Aileen Lin
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---------- Forwarded message ----------
From: "Aileen Lin" <aileenshanhong.lin at gmail.com>
Date: 15 Mar 2013 10:44
Subject: Re: [Rcpp-devel] Filling a big.matrix in Rcpp
To: "Dirk Eddelbuettel" <edd at debian.org>
Cc:
I tried your source code and had two warning messages:
g++ -I"C:/R/R-215~1.2/include" -DNDEBUG
-I"C:/R/R-2.15.2/library/Rcpp/include"
-I"H:/R/win-library/2.15/bigmemory/include" -O2 -Wall -mtune=core2 -c
rcpp_bm_test.cpp -o rcpp_bm_test.o
In file included from
H:/R/win-library/2.15/bigmemory/include/boost/smart_ptr/detail/spinlock_sync.hpp:18:0,
from
H:/R/win-library/2.15/bigmemory/include/boost/smart_ptr/detail/spinlock.hpp:38,
from
H:/R/win-library/2.15/bigmemory/include/boost/smart_ptr/detail/spinlock_pool.hpp:25,
from
H:/R/win-library/2.15/bigmemory/include/boost/smart_ptr/shared_ptr.hpp:37,
from
H:/R/win-library/2.15/bigmemory/include/boost/shared_ptr.hpp:17,
from
H:/R/win-library/2.15/bigmemory/include/bigmemory/BigMatrix.h:6,
from
H:/R/win-library/2.15/bigmemory/include/bigmemory/MatrixAccessor.hpp:4,
from rcpp_bm_test.cpp:7:
H:/R/win-library/2.15/bigmemory/include/boost/smart_ptr/detail/yield_k.hpp:58:48:
warning: declaration of 'void boost::detail::Sleep(unsigned int)' with C
language linkage [enabled by default]
H:/R/win-library/2.15/bigmemory/include/boost/interprocess/detail/win32_api.hpp:382:49:
warning: conflicts with previous declaration 'void
boost::interprocess::winapi::Sleep(long unsigned int)' [enabled by default]
g++ -shared -s -static-libgcc -o sourceCpp_24751.dll tmp.def rcpp_bm_test.o
C:/R/R-2.15.2/library/Rcpp/lib/i386/libRcpp.a -LC:/R/R-215~1.2/bin/i386 -lR
Do you have the same warning messages? Do you know how to get rid of it?
Thank you.
On 15 March 2013 05:33, Dirk Eddelbuettel <edd at debian.org> wrote:
On 14 March 2013 at 12:24, Smith, Dale wrote:
| Write it up for Rcpp Gallery.
Yup. Our thoughts too. Here is a slightly modified version which works as
a
single cpp file thanks to the wonders of sourceCpp() --- bigmemory headers
are found automagically, and the example is executed too.
Dirk
// -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; indent-tabs-mode:
nil; -*-
#include <Rcpp.h>
// The next line is all it takes to find the bigmemory
// headers -- thanks to the magic of Rcpp attributes
// [[Rcpp::depends(bigmemory)]]
#include <bigmemory/MatrixAccessor.hpp>
// We define a simple function, and pass the incoming XPtr as a SEXP;
// we could also pass a templated XPtr. Function returns only a bool.
// [[Rcpp::export]]
bool fun(SEXP A) {
Rcpp::XPtr<BigMatrix> bigMat(A);
MatrixAccessor<int> Am(*bigMat);
int nrows = bigMat->nrow();
int ncolumns = bigMat->ncol();
for (int j = 0; j < ncolumns; j++){
for (int i = 1; i < nrows; i++){
Am[j][i] = Am[j][i] + Am[j][i-1];
}
}
return Rcpp::wrap(true);
}
// R code for testing below
/*** R
require(bigmemory)
# set up big.matrix
nrows <- 10000
bkFile <- "bigmat.bk"
descFile <- "bigmatk.desc"
bigmat <- filebacked.big.matrix(nrow=nrows, ncol=3,type="integer", init=1,
backingfile=bkFile,
backingpath=".",descriptorfile=descFile,
dimnames=c(NULL,NULL))
matDesc <- bigmemory::describe(bigmat)
fun(bigmat at address)
cat("Done\n")
*/
--
Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com
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