,n), uplo = "U")
83      .sparseDiagonal(n, x, uplo, shape = "s")      .sparseDiagonal(n, x, uplo, shape = "s")
84    
85  ## instead of   diagU2N(as(Diagonal(n), "CsparseMatrix")), diag = "N" in any case:  # instead of   diagU2N(as(Diagonal(n), "CsparseMatrix")), diag = "N" in any case:
86  .trDiagonal <- function(n, x = rep.int(1,n), uplo = "U")  .trDiagonal <- function(n, x = 1, uplo = "U", unitri=TRUE)
87      .sparseDiagonal(n, x, uplo, shape = "t")      .sparseDiagonal(n, x, uplo, shape = "t", unitri=unitri)
88    
89    
90  ### 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.
91  ### 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
92  ### 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
93  ### who posted his bdiag() function written in December 1995.  ## who posted his bdiag() function written in December 1995.
94  if(FALSE)##--- no longer used:  if(FALSE)##--- no longer used:
95  .bdiag <- function(lst) {  .bdiag <- function(lst) {
96      ### block-diagonal matrix [a dgTMatrix] from list of matrices      ## block-diagonal matrix [a dgTMatrix] from list of matrices
97      stopifnot(is.list(lst), length(lst) >= 1)      stopifnot(is.list(lst), length(lst) >= 1)
98      dims <- sapply(lst, dim, USE.NAMES=FALSE)      dims <- vapply(lst, dim, 1L, USE.NAMES=FALSE)
99      ## make sure we had all matrices:      ## make sure we had all matrices:
100      if(!(is.matrix(dims) && nrow(dims) == 2))      if(!(is.matrix(dims) && nrow(dims) == 2))
101          stop("some arguments are not matrices")          stop("some arguments are not matrices")
# Line 92  Line 120 
120      ## block-diagonal matrix [a dgTMatrix] from list of matrices      ## block-diagonal matrix [a dgTMatrix] from list of matrices
121      stopifnot(is.list(lst), (nl <- length(lst)) >= 1)      stopifnot(is.list(lst), (nl <- length(lst)) >= 1)
122    
123      Tlst <- lapply(lapply(lst, Matrix:::as_Csp2), # includes "diagU2N"      Tlst <- lapply(lapply(lst, as_Csp2), # includes "diagU2N"
124                     as, "TsparseMatrix")                     as, "TsparseMatrix")
125      if(nl == 1) return(Tlst[[1]])      if(nl == 1) return(Tlst[[1]])
126      ## else      ## else
127      i_off <- c(0L, cumsum(sapply(Tlst, nrow)))      i_off <- c(0L, cumsum(vapply(Tlst, nrow, 1L)))
128      j_off <- c(0L, cumsum(sapply(Tlst, ncol)))      j_off <- c(0L, cumsum(vapply(Tlst, ncol, 1L)))
129    
130      clss <- sapply(Tlst, class)      clss <- vapply(Tlst, class, "")
131      knds <- substr(clss, 2, 2)      typ <- substr(clss, 2, 2)
132      sym  <- knds == "s" # symmetric ones      knd <- substr(clss, 1, 1)
133      tri  <- knds == "t" # triangular ones      sym <- typ == "s" # symmetric ones
134      use.n <- any(is.n <- substr(clss,1,1) == "n")      tri <- typ == "t" # triangular ones
135      if(use.n && !(use.n <- all(is.n)))      use.n <- any(is.n <- knd == "n")
136        if(use.n && !(use.n <- all(is.n))) {
137          Tlst[is.n] <- lapply(Tlst[is.n], as, "lMatrix")          Tlst[is.n] <- lapply(Tlst[is.n], as, "lMatrix")
138            knd [is.n] <- "l"
139        }
140        use.l <- !use.n && all(knd == "l")
141      if(all(sym)) { ## result should be *symmetric*      if(all(sym)) { ## result should be *symmetric*
142          uplos <- sapply(Tlst, slot, "uplo") ## either "U" or "L"          uplos <- vapply(Tlst, slot, ".", "uplo") ## either "U" or "L"
143          tLU <- table(uplos)# of length 1 or 2 ..          tLU <- table(uplos)# of length 1 or 2 ..
144          if(length(tLU) == 1) { ## all "U" or all "L"          if(length(tLU) == 1) { ## all "U" or all "L"
145              useU <- uplos[1] == "U"              useU <- uplos[1] == "U"
# Line 121  Line 153 
153          if(use.n) { ## return nsparseMatrix :          if(use.n) { ## return nsparseMatrix :
154              r <- new("nsTMatrix")              r <- new("nsTMatrix")
155          } else {          } else {
156              r <- new("dsTMatrix")              r <- new(paste0(if(use.l) "l" else "d", "sTMatrix"))
157              r@x <- unlist(lapply(Tlst, slot, "x"))              r@x <- unlist(lapply(Tlst, slot, "x"))
158          }          }
159          r@uplo <- if(useU) "U" else "L"          r@uplo <- if(useU) "U" else "L"
160      }      }
161      else if(all(tri) && { ULs <- sapply(Tlst, slot, "uplo")##  "U" or "L"      else if(all(tri) && { ULs <- vapply(Tlst, slot, ".", "uplo")##  "U" or "L"
162                            all(ULs[1L] == ULs[-1L]) } ## all upper or all lower                            all(ULs[1L] == ULs[-1L]) } ## all upper or all lower
163         ){ ## *triangular* result         ){ ## *triangular* result
164    
165          if(use.n) { ## return nsparseMatrix :          if(use.n) { ## return nsparseMatrix :
166              r <- new("ntTMatrix")              r <- new("ntTMatrix")
167          } else {          } else {
168              r <- new("dtTMatrix")              r <- new(paste0(if(use.l) "l" else "d", "tTMatrix"))
169              r@x <- unlist(lapply(Tlst, slot, "x"))              r@x <- unlist(lapply(Tlst, slot, "x"))
170          }          }
171          r@uplo <- ULs[1L]          r@uplo <- ULs[1L]
# Line 144  Line 176 
176          if(use.n) { ## return nsparseMatrix :          if(use.n) { ## return nsparseMatrix :
177              r <- new("ngTMatrix")              r <- new("ngTMatrix")
178          } else {          } else {
179              r <- new("dgTMatrix")              r <- new(paste0(if(use.l) "l" else "d", "gTMatrix"))
180              r@x <- unlist(lapply(Tlst, slot, "x"))              r@x <- unlist(lapply(Tlst, slot, "x"))
181          }          }
182      }      }
# Line 170  Line 202 
202  .diag2tT <- function(from, uplo = "U", kind = .M.kind(from)) {  .diag2tT <- function(from, uplo = "U", kind = .M.kind(from)) {
203      ## to triangular Tsparse      ## to triangular Tsparse
204      i <- if(from@diag == "U") integer(0) else seq_len(from@Dim[1]) - 1L      i <- if(from@diag == "U") integer(0) else seq_len(from@Dim[1]) - 1L
205      new(paste(kind, "tTMatrix", sep=''),      new(paste0(kind, "tTMatrix"),
206          diag = from@diag, Dim = from@Dim, Dimnames = from@Dimnames,          diag = from@diag, Dim = from@Dim, Dimnames = from@Dimnames,
207          uplo = uplo,          uplo = uplo,
208          x = from@x, # <- ok for diag = "U" and "N" (!)          x = from@x, # <- ok for diag = "U" and "N" (!)
# Line 181  Line 213 
213      ## to symmetric Tsparse      ## to symmetric Tsparse
214      n <- from@Dim[1]      n <- from@Dim[1]
215      i <- seq_len(n) - 1L      i <- seq_len(n) - 1L
216      new(paste(kind, "sTMatrix", sep=''),      new(paste0(kind, "sTMatrix"),
217          Dim = from@Dim, Dimnames = from@Dimnames,          Dim = from@Dim, Dimnames = from@Dimnames,
218          i = i, j = i, uplo = uplo,          i = i, j = i, uplo = uplo,
219          x = if(from@diag == "N") from@x else ## "U"-diag          x = if(from@diag == "N") from@x else ## "U"-diag
# Line 190  Line 222 
222                         "l" =,                         "l" =,
223                         "n" = TRUE,                         "n" = TRUE,
224                         ## otherwise                         ## otherwise
225                         stop("'", kind,"' kind not yet implemented")), n))                         stop(gettextf("%s kind not yet implemented",
226                                         sQuote(kind)), domain=NA)),
227                    n))
228  }  }
229    
230  ## diagonal -> triangular,  upper / lower depending on "partner":  ## diagonal -> triangular,  upper / lower depending on "partner":
# Line 206  Line 240 
240          .diag2tT(d, uplo = if(extends(clx,"triangularMatrix")) x@uplo else "U", kind)          .diag2tT(d, uplo = if(extends(clx,"triangularMatrix")) x@uplo else "U", kind)
241  }  }
242    
243    ## FIXME: should not be needed {when ddi* is dsparse* etc}:
244    setMethod("is.finite", signature(x = "diagonalMatrix"),
245              function(x) is.finite(.diag2tT(x)))
246    setMethod("is.infinite", signature(x = "diagonalMatrix"),
247              function(x) is.infinite(.diag2tT(x)))
248    
249  ## In order to evade method dispatch ambiguity warnings,  ## In order to evade method dispatch ambiguity warnings,
250  ## and because we can save a .M.kind() call, we use this explicit  ## and because we can save a .M.kind() call, we use this explicit
# Line 217  Line 256 
256  ##_no_longer_ setAs("ddiMatrix", "sparseMatrix", diag2tT)  ##_no_longer_ setAs("ddiMatrix", "sparseMatrix", diag2tT)
257  ## needed too (otherwise <dense> -> Tsparse is taken):  ## needed too (otherwise <dense> -> Tsparse is taken):
258  setAs("ddiMatrix", "TsparseMatrix", diag2tT)  setAs("ddiMatrix", "TsparseMatrix", diag2tT)
259    setAs("ddiMatrix", "dsparseMatrix", diag2tT)
260  setAs("ddiMatrix", "CsparseMatrix",  setAs("ddiMatrix", "CsparseMatrix",
261        function(from) as(.diag2tT(from, "U", "d"), "CsparseMatrix"))        function(from) as(.diag2tT(from, "U", "d"), "CsparseMatrix"))
262  setAs("ddiMatrix", "symmetricMatrix",  setAs("ddiMatrix", "symmetricMatrix",
# Line 228  Line 268 
268  ##_no_longer_ setAs("ldiMatrix", "sparseMatrix", diag2tT)  ##_no_longer_ setAs("ldiMatrix", "sparseMatrix", diag2tT)
269  ## needed too (otherwise <dense> -> Tsparse is taken):  ## needed too (otherwise <dense> -> Tsparse is taken):
270  setAs("ldiMatrix", "TsparseMatrix", diag2tT)  setAs("ldiMatrix", "TsparseMatrix", diag2tT)
271    setAs("ldiMatrix", "lsparseMatrix", diag2tT)
272  setAs("ldiMatrix", "CsparseMatrix",  setAs("ldiMatrix", "CsparseMatrix",
273        function(from) as(.diag2tT(from, "U", "l"), "CsparseMatrix"))        function(from) as(.diag2tT(from, "U", "l"), "CsparseMatrix"))
274  setAs("ldiMatrix", "symmetricMatrix",  setAs("ldiMatrix", "symmetricMatrix",
# Line 247  Line 288 
288  ## Cheap fast substitute for diag() which *does* preserve the mode of x :  ## Cheap fast substitute for diag() which *does* preserve the mode of x :
289  mkDiag <- function(x, n) {  mkDiag <- function(x, n) {
290      y <- matrix(as0(mod=mode(x)), n,n)      y <- matrix(as0(mod=mode(x)), n,n)
291      if (n > 0) y[1L + 0:(n - 1L) * (n + 1L)] <- x      if (n > 0) y[1L + 0:(n - 1L) * (n + 1)] <- x
292      y      y
293  }  }
294    
# Line 264  Line 305 
305                mod.x <- mode(x@x)                mod.x <- mode(x@x)
306                r <- vector(mod.x, length = n^2)                r <- vector(mod.x, length = n^2)
307                if(n)                if(n)
308                    r[1 + 0:(n - 1) * (n + 1)] <-                    r[1 + 0:(n - 1L) * (n + 1)] <-
309                        if(x@diag == "U") as1(mod=mod.x) else x@x                        if(x@diag == "U") as1(mod=mod.x) else x@x
310                r                r
311            })            })
# Line 272  Line 313 
313  setAs("diagonalMatrix", "generalMatrix", # prefer sparse:  setAs("diagonalMatrix", "generalMatrix", # prefer sparse:
314        function(from) as(as(from, "CsparseMatrix"), "generalMatrix"))        function(from) as(as(from, "CsparseMatrix"), "generalMatrix"))
315    
316    setAs("diagonalMatrix", "denseMatrix",
317          function(from) as(as(from, "CsparseMatrix"), "denseMatrix"))
318    
319    ..diag.x <- function(m)                   rep.int(as1(m@x), m@Dim[1])
320  .diag.x <- function(m) if(m@diag == "U") rep.int(as1(m@x), m@Dim[1]) else m@x  .diag.x <- function(m) if(m@diag == "U") rep.int(as1(m@x), m@Dim[1]) else m@x
321    
322  .diag.2N <- function(m) {  .diag.2N <- function(m) {
# Line 292  Line 337 
337            d <- dim(from)            d <- dim(from)
338            if(d[1] != (n <- d[2])) stop("non-square matrix")            if(d[1] != (n <- d[2])) stop("non-square matrix")
339            if(any(from[row(from) != col(from)] != 0))            if(any(from[row(from) != col(from)] != 0))
340                stop("has non-zero off-diagonal entries")                stop("matrix with non-zero off-diagonals cannot be coerced to \"diagonalMatrix\"")
341            x <- diag(from)            x <- diag(from)
342            if(is.logical(x)) {            if(is.logical(x)) {
343                cl <- "ldiMatrix"                cl <- "ldiMatrix"
344                uni <- all(x)                uni <- allTrue(x) ## uni := {is it unit-diagonal ?}
345            } else {            } else {
346                cl <- "ddiMatrix"                cl <- "ddiMatrix"
347                uni <- all(x == 1)                uni <- allTrue(x == 1)
348                storage.mode(x) <- "double"                storage.mode(x) <- "double"
349            } ## TODO: complex            } ## TODO: complex
350            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 316  Line 361 
361            x <- diag(from)            x <- diag(from)
362            if(is.logical(x)) {            if(is.logical(x)) {
363                cl <- "ldiMatrix"                cl <- "ldiMatrix"
364                uni <- all(x)                uni <- allTrue(x)
365            } else {            } else {
366                cl <- "ddiMatrix"                cl <- "ddiMatrix"
367                uni <- all(x == 1)                uni <- allTrue(x == 1)
368                storage.mode(x) <- "double"                storage.mode(x) <- "double"
369            }            } ## TODO: complex
370            new(cl, Dim = c(n,n), diag = if(uni) "U" else "N",            new(cl, Dim = c(n,n), diag = if(uni) "U" else "N",
371                x = if(uni) x[FALSE] else x)                x = if(uni) x[FALSE] else x)
372        })        })
# Line 331  Line 376 
376            function(x = 1, nrow, ncol) .diag.x(x))            function(x = 1, nrow, ncol) .diag.x(x))
377    
378  subDiag <- function(x, i, j, ..., drop) {  subDiag <- function(x, i, j, ..., drop) {
379      x <- as(x, "TsparseMatrix")      x <- as(x, "CsparseMatrix") ## << was "TsparseMatrix" (Csparse is faster now)
380      x <- if(missing(i))      x <- if(missing(i))
381          x[, j, drop=drop]          x[, j, drop=drop]
382      else if(missing(j))      else if(missing(j))
383          x[i, , drop=drop]          if(nargs() == 4) x[i, , drop=drop] else x[i, drop=drop]
384      else      else
385          x[i,j, drop=drop]          x[i,j, drop=drop]
386      if(isS4(x) && isDiagonal(x)) as(x, "diagonalMatrix") else x      if(isS4(x) && isDiagonal(x)) as(x, "diagonalMatrix") else x
# Line 345  Line 390 
390                           j = "index", drop = "logical"), subDiag)                           j = "index", drop = "logical"), subDiag)
391  setMethod("[", signature(x = "diagonalMatrix", i = "index",  setMethod("[", signature(x = "diagonalMatrix", i = "index",
392                          j = "missing", drop = "logical"),                          j = "missing", drop = "logical"),
393            function(x, i, j, ..., drop) subDiag(x, i=i, drop=drop))            function(x, i, j, ..., drop) {
394                  na <- nargs()
395                  Matrix.msg("diag[i,m,l] : nargs()=", na, .M.level = 2)
396                  if(na == 4)
397                       subDiag(x, i=i, , drop=drop)
398                  else subDiag(x, i=i,   drop=drop)
399              })
400  setMethod("[", signature(x = "diagonalMatrix", i = "missing",  setMethod("[", signature(x = "diagonalMatrix", i = "missing",
401                           j = "index", drop = "logical"),                           j = "index", drop = "logical"),
402            function(x, i, j, ..., drop) subDiag(x, j=j, drop=drop))            function(x, i, j, ..., drop) subDiag(x, j=j, drop=drop))
# Line 355  Line 406 
406  ## FIXME: this now fails because the "denseMatrix" methods come first in dispatch  ## FIXME: this now fails because the "denseMatrix" methods come first in dispatch
407  ## Only(?) current bug:  x[i] <- value  is wrong when  i is *vector*  ## Only(?) current bug:  x[i] <- value  is wrong when  i is *vector*
408  replDiag <- function(x, i, j, ..., value) {  replDiag <- function(x, i, j, ..., value) {
409      x <- as(x, "TsparseMatrix")      x <- as(x, "CsparseMatrix")# was "Tsparse.." till 2012-07
410      if(missing(i))      if(missing(i))
411          x[, j] <- value          x[, j] <- value
412      else if(missing(j)) { ##  x[i , ] <- v  *OR*   x[i] <- v      else if(missing(j)) { ##  x[i , ] <- v  *OR*   x[i] <- v
# Line 365  Line 416 
416              x[i, ] <- value              x[i, ] <- value
417          else if(na == 3)          else if(na == 3)
418              x[i] <- value              x[i] <- value
419          else stop("Internal bug: nargs()=",na,"; please report")          else stop(gettextf("Internal bug: nargs()=%d; please report",
420                               na), domain=NA)
421      } else      } else
422          x[i,j] <- value          x[i,j] <- value
423      if(isDiagonal(x)) as(x, "diagonalMatrix") else x      if(isDiagonal(x)) as(x, "diagonalMatrix") else x
# Line 384  Line 436 
436                           replDiag(x, i=i, , value=value)                           replDiag(x, i=i, , value=value)
437                   })                   })
438    
439    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing",
440                                    j = "index", value = "replValue"),
441                     function(x,i,j, ..., value) replDiag(x, j=j, value=value))
442    
443    ## x[] <- value :
444    setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing",
445                                    j = "missing", value = "ANY"),
446                     function(x,i,j, ..., value)
447                 {
448                  if(all0(value)) { # be faster
449                      r <- new(paste0(.M.kindC(getClassDef(class(x))),"tTMatrix"))# of all "0"
450                      r@Dim <- x@Dim
451                      r@Dimnames <- x@Dimnames
452                      r
453                  } else { ## typically non-sense: assigning to full sparseMatrix
454                      x[TRUE] <- value
455                      x
456                  }
457              })
458    
459    
460  setReplaceMethod("[", signature(x = "diagonalMatrix",  setReplaceMethod("[", signature(x = "diagonalMatrix",
461                                  i = "matrix", # 2-col.matrix                                  i = "matrix", # 2-col.matrix
462                                  j = "missing", value = "replValue"),                                  j = "missing", value = "replValue"),
# Line 395  Line 468 
468                                   if(any(value != one | is.na(value))) {                                   if(any(value != one | is.na(value))) {
469                                       x@diag <- "N"                                       x@diag <- "N"
470                                       x@x <- rep.int(one, x@Dim[1])                                       x@x <- rep.int(one, x@Dim[1])
471                                   }                                   } else return(x)
472                               }                               }
473                               x@x[ii] <- value                               x@x[ii] <- value
474                               x                               x
# Line 412  Line 485 
485                       }                       }
486                   })                   })
487    
 setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing",  
                                 j = "index", value = "replValue"),  
                  function(x,i,j, ..., value) replDiag(x, j=j, value=value))  
488    
489    ## value = "sparseMatrix":
490  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing", j = "index",  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing", j = "index",
491                                  value = "sparseMatrix"),                                  value = "sparseMatrix"),
492                   function (x, i, j, ..., value)                   function (x, i, j, ..., value)
# Line 429  Line 500 
500                   function (x, i, j, ..., value)                   function (x, i, j, ..., value)
501                   callGeneric(x=x, i=i, j=j, value = as(value, "sparseVector")))                   callGeneric(x=x, i=i, j=j, value = as(value, "sparseVector")))
502    
503    ## value = "sparseVector":
504  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing", j = "index",  setReplaceMethod("[", signature(x = "diagonalMatrix", i = "missing", j = "index",
505                                  value = "sparseVector"),                                  value = "sparseVector"),
506                   replDiag)                   replDiag)
# Line 443  Line 515 
515  setMethod("t", signature(x = "diagonalMatrix"),  setMethod("t", signature(x = "diagonalMatrix"),
516            function(x) { x@Dimnames <- x@Dimnames[2:1] ; x })            function(x) { x@Dimnames <- x@Dimnames[2:1] ; x })
517    
518  setMethod("isDiagonal", signature(object = "diagonalMatrix"),  setMethod("isDiagonal",   "diagonalMatrix", function(object) TRUE)
519            function(object) TRUE)  setMethod("isTriangular", "diagonalMatrix", function(object, ...) TRUE)
520  setMethod("isTriangular", signature(object = "diagonalMatrix"),  setMethod("isSymmetric",  "diagonalMatrix", function(object, ...) TRUE)
           function(object) TRUE)  
 setMethod("isSymmetric", signature(object = "diagonalMatrix"),  
           function(object, ...) TRUE)  
521    
522  setMethod("symmpart", signature(x = "diagonalMatrix"), function(x) x)  setMethod("symmpart", signature(x = "diagonalMatrix"), function(x) x)
523  setMethod("skewpart", signature(x = "diagonalMatrix"), setZero)  setMethod("skewpart", signature(x = "diagonalMatrix"), setZero)
# Line 485  Line 554 
554  ##       ---------------------  ##       ---------------------
555  ## Note that "ldi" logical are treated as numeric  ## Note that "ldi" logical are treated as numeric
556  diagdiagprod <- function(x, y) {  diagdiagprod <- function(x, y) {
557      n <- dimCheck(x,y)[1]      dimCheck(x,y)
558      if(x@diag != "U") {      if(x@diag != "U") {
559          if(y@diag != "U") {          if(y@diag != "U") {
560              nx <- x@x * y@x              nx <- x@x * y@x
# Line 517  Line 586 
586      dx <- dim(x)      dx <- dim(x)
587      dy <- dim(y)      dy <- dim(y)
588      if(dx[2] != dy[1]) stop("non-matching dimensions")      if(dx[2] != dy[1]) stop("non-matching dimensions")
     n <- dx[1]  
589      as(if(x@diag == "U") y else x@x * y, "Matrix")      as(if(x@diag == "U") y else x@x * y, "Matrix")
590  }  }
591  setMethod("%*%", signature(x = "diagonalMatrix", y = "matrix"),  setMethod("%*%", signature(x = "diagonalMatrix", y = "matrix"),
# Line 586  Line 654 
654  ##        function(x, y = NULL) {  ##        function(x, y = NULL) {
655  ##           })  ##           })
656    
657  ## setMethod("tcrossprod", signature(x = "denseMatrix", y = "diagonalMatrix"),  ##' @param x CsparseMatrix
658  ##        function(x, y = NULL) {  ##' @param y diagonalMatrix
659  ##           })  ##' @return x %*% y
660    Cspdiagprod <- function(x, y) {
661        dx <- dim(x <- .Call(Csparse_diagU2N, x))
662        dy <- dim(y)
663        if(dx[2] != dy[1]) stop("non-matching dimensions")
664        if(y@diag == "N") { ## otherwise: y == Diagonal(n) : multiplication is identity
665            if(!all(y@x[1L] == y@x[-1L]) && is(x, "symmetricMatrix"))
666                x <- as(x, "generalMatrix")
667            ind <- rep.int(seq_len(dx[2]), x@p[-1] - x@p[-dx[2]-1L])
668            x@x <- x@x * y@x[ind]
669            if(is(x, "compMatrix") && length(xf <- x@factors)) {
670                ## instead of dropping all factors, be smart about some
671                ## TODO ......
672                x@factors <- list()
673            }
674        }
675        x
676    }
677    
678    ##' @param x diagonalMatrix
679    ##' @param y CsparseMatrix
680    ##' @return x %*% y
681    diagCspprod <- function(x, y) {
682        dx <- dim(x)
683        dy <- dim(y <- .Call(Csparse_diagU2N, y))
684        if(dx[2] != dy[1]) stop("non-matching dimensions")
685        if(x@diag == "N") {
686            if(!all(x@x[1L] == x@x[-1L]) && is(y, "symmetricMatrix"))
687                y <- as(y, "generalMatrix")
688            y@x <- y@x * x@x[y@i + 1L]
689            if(is(y, "compMatrix") && length(yf <- y@factors)) {
690                ## TODO
691                if(FALSE) { ## instead of dropping all factors, be smart about some
692                    keep <- character()
693                    if(any(iLU <- names(yf) == "LU")) {
694                        keep <- "LU"
695                    }
696                    y@factors <- yf[keep]
697                } else y@factors <- list() ## for now
698            }
699        }
700        y
701    }
702    
703    setMethod("crossprod", signature(x = "diagonalMatrix", y = "CsparseMatrix"),
704              function(x, y = NULL) diagCspprod(x, y))
705    
706  setMethod("crossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),  setMethod("crossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),
707            function(x, y = NULL) crossprod(as(x, "TsparseMatrix"), y))            function(x, y = NULL) diagCspprod(x, as(y, "CsparseMatrix")))
708    
709    ## Prefer calling diagCspprod to Cspdiagprod if going to transpose anyway
710    ##  x'y == (y'x)'
711    setMethod("crossprod", signature(x = "CsparseMatrix", y = "diagonalMatrix"),
712              function(x, y = NULL) t(diagCspprod(y, x)))
713    
714  setMethod("crossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),  setMethod("crossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),
715            function(x, y = NULL) crossprod(x, as(y, "TsparseMatrix")))            function(x, y = NULL) t(diagCspprod(y, as(x, "Csparsematrix"))))
716    
717    setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "CsparseMatrix"),
718              function(x, y = NULL) diagCspprod(x, t(y)))
719    
720  setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),  setMethod("tcrossprod", signature(x = "diagonalMatrix", y = "sparseMatrix"),
721            function(x, y = NULL) tcrossprod(as(x, "TsparseMatrix"), y))            function(x, y = NULL) diagCspprod(x, t(as(y, "CsparseMatrix"))))
722    
723    setMethod("tcrossprod", signature(x = "CsparseMatrix", y = "diagonalMatrix"),
724              function(x, y = NULL) Cspdiagprod(x, y))
725    
726  setMethod("tcrossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),  setMethod("tcrossprod", signature(x = "sparseMatrix", y = "diagonalMatrix"),
727            function(x, y = NULL) tcrossprod(x, as(y, "TsparseMatrix")))            function(x, y = NULL) Cspdiagprod(as(x, "CsparseMatrix"), y))
728    
729    setMethod("%*%", signature(x = "diagonalMatrix", y = "CsparseMatrix"),
730              function(x, y) diagCspprod(x, y))
731    
732    ## instead of "sparseMatrix", use: [RT]sparse.. ("closer" in method dispatch)
733    for(cl in c("TsparseMatrix", "RsparseMatrix")) {
734    
 ## FIXME?: In theory, this can be done *FASTER*, in some cases, via tapply1()  
735  setMethod("%*%", signature(x = "diagonalMatrix", y = "sparseMatrix"),  setMethod("%*%", signature(x = "diagonalMatrix", y = "sparseMatrix"),
736            function(x, y) as(x, "TsparseMatrix") %*% y)            function(x, y) diagCspprod(as(x, "CsparseMatrix"), y))
737    
738  setMethod("%*%", signature(x = "sparseMatrix", y = "diagonalMatrix"),  setMethod("%*%", signature(x = "sparseMatrix", y = "diagonalMatrix"),
739            function(x, y) x %*% as(y, "TsparseMatrix"))            function(x, y) Cspdiagprod(as(x, "CsparseMatrix"), y))
740  ## NB: The previous is *not* triggering for  "ddi" o "dgC" (= distance 3)  }
741  ##     since there's a "ddense" o "Csparse" at dist. 2 => triggers first.  
 ## ==> do this:  
 setMethod("%*%", signature(x = "diagonalMatrix", y = "CsparseMatrix"),  
           function(x, y) as(x, "CsparseMatrix") %*% y)  
742  setMethod("%*%", signature(x = "CsparseMatrix", y = "diagonalMatrix"),  setMethod("%*%", signature(x = "CsparseMatrix", y = "diagonalMatrix"),
743            function(x, y) x %*% as(y, "CsparseMatrix"))            function(x, y) Cspdiagprod(x, y))
744  ## NB: this is *not* needed for Tsparse & Rsparse  
745  ## TODO: Write tests in ./tests/ which ensure that many "ops" with diagonal*  ## TODO: Write tests in ./tests/ which ensure that many "ops" with diagonal*
746  ##       do indeed work by going through sparse (and *not* ddense)!  ##       do indeed work by going through sparse (and *not* ddense)!
747    
   
   
748  setMethod("solve", signature(a = "diagonalMatrix", b = "missing"),  setMethod("solve", signature(a = "diagonalMatrix", b = "missing"),
749            function(a, b, ...) {            function(a, b, ...) {
750                a@x <- 1/ a@x                a@x <- 1/ a@x
# Line 629  Line 753 
753            })            })
754    
755  solveDiag <- function(a, b, ...) {  solveDiag <- function(a, b, ...) {
756      if((n <- a@Dim[1]) != nrow(b))      if(a@Dim[1] != nrow(b))
757          stop("incompatible matrix dimensions")          stop("incompatible matrix dimensions")
758      ## trivially invert a 'in place' and multiply:      ## trivially invert a 'in place' and multiply:
759      a@x <- 1/ a@x      a@x <- 1/ a@x
# Line 648  Line 772 
772  ###---------------- <Ops> (<Arith>, <Logic>, <Compare> ) ----------------------  ###---------------- <Ops> (<Arith>, <Logic>, <Compare> ) ----------------------
773    
774  ## Use function for several signatures, in order to evade  ## Use function for several signatures, in order to evade
 ## ambiguous dispatch for "ddi", since there's also Arith(ddense., ddense.)  
775  diagOdiag <- function(e1,e2) {  diagOdiag <- function(e1,e2) {
776      ## result should also be diagonal _ if possible _      ## result should also be diagonal _ if possible _
777      r <- callGeneric(.diag.x(e1), .diag.x(e2)) # error if not "compatible"      r <- callGeneric(.diag.x(e1), .diag.x(e2)) # error if not "compatible"
# Line 656  Line 779 
779      r00 <- callGeneric(if(is.numeric(e1@x)) 0 else FALSE,      r00 <- callGeneric(if(is.numeric(e1@x)) 0 else FALSE,
780                         if(is.numeric(e2@x)) 0 else FALSE)                         if(is.numeric(e2@x)) 0 else FALSE)
781      if(is0(r00)) { ##  r00 == 0 or FALSE --- result *is* diagonal      if(is0(r00)) { ##  r00 == 0 or FALSE --- result *is* diagonal
782          if(is.numeric(r)) {          if(is.numeric(r)) { # "double" *or* "integer"
783              if(is.numeric(e2@x)) {              if(is.numeric(e2@x)) {
784                  e2@x <- r; return(.diag.2N(e2)) }                  e2@x <- r; return(.diag.2N(e2)) }
785              if(!is.numeric(e1@x))              if(!is.numeric(e1@x))
786                  ## e.g. e1, e2 are logical;                  ## e.g. e1, e2 are logical;
787                  e1 <- as(e1, "dMatrix")                  e1 <- as(e1, "dMatrix")
788                if(!is.double(r)) r <- as.double(r)
789          }          }
790          else if(is.logical(r))          else if(is.logical(r))
791              e1 <- as(e1, "lMatrix")              e1 <- as(e1, "lMatrix")
792          else stop("intermediate 'r' is of type", typeof(r))          else stop(gettextf("intermediate 'r' is of type %s",
793                               typeof(r)), domain=NA)
794          e1@x <- r          e1@x <- r
795          .diag.2N(e1)          .diag.2N(e1)
796      }      }
797      else { ## result not diagonal, but at least symmetric:      else { ## result not diagonal, but at least symmetric:
798            ## e.g., m == m
799          isNum <- (is.numeric(r) || is.numeric(r00))          isNum <- (is.numeric(r) || is.numeric(r00))
800          isLog <- (is.logical(r) || is.logical(r00))          isLog <- (is.logical(r) || is.logical(r00))
801            Matrix.msg("exploding <diag> o <diag> into dense matrix", .M.level = 2)
         if(getOption("verbose"))  
             message("exploding  <diag>  o  <diag>  into dense matrix")  
802          d <- e1@Dim          d <- e1@Dim
803          n <- d[1]          n <- d[1]
804          stopifnot(length(r) == n)          stopifnot(length(r) == n)
805            if(isNum && !is.double(r)) r <- as.double(r)
806          xx <- as.vector(matrix(rbind(r, matrix(r00,n,n)), n,n))          xx <- as.vector(matrix(rbind(r, matrix(r00,n,n)), n,n))
807          newcl <-          newcl <-
808              paste(if(isNum) "d" else if(isLog) {              paste0(if(isNum) "d" else if(isLog) {
809                  if(!any(is.na(r)) && !any(is.na(r00))) "n" else "l"                  if(!any(is.na(r)) && !any(is.na(r00))) "n" else "l"
810              } else stop("not yet implemented .. please report")              } else stop("not yet implemented .. please report"), "syMatrix")
                   ,  
                   "syMatrix", sep='')  
811    
812          new(newcl, Dim = e1@Dim, Dimnames = e1@Dimnames, x = xx)          new(newcl, Dim = e1@Dim, Dimnames = e1@Dimnames, x = xx)
813      }      }
# Line 702  Line 825 
825              setMethod("Ops", signature(e1 = c1, e2 = c2), diagOdiag)              setMethod("Ops", signature(e1 = c1, e2 = c2), diagOdiag)
826  }  }
827    
828  ## FIXME:    diagonal  o  triangular  |-->  triangular  ## diagonal  o  triangular  |-->  triangular
829  ## -----     diagonal  o  symmetric   |-->  symmetric  ## diagonal  o  symmetric   |-->  symmetric
830  ##    {also when other is sparse: do these "here" --  ##    {also when other is sparse: do these "here" --
831  ##     before conversion to sparse, since that loses "diagonality"}  ##     before conversion to sparse, since that loses "diagonality"}
832    diagOtri <- function(e1,e2) {
833        ## result must be triangular
834        r <- callGeneric(d1 <- .diag.x(e1), diag(e2)) # error if not "compatible"
835        ## Check what happens with non-diagonals, i.e. (0 o 0), (FALSE o 0), ...:
836        e1.0 <- if(.n1 <- is.numeric(d1   )) 0 else FALSE
837        r00 <- callGeneric(e1.0, if(.n2 <- is.numeric(e2[0])) 0 else FALSE)
838        if(is0(r00)) { ##  r00 == 0 or FALSE --- result *is* triangular
839            diag(e2) <- r
840            ## check what happens "in the triangle"
841            e2.2 <- if(.n2) 2 else TRUE
842            if(!callGeneric(e1.0, e2.2) == e2.2) { # values "in triangle" can change:
843                n <- dim(e2)[1L]
844                it <- indTri(n, upper = (e2@uplo == "U"))
845                e2[it] <- callGeneric(e1.0, e2[it])
846            }
847            e2
848        }
849        else { ## result not triangular ---> general
850            rr <- as(e2, "generalMatrix")
851            diag(rr) <- r
852            rr
853        }
854    }
855    
856    
857    setMethod("Ops", signature(e1 = "diagonalMatrix", e2 = "triangularMatrix"),
858              diagOtri)
859    ## For the reverse,  Ops == "Arith" | "Compare" | "Logic"
860    ##   'Arith'  :=  '"+"', '"-"', '"*"', '"^"', '"%%"', '"%/%"', '"/"'
861    setMethod("Arith", signature(e1 = "triangularMatrix", e2 = "diagonalMatrix"),
862              function(e1,e2)
863          { ## this must only trigger for *dense* e1
864              switch(.Generic,
865                     "+" = .Call(dtrMatrix_addDiag, as(e1,"dtrMatrix"),   .diag.x(e2)),
866                     "-" = .Call(dtrMatrix_addDiag, as(e1,"dtrMatrix"), - .diag.x(e2)),
867                     "*" = {
868                         n <- e2@Dim[1L]
869                         d2 <- if(e2@diag == "U") { # unit-diagonal
870                             d <- rep.int(as1(e2@x), n)
871                             e2@x <- d
872                             e2@diag <- "N"
873                             d
874                         } else e2@x
875                         e2@x <- diag(e1) * d2
876                         e2
877                     },
878                     "^" = { ## will be dense ( as  <ANY> ^ 0 == 1 ):
879                         e1 ^ as(e2, "denseMatrix")
880                     },
881                     ## otherwise:
882                     callGeneric(e1, diag2Tsmart(e2,e1)))
883    })
884    
885    ## Compare --> 'swap' (e.g.   e1 < e2   <==>  e2 > e1 ):
886    setMethod("Compare", signature(e1 = "triangularMatrix", e2 = "diagonalMatrix"),
887              .Cmp.swap)
888    ## '&' and "|'  are commutative:
889    setMethod("Logic", signature(e1 = "triangularMatrix", e2 = "diagonalMatrix"),
890              function(e1,e2) callGeneric(e2, e1))
891    
892  ## For almost everything else, diag* shall be treated "as sparse" :  ## For almost everything else, diag* shall be treated "as sparse" :
893  ## These are cheap implementations via coercion  ## These are cheap implementations via coercion
# Line 729  Line 911 
911  ##       Compare --> logical  ##       Compare --> logical
912  ##       Logic   --> logical: "lMatrix"  ##       Logic   --> logical: "lMatrix"
913    
914  ##  other = "numeric" : stay diagonal if possible  ## Other = "numeric" : stay diagonal if possible
915  ## ddi*: Arith: result numeric, potentially ddiMatrix  ## ddi*: Arith: result numeric, potentially ddiMatrix
916  setMethod("Arith", signature(e1 = "ddiMatrix", e2 = "numeric"),  for(arg2 in c("numeric","logical"))
917    setMethod("Arith", signature(e1 = "ddiMatrix", e2 = arg2),
918            function(e1,e2) {            function(e1,e2) {
919                n <- e1@Dim[1]; nsq <- n^2                n <- e1@Dim[1]
920                f0 <- callGeneric(0, e2)                f0 <- callGeneric(0, e2)
921                if(all(is0(f0))) { # remain diagonal                if(all(is0(f0))) { # remain diagonal
922                    L1 <- (le <- length(e2)) == 1L                    L1 <- (le <- length(e2)) == 1L
923                    if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)                    if(e1@diag == "U") {
924                    if(e1@diag == "U" && any((r <- callGeneric(1, e2)) != 1)) {                        if(any((r <- callGeneric(1, e2)) != 1)) {
925                        e1@diag <- "N"                        e1@diag <- "N"
926                        if(L1) r <- rep.int(r, n)                            e1@x[seq_len(n)] <- r # possibly recycling r
927                    } else                        } ## else: result = e1  (is "U" diag)
928                      } else {
929                        r <- callGeneric(e1@x, e2)                        r <- callGeneric(e1@x, e2)
930                    e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]                        ## "future fixme": if we have idiMatrix, and r is 'integer', use idiMatrix
931                    return(e1)                        e1@x[] <- if(L1) r else r[1L + ((n+1)*(0:(n-1L))) %% le]
932                }                }
933                      e1
934                  } else
935                callGeneric(diag2tT.u(e1,e2, "d"), e2)                callGeneric(diag2tT.u(e1,e2, "d"), e2)
936            })            })
937    
938  setMethod("Arith", signature(e1 = "numeric", e2 = "ddiMatrix"),  for(arg1 in c("numeric","logical"))
939    setMethod("Arith", signature(e1 = arg1, e2 = "ddiMatrix"),
940            function(e1,e2) {            function(e1,e2) {
941                n <- e2@Dim[1]; nsq <- n^2                n <- e2@Dim[1]
942                f0 <- callGeneric(e1, 0)                f0 <- callGeneric(e1, 0)
943                if(all(is0(f0))) { # remain diagonal                if(all(is0(f0))) { # remain diagonal
944                    L1 <- (le <- length(e1)) == 1L                    L1 <- (le <- length(e1)) == 1L
945                    if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)                    if(e2@diag == "U") {
946                    if(e2@diag == "U" && any((r <- callGeneric(e1, 1)) != 1)) {                        if(any((r <- callGeneric(e1, 1)) != 1)) {
947                        e2@diag <- "N"                        e2@diag <- "N"
948                        if(L1) r <- rep.int(r, n)                            e2@x[seq_len(n)] <- r # possibly recycling r
949                    } else                        } ## else: result = e2  (is "U" diag)
950                      } else {
951                        r <- callGeneric(e1, e2@x)                        r <- callGeneric(e1, e2@x)
952                    e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]                        ## "future fixme": if we have idiMatrix, and r is 'integer', use idiMatrix
953                    return(e2)                        e2@x[] <- if(L1) r else r[1L + ((n+1)*(0:(n-1L))) %% le]
954                }                }
955                      e2
956                  } else
957                callGeneric(e1, diag2tT.u(e2,e1, "d"))                callGeneric(e1, diag2tT.u(e2,e1, "d"))
958            })            })
959    
960  ## ldi* Arith --> result numeric, potentially ddiMatrix  ## ldi* Arith --> result numeric, potentially ddiMatrix
961  setMethod("Arith", signature(e1 = "ldiMatrix", e2 = "numeric"),  for(arg2 in c("numeric","logical"))
962    setMethod("Arith", signature(e1 = "ldiMatrix", e2 = arg2),
963            function(e1,e2) {            function(e1,e2) {
964                n <- e1@Dim[1]; nsq <- n^2                n <- e1@Dim[1]
965                f0 <- callGeneric(0, e2)                f0 <- callGeneric(0, e2)
966                if(all(is0(f0))) { # remain diagonal                if(all(is0(f0))) { # remain diagonal
967                    L1 <- (le <- length(e2)) == 1L                    L1 <- (le <- length(e2)) == 1L
968                    if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)                    E <- copyClass(e1, "ddiMatrix", c("diag", "Dim", "Dimnames"))#FIXME: if ok, check=FALSE
969                    if(e1@diag == "U" && any((r <- callGeneric(1, e2)) != 1)) {                    ## E <- copyClass(e1, "ddiMatrix", check=FALSE)
970                        e1@diag <- "N"                    ## storage.mode(E@x) <- "double"
971                        if(L1) r <- rep.int(r, n)                    if(e1@diag == "U") {
972                    } else                        if(any((r <- callGeneric(1, e2)) != 1)) {
973                              E@diag <- "N"
974                              E@x[seq_len(n)] <- r # possibly recycling r
975                          } ## else: result = E  (is "U" diag)
976                      } else {
977                        r <- callGeneric(e1@x, e2)                        r <- callGeneric(e1@x, e2)
978                    e1 <- copyClass(e1, "ddiMatrix", c("diag", "Dim", "Dimnames"))                        ## "future fixme": if we have idiMatrix, and r is 'integer', use idiMatrix
979                    e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]                        E@x[seq_len(n)] <- if(L1) r else r[1L + ((n+1)*(0:(n-1L))) %% le]
                   return(e1)  
980                }                }
981                callGeneric(diag2tT.u(e1,e2, "d"), e2)                    E
982                  } else
983                      callGeneric(diag2tT.u(e1,e2, "l"), e2)
984            })            })
985    
986  setMethod("Arith", signature(e1 = "numeric", e2 = "ldiMatrix"),  for(arg1 in c("numeric","logical"))
987    setMethod("Arith", signature(e1 = arg1, e2 = "ldiMatrix"),
988            function(e1,e2) {            function(e1,e2) {
989                n <- e2@Dim[1]; nsq <- n^2                n <- e2@Dim[1]
990                f0 <- callGeneric(e1, 0)                f0 <- callGeneric(e1, 0)
991                if(all(is0(f0))) { # remain diagonal                if(all(is0(f0))) { # remain diagonal
992                    L1 <- (le <- length(e1)) == 1L                    L1 <- (le <- length(e1)) == 1L
993                    if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)                    E <- copyClass(e2, "ddiMatrix", c("diag", "Dim", "Dimnames"))#FIXME: if ok, check=FALSE
994                    if(e2@diag == "U" && any((r <- callGeneric(e1, 1)) != 1)) {                    ## E <- copyClass(e2, "ddiMatrix", check=FALSE)
995                        e2@diag <- "N"                    ## storage.mode(E@x) <- "double"
996                        if(L1) r <- rep.int(r, n)                    if(e2@diag == "U") {
997                    } else                        if(any((r <- callGeneric(e1, 1)) != 1)) {
998                              E@diag <- "N"
999                              E@x[seq_len(n)] <- r # possibly recycling r
1000                          } ## else: result = E  (is "U" diag)
1001                      } else {
1002                        r <- callGeneric(e1, e2@x)                        r <- callGeneric(e1, e2@x)
1003                    e2 <- copyClass(e2, "ddiMatrix", c("diag", "Dim", "Dimnames"))                        ## "future fixme": if we have idiMatrix, and r is 'integer', use idiMatrix
1004                    e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]                        E@x[seq_len(n)] <- if(L1) r else r[1L + ((n+1)*(0:(n-1L))) %% le]
                   return(e2)  
1005                }                }
1006                callGeneric(e1, diag2tT.u(e2,e1, "d"))                    E
1007                  } else
1008                      callGeneric(e1, diag2tT.u(e2,e1, "l"))
1009            })            })
1010    
1011  ## ddi*: for "Ops" without Arith --> result logical, potentially ldi  ## ddi*: for "Ops" without "Arith": <Compare> or <Logic> --> result logical, potentially ldi
1012  setMethod("Ops", signature(e1 = "ddiMatrix", e2 = "numeric"),  ##
1013    ## Note that  ("numeric", "ddiMatrix")  is simply swapped, e.g.,
1014    if(FALSE) {
1015        selectMethod("<", c("numeric","lMatrix"))# Compare
1016        selectMethod("&", c("numeric","lMatrix"))# Logic
1017    } ## so we don't need to define a method here :
1018    
1019    for(arg2 in c("numeric","logical"))
1020    setMethod("Ops", signature(e1 = "ddiMatrix", e2 = arg2),
1021            function(e1,e2) {            function(e1,e2) {
1022                n <- e1@Dim[1]; nsq <- n^2                n <- e1@Dim[1]
1023                f0 <- callGeneric(0, e2)                f0 <- callGeneric(0, e2)
1024                if(all(is0(f0))) { # remain diagonal                if(all(is0(f0))) { # remain diagonal
1025                    L1 <- (le <- length(e2)) == 1L                    L1 <- (le <- length(e2)) == 1L
1026                    if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)                    E <- copyClass(e1, "ldiMatrix", c("diag", "Dim", "Dimnames"))#FIXME: if ok, check=FALSE
1027                    if(e1@diag == "U" && any((r <- callGeneric(1, e2)) != 1)) {                    ## E <- copyClass(e1, "ldiMatrix", check=FALSE)
1028                        e1@diag <- "N"                    ## storage.mode(E@x) <- "logical"
1029                        if(L1) r <- rep.int(r, n)                    if(e1@diag == "U") {
1030                    } else                        if(any((r <- callGeneric(1, e2)) != 1)) {
1031                              E@diag <- "N"
1032                              E@x[seq_len(n)] <- r # possibly recycling r
1033                          } ## else: result = E  (is "U" diag)
1034                      } else {
1035                        r <- callGeneric(e1@x, e2)                        r <- callGeneric(e1@x, e2)
1036                    e1 <- copyClass(e1, "ldiMatrix", c("diag", "Dim", "Dimnames"))                        ## "future fixme": if we have idiMatrix, and r is 'integer', use idiMatrix
1037                    e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]                        E@x[seq_len(n)] <- if(L1) r else r[1L + ((n+1)*(0:(n-1L))) %% le]
                   return(e1)  
1038                }                }
1039                callGeneric(diag2tT.u(e1,e2, "l"), e2)                    E
           })  
   
 setMethod("Ops", signature(e1 = "numeric", e2 = "ddiMatrix"),  
           function(e1,e2) {  
               n <- e2@Dim[1]; nsq <- n^2  
               f0 <- callGeneric(e1, 0)  
               if(all(is0(f0))) { # remain diagonal  
                   L1 <- (le <- length(e1)) == 1L  
                   if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)  
                   if(e2@diag == "U" && any((r <- callGeneric(e1, 1)) != 1)) {  
                       e2@diag <- "N"  
                       if(L1) r <- rep.int(r, n)  
1040                    } else                    } else
1041                        r <- callGeneric(e1, e2@x)                    callGeneric(diag2tT.u(e1,e2, "d"), e2)
                   e2 <- copyClass(e2, "ldiMatrix", c("diag", "Dim", "Dimnames"))  
                   e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]  
                   return(e2)  
               }  
               callGeneric(e1, diag2tT.u(e2,e1, "l"))  
1042            })            })
1043    
1044  ## ldi*: for "Ops" without Arith --> result logical, potentially ldi  ## ldi*: for "Ops" without "Arith": <Compare> or <Logic> --> result logical, potentially ldi
1045  setMethod("Ops", signature(e1 = "ldiMatrix", e2 = "numeric"),  for(arg2 in c("numeric","logical"))
1046    setMethod("Ops", signature(e1 = "ldiMatrix", e2 = arg2),
1047            function(e1,e2) {            function(e1,e2) {
1048                n <- e1@Dim[1]; nsq <- n^2                n <- e1@Dim[1]
1049                f0 <- callGeneric(FALSE, e2)                f0 <- callGeneric(FALSE, e2)
1050                if(all(is0(f0))) { # remain diagonal                if(all(is0(f0))) { # remain diagonal
1051                    L1 <- (le <- length(e2)) == 1L                    L1 <- (le <- length(e2)) == 1L
1052                    if(!L1 && le != nsq) e2 <- rep(e2, length.out = nsq)  
1053                    if(e1@diag == "U" && any((r <- callGeneric(TRUE, e2)) != 1)) {                    if(e1@diag == "U") {
1054                          if(any((r <- callGeneric(TRUE, e2)) != 1)) {
1055                        e1@diag <- "N"                        e1@diag <- "N"
1056                        if(L1) r <- rep.int(r, n)                            e1@x[seq_len(n)] <- r # possibly recycling r
1057                    } else                        } ## else: result = e1  (is "U" diag)
1058                      } else {
1059                        r <- callGeneric(e1@x, e2)                        r <- callGeneric(e1@x, e2)
1060                    e1@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]                        ## "future fixme": if we have idiMatrix, and r is 'integer', use idiMatrix
1061                    return(e1)                        e1@x[] <- if(L1) r else r[1L + ((n+1)*(0:(n-1L))) %% le]
1062                }                }
1063                callGeneric(diag2tT.u(e1,e2, "l"), e2)                    e1
           })  
   
 setMethod("Ops", signature(e1 = "numeric", e2 = "ldiMatrix"),  
           function(e1,e2) {  
               n <- e2@Dim[1]; nsq <- n^2  
               f0 <- callGeneric(e1, FALSE)  
               if(all(is0(f0))) { # remain diagonal  
                   L1 <- (le <- length(e1)) == 1L  
                   if(!L1 && le != nsq) e1 <- rep(e1, length.out = nsq)  
                   if(e2@diag == "U" && any((r <- callGeneric(e1, TRUE)) != 1)) {  
                       e2@diag <- "N"  
                       if(L1) r <- rep.int(r, n)  
1064                    } else                    } else
1065                        r <- callGeneric(e1, e2@x)                    callGeneric(diag2tT.u(e1,e2, "l"), e2)
                   e2@x <- if(L1) r else r[1L + (n+1L)*(0:(n-1L))]  
                   return(e2)  
               }  
               callGeneric(e1, diag2tT.u(e2,e1, "l"))  
1066            })            })
1067    
1068    
   
1069  ## Not {"sparseMatrix", "numeric} :  {"denseMatrix", "matrix", ... }  ## Not {"sparseMatrix", "numeric} :  {"denseMatrix", "matrix", ... }
1070  for(other in c("ANY", "Matrix", "dMatrix")) {  for(other in c("ANY", "Matrix", "dMatrix")) {
1071      ## ddi*:      ## ddi*:
1072      setMethod("Ops", signature(e1 = "ddiMatrix", e2 = other),      setMethod("Ops", signature(e1 = "ddiMatrix", e2 = other),
1073                function(e1,e2) callGeneric(diag2tT.u(e1,e2, "d"), e2))                function(e1,e2) callGeneric(diag2Tsmart(e1,e2, "d"), e2))
1074      setMethod("Ops", signature(e1 = other, e2 = "ddiMatrix"),      setMethod("Ops", signature(e1 = other, e2 = "ddiMatrix"),
1075                function(e1,e2) callGeneric(e1, diag2tT.u(e2,e1, "d")))                function(e1,e2) callGeneric(e1, diag2Tsmart(e2,e1, "d")))
1076      ## ldi*:      ## ldi*:
1077      setMethod("Ops", signature(e1 = "ldiMatrix", e2 = other),      setMethod("Ops", signature(e1 = "ldiMatrix", e2 = other),
1078                function(e1,e2) callGeneric(diag2tT.u(e1,e2, "l"), e2))                function(e1,e2) callGeneric(diag2Tsmart(e1,e2, "l"), e2))
1079      setMethod("Ops", signature(e1 = other, e2 = "ldiMatrix"),      setMethod("Ops", signature(e1 = other, e2 = "ldiMatrix"),
1080                function(e1,e2) callGeneric(e1, diag2tT.u(e2,e1, "l")))                function(e1,e2) callGeneric(e1, diag2Tsmart(e2,e1, "l")))
1081  }  }
1082  ## This should *not* dispatch to <dense> methods (in ./Ops.R ), as  
1083  ##  FALSE & <anything> |-> FALSE : hence result should be diagonal:  ## Direct subclasses of "denseMatrix": currently ddenseMatrix, ldense... :
1084  for(cl in diCls) {  dense.subCl <- local({ dM.scl <- getClass("denseMatrix")@subclasses
1085      setMethod("&", signature(e1 = cl, e2 = "ANY"),                         names(dM.scl)[vapply(dM.scl, slot, 0, "distance") == 1] })
1086                function(e1,e2) e1 & as(e2,"Matrix"))  for(DI in diCls) {
1087      setMethod("&", signature(e1 = "ANY", e2 = cl),      dMeth <- if(extends(DI, "dMatrix"))
1088                function(e1,e2) as(e1,"Matrix") & e2)          function(e1,e2) callGeneric(diag2Tsmart(e1,e2, "d"), e2)
1089      for(c2 in c("denseMatrix", "Matrix")) {      else # "lMatrix", the only other kind for now
1090          setMethod("&", signature(e1 = cl, e2 = c2),          function(e1,e2) callGeneric(diag2Tsmart(e1,e2, "l"), e2)
1091                    function(e1,e2) e1 & Diagonal(x = diag(e2)))      for(c2 in c(dense.subCl, "Matrix")) {
1092          setMethod("&", signature(e1 = c2, e2 = cl),          for(Fun in c("*", "&")) {
1093                    function(e1,e2) Diagonal(x = diag(e1)) & e2)              setMethod(Fun, signature(e1 = DI, e2 = c2),
1094                          function(e1,e2) callGeneric(e1, Diagonal(x = diag(e2))))
1095                setMethod(Fun, signature(e1 = c2, e2 = DI),
1096                          function(e1,e2) callGeneric(Diagonal(x = diag(e1)), e2))
1097            }
1098            setMethod("^", signature(e1 = c2, e2 = DI),
1099                      function(e1,e2) callGeneric(Diagonal(x = diag(e1)), e2))
1100            for(Fun in c("%%", "%/%", "/")) ## 0 <op> 0 |--> NaN  for these.
1101                setMethod(Fun, signature(e1 = DI, e2 = c2), dMeth)
1102      }      }
1103  }  }
1104    
1105    
1106  ### "Summary" : "max"   "min"   "range" "prod"  "sum"   "any"   "all"  ### "Summary" : "max"   "min"   "range" "prod"  "sum"   "any"   "all"
1107  ### ----------  any, all: separately here  ### ----------   the last 4: separately here
1108  for(cl in diCls) {  for(cl in diCls) {
1109  setMethod("any", cl,  setMethod("any", cl,
1110            function (x, ..., na.rm) {            function (x, ..., na.rm) {
1111                if(any(x@Dim == 0)) FALSE                if(any(x@Dim == 0)) FALSE
1112                else if(x@diag == "U") TRUE else any(x@x, ..., na.rm = na.rm)                else if(x@diag == "U") TRUE else any(x@x, ..., na.rm = na.rm)
1113            })            })
1114  setMethod("all",  cl, function (x, ..., na.rm) any(x@Dim == 0))  setMethod("all",  cl, function (x, ..., na.rm) {
1115  setMethod("prod", cl, function (x, ..., na.rm) as.numeric(any(x@Dim == 0)))      n <- x@Dim[1]
1116        if(n >= 2) FALSE
1117        else if(n == 0 || x@diag == "U") TRUE
1118        else all(x@x, ..., na.rm = na.rm)
1119    })
1120    setMethod("prod", cl, function (x, ..., na.rm) {
1121        n <- x@Dim[1]
1122        if(n >= 2) 0
1123        else if(n == 0 || x@diag == "U") 1
1124        else ## n == 1, diag = "N" :
1125            prod(x@x, ..., na.rm = na.rm)
1126    })
1127    
1128  setMethod("sum", cl,  setMethod("sum", cl,
1129            function(x, ..., na.rm) {            function(x, ..., na.rm) {
# Line 979  Line 1180 
1180                    invisible(object)                    invisible(object)
1181                }                }
1182            })            })
1183    
1184    rm(arg1, arg2, other, DI, cl, c1, c2,
1185       dense.subCl, diCls)# not used elsewhere
1186    
1187    setMethod("summary", signature(object = "diagonalMatrix"),
1188              function(object, ...) {
1189                  d <- dim(object)
1190                  r <- summary(object@x, ...)
1191                  attr(r, "header") <-
1192                      sprintf('%d x %d diagonal Matrix of class "%s"',
1193                              d[1], d[2], class(object))
1194                  ## use ole' S3 technology for such a simple case
1195                  class(r) <- c("diagSummary", class(r))
1196                  r
1197              })
1198    
1199    print.diagSummary <- function (x, ...) {
1200        cat(attr(x, "header"),"\n")
1201        class(x) <- class(x)[-1]
1202        print(x, ...)
1203        invisible(x)
1204    }

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