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View of /branches/Matrix-mer2/tests/simple.R

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Revision 985 - (download) (annotate)
Fri Oct 21 19:33:37 2005 UTC (14 years, 1 month ago) by bates
File size: 3782 byte(s)
Incorporating CHOLMOD-based lmer
#### Currently a collection of simple tests
##	(since 'Matrix' takes long to load, rather have fewer source files!)

library(Matrix)

source(system.file("test-tools.R", package = "Matrix"))# identical3() etc

###--  Sparse Triangular :

(t1 <- new("dtTMatrix", x= c(3,7), i= 0:1, j=3:2,
           Dim= as.integer(c(4,4))))
stopifnot(validObject(t1),
          validObject(t1c <- as(t1, "dtCMatrix")))
assert.EQ.mat(t1, as(t1c, "matrix"))

## from  0-diagonal to unit-diagonal {low-level step}:
tu <- t1 ; tu@diag <- "U"
tu
stopifnot(validObject(cu <- as(tu, "dtCMatrix")),
          validObject(t(cu)),
          validObject(t(tu)))
assert.EQ.mat(cu, as(tu,"matrix"), tol=0)


###-- Numeric Dense: Crossprod & Solve

set.seed(123)
mm <- Matrix(rnorm(500 * 150), nc = 150)
stopifnot(validObject(mm))
xpx <- crossprod(mm)# alters mm !
stopifnot(validObject(mm),
          validObject(xpx))
str(mm) # 'dge*"
str(xpx)# 'dpo*"
xpy <- crossprod(mm, rnorm(500))
res <- solve(xpx, xpy)
str(xpx)# now with Cholesky factor
stopifnot(validObject(xpx),
          validObject(xpy),
          validObject(res))
stopifnot(all.equal(xpx %*% res, xpy, tol= 1e-12))

###-- more solve() methods  {was ./solve.R }

## first for "dgeMatrix" and all kinds of RHS :
(m6 <- 1 + as(diag(0:5), "dgeMatrix"))
rcond(m6)
I6 <- as(diag(6), "dgeMatrix")
stopifnot(all.equal(I6, m6 %*% solve(m6)),
          all.equal(I6, solve(m6) %*% m6) )

(i6 <- solve(m6, Matrix(1:6)))
stopifnot(identical(i6, as(cbind(c(-4, rep(1,5))), "dgeMatrix")),
          identical(i6, solve(m6, 1:6)),
          identical(i6, solve(m6, matrix(1:6))),
          identical(i6, solve(m6, matrix(c(1,2,3,4,5,6))))
          )

###-- row- and column operations  {was ./rowcolOps.R }

set.seed(321)
m1k <- Matrix(round(rnorm(1000), 2), 50, 20)
m.m <- as(m1k, "matrix")
stopifnot(all.equal(colMeans(m1k), colMeans(m.m)),
          all.equal(colSums (m1k), colSums (m.m)),
          all.equal(rowMeans(m1k), rowMeans(m.m)),
          all.equal(rowSums (m1k), rowSums (m.m)))

###-- Testing expansions of factorizations {was ./expand.R }

(m1 <- round(Matrix(rnorm(25), 5), 2))
(lul <- expand(lu(m1)))
stopifnot(all.equal(as(m1, "matrix"),
                    as(lul$P %*% (lul$L %*% lul$U), "matrix")))


###-- kronecker for nonsparse uses Matrix(.):
stopifnot(is(kr <- kronecker(m1, m6), "Matrix"))
assert.EQ.mat(kr,
              kronecker(as(m1, "matrix"),
                        as(m6, "matrix")),
              tol = 0)
## sparse:
(kt1 <- kronecker(t1, tu))
kt2 <- kronecker(t1c, cu)
ktf <- kronecker(as.matrix(t1), as.matrix(tu))

assert.EQ.mat(kt1, ktf, tol= 0)
assert.EQ.mat(kt2, ktf, tol= 0)
## but kt1 and kt2, both "dgT" are different since entries are not ordered!

##--- symmetric -> pos.def. needs valid test:
if(FALSE) # this happily "works" but MM thinks it shouldn't:
assertError(as(as(Matrix(diag(5)-1), "dsyMatrix"), "dpoMatrix"))


###-- logical sparse : ----------

(lkt <- as(as(kt1, "dgCMatrix"), "lgCMatrix"))# ok
(clt <- crossprod(lkt))
if(FALSE)
    crossprod(clt)
## CHOLMOD error: matrix cannot be symmetric


### "d" <-> "l"  for (symmetric) sparse :
data(mm)
xpx <- crossprod(mm)
lxpx <- as(xpx, "lsCMatrix")
if(FALSE)
    show(lxpx) ## gives error about "lsC" -> "lgT" coercion ..
## The bug is actually from *subsetting* the large matrix:
if(FALSE) ## FIXME
    r <- lxpx[1:2,]

lmm <- as(mm, "lgCMatrix")
xlx <- crossprod(lmm)
## now A = lxpx and B = xlx should be close, but not quite the same
## since <x,y> = 0 is well possible when x!=0 and y!=0 .
## However,  A[i,j] != 0 ==> B[i,j] != 0:
A <- as(as(lxpx, "lgCMatrix"), "lgTMatrix")
B <- as(as(xlx,  "lgCMatrix"), "lgTMatrix")
ij <- function(a) a@i + ncol(a) * a@j
stopifnot(all(ij(A) %in% ij(B)))




cat('Time elapsed: ', proc.time(),'\n') # "stats"


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