search for: csparse

Hi Everyone, I'm trying to load some C++ code using dyn.load but I'm getting unresolved symbols associated with some external libraries (CSparse). I gather this is something to do with linking as the the code compiles fine. However, I've passed -L/home/jarrod/My_Programs/SuiteSparse/CSparse/Lib -lcsparse to the complier (g++), either directly using R CMD SHLIB or as PKG_LIBS in a Makevars file, and I cannot resolve the problem....

Hi R-help citizens, I'm having trouble making version 0.99-6 of Matrix on FreeBSD 6.0. The error message is: * Installing *source* package 'Matrix' ... ** libs gcc -I/usr/local/lib/R/include -I/usr/local/include -D__NO_MATH_INLINES -fPIC -g -O2 -c Csparse.c -o Csparse.o ... numerous lines deleted ... gcc -I/usr/local/lib/R/include -I/usr/local/include -D__NO_MATH_INLINES -fPIC -g -O2 -c triplet_to_col.c -o triplet_to_col.o f77 -fPIC -g -O2 -c zpotf2.f -o zpotf2.o f77 -fPIC -g -O2 -c zpotrf.f -o zpotrf.o touch CHOLMOD.stamp UMFPACK.stamp C...

Hi, I'd like to simply add column-wise using Matrix objects (Csparse). It looks like one can apply mosty any base function to these objects (i.e., apply, colSums), but there is a nasty conversion to traditional matrix objects if one does that. Is there any workaround? I can see colSum listed in the help for Class 'CsparseMatrix' , but I wonder whether...

? "form" -> "from". Diff against latest SVN: Index: sparse.model.matrix.Rd =================================================================== --- sparse.model.matrix.Rd??? (revision 3336) +++ sparse.model.matrix.Rd??? (working copy) @@ -4,7 +4,7 @@ ?\alias{fac2sparse} ?\alias{fac2Sparse} ?\description{Construct a sparse model or \dQuote{design} matrix, -? form a formula

...------------------------------ Title: A Matrix package for R Author: Douglas Bates <....> and Martin Maechler <....> Maintainer: Doug and Martin <Matrix-authors at R-project.org> Description: Classes and methods for dense and sparse matrices and operations on them using Lapack, CSparse and CHOLMOD -------------------------------------------------------------- The Matrix package provides efficient methods for several formal (i.e. S4) classes of matrices where each of the actual classes are some combination of the following three categories 1) dense or sparse 2) symmmetric, trian...

...------------------------------ Title: A Matrix package for R Author: Douglas Bates <....> and Martin Maechler <....> Maintainer: Doug and Martin <Matrix-authors at R-project.org> Description: Classes and methods for dense and sparse matrices and operations on them using Lapack, CSparse and CHOLMOD -------------------------------------------------------------- The Matrix package provides efficient methods for several formal (i.e. S4) classes of matrices where each of the actual classes are some combination of the following three categories 1) dense or sparse 2) symmmetric, trian...

...ng the current pgi compiler (8.0.2) for AMD64 on a SLES9 system. When I try to install "Matrix" everything is fine until the last step. make[1]: Leaving directory `/tmp/R.INSTALL.TW3399/Matrix/src/AMD' pgCC -L/usr/lib64 -L/usr/X11R6/lib64 -pgf90libs -o Matrix.so CHMfactor.o Csparse.o TMatrix_as.o Tsparse.o init.o Mutils.o chm_common.o cs.o cs_utils.o dense.o dgCMatrix.o dgTMatrix.o dgeMatrix.o dpoMatrix.o dppMatrix.o dsCMatrix.o dsyMatrix.o dspMatrix.o dtCMatrix.o dtTMatrix.o dtrMatrix.o dtpMatrix.o factorizations.o ldense.o lgCMatrix.o sparseQR.o SPQR.a CHOLMOD.a COLAMD....

...ris 10. Compiler used is solstudio12.2. Attached is the configure script. I then tried to install a recommended package called Matrix. The compilation failed with the following messages, ....... CC -library=stlport4 -G -L/opt/csw/lib/sparcv9 -L/opt/solstudio12.2/prod/lib/v9 -o Matrix.so CHMfactor.o Csparse.o TMatrix_as.o Tsparse.o init.o Mutils.o chm_common.o cs.o cs_utils.o dense.o dgCMatrix.o dgTMatrix.o dgeMatrix.o dpoMatrix.o dppMatrix.o dsCMatrix.o dsyMatrix.o dspMatrix.o dtCMatrix.o dtTMatrix.o dtrMatrix.o dtpMatrix.o factorizations.o ldense.o lgCMatrix.o sparseQR.o abIndex.o CHOLMOD.a COLAMD.a...

...ed fine and R-devel runs, with the exception of package Matrix where compilation crashes with the following message. The error occurs during building of the recommended packages and also if Matrix is compiled separately: [...] CC -G -lCstd -L/opt/sun/sunstudio12/lib/amd64 -o Matrix.so CHMfactor.o Csparse.o TMatrix_as.o Tsparse.o init.o Mutils.o chm_common.o cs.o cs_utils.o dense.o dgCMatrix.o dgTMatrix.o dgeMatrix.o dpoMatrix.o dppMatrix.o dsCMatrix.o dsyMatrix.o dspMatrix.o dtCMatrix.o dtTMatrix.o dtrMatrix.o dtpMatrix.o factorizations.o ldense.o lgCMatrix.o sparseQR.o CHOLMOD.a COLAMD.a AMD.a -L/...

...> [5,] . . . . . The reason for the above behavior has been a) efficiency. All the subassignment ( `[<-` ) methods for "RsparseMatrix" objects (of which "dsRMatrix" is a special case) are implemented via TsparseMatrix. b) because of the general attitude that Csparse (and Tsparse to some extent) are well supported in Matrix, and e.g. further operations on Rsparse matrices would *again* go via T* or C* sparse ones, I had decided to keep things Tsparse. [...] > Trying with explicit coercion does not work: >> as(Cc, "dgRMatrix&quo...

Using the Matrix package, how can I create a row-oriented sparse Matrix from scratch populated with some data? By default a column-oriented one is created and I'm aware of the note that the package is optimized for column-oriented ones, but I'm only interested in using it for holding my sparse row-oriented data and doing basic subsetting by rows (even using drop=FALSE). Here is what I

...nclude -I/usr/include -I/usr/sfw/include -KPIC -O -I/opt/SUNWspro/prod/include -c CHMfactor.c -o CHMfactor.o cc -m64 -I/home/choid/bin/R281/lib/R/include -I./UFconfig -I/usr/local/include -I/opt/SUNWspro/prod/include -I/usr/include -I/usr/sfw/include -KPIC -O -I/opt/SUNWspro/prod/include -c Csparse.c -o Csparse.o cc -m64 -I/home/choid/bin/R281/lib/R/include -I./UFconfig -I/usr/local/include -I/opt/SUNWspro/prod/include -I/usr/include -I/usr/sfw/include -KPIC -O -I/opt/SUNWspro/prod/include -c TMatrix_as.c -o TMatrix_as.o cc -m64 -I/home/choid/bin/R281/lib/R/include -I./UFconfig -I/usr/loc...

Hello everyone Could anybody tell me how to set the following matrix? n2<-matrix(nrow=10185,ncol=10185,seq(0,0,length=103734225)) R answer was Error: cannot allocate vector of size 810423 Kb Are there any solution? I tried to increase the memory size but it didn't work G This message has been scanned for viruses by TRENDMICRO,\ an...{{dropped}}

Hi, I came across a case when the dimensions of matrices returned by qr() operated on a sparse matrix does not coincide with the initial matrix. Here is a spinet code that should produce an example (one of many that I could provide): ?m=205 ?n=199 ?set.seed(7); ?a=matrix(rnorm(m*n), m, n) ?a[sample(seq(m*n), m*(n-4))]=0 ?a=as(a, "Matrix") ?qa=qr(a); ?stopifnot(nrow(qa at R) ==

...x}) or a single >> ?? factor (\code{fac2sparse}). >> ?? The \code{fac2[Ss]parse()} functions are utilities, also used > Thank you, Ben; corrected in my (not yet committed) development > version. > > BTW, there will be another improvement there, > deprecating 'giveCsparse = TRUE' > and replacing it by 'repr = "C"' > > the latter allowing all three kind of sparseMatrix formats > ("C", "R", "T") instead of just Csparse* and Tsparse*. ????? How I can learn more about this, including (a) 'repr = (...

...versatile and you are advised to read the help page and try its examples. - Reorganization and simplification of source code (source package is about 1/3 the previous size). Much greater use of virtual classes in method definitions. - LU and QR decompositions for sparse matrices using the CSparse library of C functions written by Tim Davis and documented in his 2006 SIAM book "Direct Methods for Sparse Linear Systems". New function Cholesky (in addition to function chol) that allows the full range of CHOLMOD library options for sparse Cholesky decompositions. - New cla...

...versatile and you are advised to read the help page and try its examples. - Reorganization and simplification of source code (source package is about 1/3 the previous size). Much greater use of virtual classes in method definitions. - LU and QR decompositions for sparse matrices using the CSparse library of C functions written by Tim Davis and documented in his 2006 SIAM book "Direct Methods for Sparse Linear Systems". New function Cholesky (in addition to function chol) that allows the full range of CHOLMOD library options for sparse Cholesky decompositions. - New cla...

...pMatrix(nrow, ncol, i = sample(nrow, nnz, replace = TRUE), j = sample(ncol, nnz, replace = TRUE), x = rand.x(nnz)) } ## (original ir a term x doc matrix of the entire wikipedia) mm <- rSpMatrix(793251, 1027355, nnz = 205746204) # make it column based: mm <- as(mm, "CsparseMatrix") a=mm[1,,drop=F]#this takes close to 30 seconds on a 3Ghz machine Thanks, - -Jose - -- === I'm learning a new keyboard layout. I type slowly. Please excuse typos and slower-that-usual responses. Thanks for your patience=== Jose Quesada, PhD. Max Planck Institute, Center for Adapti...

Hello, I am working with a sparse matrix that is approx. 13,900 by 14,100. My goal is to select a row out of the matrix and create a new matrix with that row repeated 13,900 times without having to do any looping. Example: Starting Matrix: exampleMatrix 3 x 4 sparse Matrix of class "dgCMatrix" [1,] 1 . . . [2,] . 1 . 0.5 [3,] . . 1 .. New Matrix:.. newExampleMatrix 3 x 4 sparse

The bulk is on my forums - the final post for today is: Results to date: A. It looks like I am going to need a newer compiler for C - xlc/xlC V11 apparently does not understand this code: "/data/prj/cran/R-3.2.3/src/main/memory.c", line 2149.31: 1506-046 (S) Syntax error. I will have to check if R-devel has different code before asking for assistence. +2139 #ifdef