RcppGSL/ 0000755 0001762 0000144 00000000000 15152317450 011527 5 ustar ligges users RcppGSL/tests/ 0000755 0001762 0000144 00000000000 13552570517 012700 5 ustar ligges users RcppGSL/tests/tinytest.R 0000644 0001762 0000144 00000001032 13552570517 014702 0 ustar ligges users
if (requireNamespace("tinytest", quietly=TRUE) &&
utils::packageVersion("tinytest") >= "1.0.0") {
## Set a seed to make the test deterministic
set.seed(42)
## R makes us to this
Sys.setenv("R_TESTS"="")
## there are several more granular ways to test files in a tinytest directory,
## see its package vignette; tests can also run once the package is installed
## using the same command `test_package(pkgName)`, or by director or file
tinytest::test_package("RcppGSL", ncpu=getOption("Ncpus", 1))
}
RcppGSL/MD5 0000644 0001762 0000144 00000006727 15152317450 012053 0 ustar ligges users 4dd9001244a564969d3bbf7ef9aa935f *ChangeLog
db7d0932a9b55b24de19a6ac72dbcf24 *DESCRIPTION
8d2f7e2ea5a13119f52d222b9d2abca4 *NAMESPACE
d0fcbe9b5a97b85bb9a2e4d2a04a620c *R/RcppExports.R
419025a31136d90df9df8885adf3d22c *R/fastLm.R
54fb893fc5a89aa3f3b01e949863f87e *R/init.R
e3e6b6943ffd2cc94aca47745e502d33 *R/inline.R
5fbba79ec9c2abc5f6cb2ce2a447055c *README.md
3883e612bd76f4fe2df73a4bcaf28164 *TODO
f04e38fbdc99adbfd090d5562606065e *build/partial.rdb
c8d87c83728da885f89f4876d166bd4f *build/vignette.rds
d02d72151c8a9e3cffa39e0115020417 *cleanup
67596660c4635d04a3cc19b0a2460b0a *configure
4d54bdc51d57f869d76ef402bbdb2018 *configure.ac
545528982751da48acd25f03d38e2109 *inst/NEWS.Rd
193b5c779fc1ff2c7f4605c82bcafbc1 *inst/doc/RcppGSL-introduction.pdf
5a8eee0ab4ab6c2e4e723eed5e7ff4d7 *inst/doc/RcppGSL-introduction.pdf.asis
acd73645dbdb9731139253720713e1f7 *inst/examples/RcppGSLExample/DESCRIPTION
ca4d3febd8107be64527dbb80674d7f0 *inst/examples/RcppGSLExample/NAMESPACE
07b32ab09f8211f783470b43adbd57a4 *inst/examples/RcppGSLExample/R/RcppExports.R
7028487129d9f40d52a3c48c20ca3844 *inst/examples/RcppGSLExample/R/colNorm.R
1ac375832dc27870605fc0ce9da94ad5 *inst/examples/RcppGSLExample/configure
2661ff215b5d361a6793c6b7ebe27068 *inst/examples/RcppGSLExample/configure.ac
64f8c8cc7613c9cde5f6d1bdb2b45825 *inst/examples/RcppGSLExample/man/colNorm.Rd
2d84d061699ad784812b605eeb65f22b *inst/examples/RcppGSLExample/src/Makevars.in
d69db63928d9ef7801148b48c32c2ec9 *inst/examples/RcppGSLExample/src/Makevars.win
60cbf7394d18748b32949ed3111fd823 *inst/examples/RcppGSLExample/src/RcppExports.cpp
e0736be77b9cadf73fb2471f7682be43 *inst/examples/RcppGSLExample/src/colNorm.cpp
f095fb7440f14a21d64737d184fe789d *inst/examples/RcppGSLExample/src/colNorm_old.cpp
70f028ea1e8306b481e28da92536d8e1 *inst/examples/bSpline/bSpline.R
a051860124731442375a4f826d1a4244 *inst/examples/bSpline/bSpline.cpp
e2747f0b0e0c7528fd9dbefedaf0d5ef *inst/include/RcppGSL.h
5890239c871afbd806915464cba0d394 *inst/include/RcppGSLForward.h
6a90824620b30d66e42d4e246ae766f5 *inst/include/RcppGSL_matrix.h
f21b23f4b2d2bfa744581ee496f44275 *inst/include/RcppGSL_matrix_view.h
fb053660cb0ba2e120de8f380ae53f01 *inst/include/RcppGSL_typedef.h
99ffa46b1bf4a58ffaa1d94185e783f1 *inst/include/RcppGSL_types.h
6917433492acaabb3df142fa2599a502 *inst/include/RcppGSL_vector.h
34bc4c27c6c19c407b79088a0d36c346 *inst/include/RcppGSL_vector_view.h
eac5eab6352e9a97236f9e11d6069144 *inst/skeleton/Makevars.in
528fb571247b8c0c4db3fda62c047d3d *inst/skeleton/Makevars.win
7ac30c30f4eb7df2278ec84f4e457152 *inst/skeleton/configure
af35ab71c2fb50246cdd9ba0512a9e17 *inst/skeleton/configure.win
c24f72659ea22db2ec0837be37a07b35 *inst/tinytest/cpp/gsl.cpp
ebb793deef569c7d8a2fb0dfc99c852d *inst/tinytest/test_client_package.R
f3bb562b89338afc50ba19e65401b293 *inst/tinytest/test_fastLm.R
a4b46850356a5d9001c17c52595de0cf *inst/tinytest/test_gsl.R
7b5c55ec1f47446552acba44e1aae221 *man/LdFlags.Rd
87189d915953c4415e5fcca042d495cd *man/RcppGSL-package.Rd
e2df304a89f0266a3dd958a07faea06e *man/fastLm.Rd
d140432b43a8c7ef13efd4f9c3d082d8 *src/Makevars.in
aade1248e53b658f779c5c68a9677cb5 *src/Makevars.ucrt
1fa17e37e49e82b5e916c39be39f65b9 *src/Makevars.win
c7c9c1bad552295e9cae0491542e539a *src/RcppExports.cpp
facdfd8a2f6a746ce31893dca84e8402 *src/fastLm.cpp
9cfa37e70e40833dd2607a100c7d2e33 *src/setErrorHandler.cpp
73e9b83fe44e0c79305a5c7906c56234 *tests/tinytest.R
876da2841839c09471a50cf76a404767 *tools/winlibs.R
5a8eee0ab4ab6c2e4e723eed5e7ff4d7 *vignettes/RcppGSL-introduction.pdf.asis
RcppGSL/R/ 0000755 0001762 0000144 00000000000 14573065654 011744 5 ustar ligges users RcppGSL/R/RcppExports.R 0000644 0001762 0000144 00000000555 14573065654 014365 0 ustar ligges users # Generated by using Rcpp::compileAttributes() -> do not edit by hand
# Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
fastLm_impl <- function(X, y) {
.Call(`_RcppGSL_fastLm`, X, y)
}
gslSetErrorHandlerOff <- function() {
.Call(`_RcppGSL_gslSetErrorHandlerOff`)
}
gslResetErrorHandler <- function() {
.Call(`_RcppGSL_gslResetErrorHandler`)
}
RcppGSL/R/fastLm.R 0000644 0001762 0000144 00000007550 14573065476 013326 0 ustar ligges users
## fastLm.R: Rcpp/GSL implementation of lm()
##
## Copyright (C) 2010 - 2024 Dirk Eddelbuettel and Romain Francois
##
## This file is part of RcppGSL.
##
## RcppGSL is free software: you can redistribute it and/or modify it
## under the terms of the GNU General Public License as published by
## the Free Software Foundation, either version 2 of the License, or
## (at your option) any later version.
##
## RcppGSL is distributed in the hope that it will be useful, but
## WITHOUT ANY WARRANTY; without even the implied warranty of
## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
## GNU General Public License for more details.
##
## You should have received a copy of the GNU General Public License
## along with RcppGSL. If not, see .
fastLmPure <- function(X, y) {
stopifnot(is.matrix(X), is.numeric(y), nrow(y)==nrow(X))
res <- fastLm_impl(X, y)
}
fastLm <- function(X, ...) UseMethod("fastLm")
fastLm.default <- function(X, y, ...) {
X <- as.matrix(X)
y <- as.numeric(y)
res <- fastLmPure(X, y)
names(res$coefficients) <- colnames(X)
res$fitted.values <- as.vector(X %*% res$coefficients)
res$residuals <- y - res$fitted.values
res$call <- match.call()
res$intercept <- any(apply(X, 2, function(x) all(x == x[1])))
class(res) <- "fastLm"
res
}
print.fastLm <- function(x, ...) {
cat("\nCall:\n")
print(x$call)
cat("\nCoefficients:\n")
print(x$coefficients, digits=5)
}
summary.fastLm <- function(object, ...) {
se <- object$stderr
tval <- coef(object)/se
TAB <- cbind(Estimate = coef(object),
StdErr = se,
t.value = tval,
p.value = 2*pt(-abs(tval), df=object$df))
# why do I need this here?
rownames(TAB) <- names(object$coefficients)
colnames(TAB) <- c("Estimate", "StdErr", "t.value", "p.value")
## cf src/stats/R/lm.R and case with no weights and an intercept
f <- object$fitted.values
r <- object$residuals
#mss <- sum((f - mean(f))^2)
mss <- if (object$intercept) sum((f - mean(f))^2) else sum(f^2)
rss <- sum(r^2)
r.squared <- mss/(mss + rss)
df.int <- if (object$intercept) 1L else 0L
n <- length(f)
rdf <- object$df
adj.r.squared <- 1 - (1 - r.squared) * ((n - df.int)/rdf)
res <- list(call=object$call,
coefficients=TAB,
r.squared=r.squared,
adj.r.squared=adj.r.squared,
sigma=sqrt(sum((object$residuals)^2)/rdf),
df=object$df,
residSum=summary(object$residuals, digits=5)[-4])
class(res) <- "summary.fastLm"
res
}
print.summary.fastLm <- function(x, ...) {
cat("\nCall:\n")
print(x$call)
cat("\nResiduals:\n")
print(x$residSum)
cat("\n")
printCoefmat(x$coefficients, P.values=TRUE, has.Pvalue=TRUE)
digits <- max(3, getOption("digits") - 3)
cat("\nResidual standard error: ", formatC(x$sigma, digits=digits), " on ",
formatC(x$df), " degrees of freedom\n", sep="")
cat("Multiple R-squared: ", formatC(x$r.squared, digits=digits),
",\tAdjusted R-squared: ",formatC(x$adj.r.squared, digits=digits),
"\n", sep="")
invisible(x)
}
fastLm.formula <- function(formula, data=list(), ...) {
mf <- model.frame(formula=formula, data=data)
X <- model.matrix(attr(mf, "terms"), data=mf)
y <- model.response(mf)
res <- fastLm.default(X, y, ...)
res$call <- match.call()
res$formula <- formula
res$intercept <- attr(attr(mf, "terms"), "intercept")
res
}
predict.fastLm <- function(object, newdata=NULL, ...) {
if (is.null(newdata)) {
y <- fitted(object)
} else {
if (!is.null(object$formula)) {
x <- model.matrix(object$formula, newdata)
} else {
x <- newdata
}
y <- as.vector(x %*% coef(object))
}
y
}
RcppGSL/R/init.R 0000644 0001762 0000144 00000001627 12774327533 013036 0 ustar ligges users ## Copyright (C) 2015 Dirk Eddelbuettel
##
## This file is part of RcppGSL.
##
## RcppGSL is free software: you can redistribute it and/or modify it
## under the terms of the GNU General Public License as published by
## the Free Software Foundation, either version 2 of the License, or
## (at your option) any later version.
##
## RcppGSL is distributed in the hope that it will be useful, but
## WITHOUT ANY WARRANTY; without even the implied warranty of
## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
## GNU General Public License for more details.
##
## You should have received a copy of the GNU General Public License
## along with RcppGSL. If not, see .
.onAttach <- function(libname, pkgname) {
## turn the GSL error handler off so that GSL will not abort R
## users will have to check return codes (see vignette)
gslSetErrorHandlerOff()
}
RcppGSL/R/inline.R 0000644 0001762 0000144 00000004552 13070437421 013335 0 ustar ligges users ## Copyright (C) 2010 - 2012 Dirk Eddelbuettel and Romain Francois
## Copyright (C) 2014 - 2017 Dirk Eddelbuettel
##
## This file is part of RcppGSL.
##
## RcppGSL is free software: you can redistribute it and/or modify it
## under the terms of the GNU General Public License as published by
## the Free Software Foundation, either version 2 of the License, or
## (at your option) any later version.
##
## RcppGSL is distributed in the hope that it will be useful, but
## WITHOUT ANY WARRANTY; without even the implied warranty of
## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
## GNU General Public License for more details.
##
## You should have received a copy of the GNU General Public License
## along with RcppGSL. If not, see .
.pkgenv <- new.env(parent=emptyenv())
.onLoad <- function(libname, pkgname) {
if (.Platform$OS.type=="windows") {
LIB_GSL <- Sys.getenv("LIB_GSL")
.pkgenv[["gsl_cflags"]] <- sprintf("-I%s/include", LIB_GSL)
.pkgenv[["gsl_libs"]] <- sprintf("-L%s/lib -lgsl -lgslcblas", LIB_GSL)
} else {
if (unname(Sys.which("gsl-config")) != "") {
.pkgenv[["gsl_cflags"]] <- system("gsl-config --cflags", intern = TRUE)
.pkgenv[["gsl_libs"]] <- system("gsl-config --libs" , intern = TRUE)
} else {
.pkgenv[["gsl_cflags"]] <- ""
.pkgenv[["gsl_libs"]] <- ""
warning("No 'gsl-config' config script found, limiting extensibility.", call. = FALSE)
}
}
}
LdFlags <- function(print = TRUE) {
if (print) cat(.pkgenv$gsl_libs) else .pkgenv$gsl_libs
}
CFlags <- function(print = TRUE) {
if (print) cat(.pkgenv$gsl_cflags) else .pkgenv$gsl_cflags
}
inlineCxxPlugin <- function(...) {
plugin <- Rcpp::Rcpp.plugin.maker(
include.before = "#include ",
libs = sprintf( "%s $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)", LdFlags(FALSE)),
package = "RcppGSL", Makevars = NULL, Makevars.win = NULL
)
settings <- plugin()
settings$env$PKG_CPPFLAGS <- CFlags(FALSE)
settings$configure <- readLines(system.file("skeleton", "configure", package="RcppGSL"))
settings$configure.win <- readLines(system.file("skeleton", "configure.win", package="RcppGSL"))
settings$Makevars.in <- readLines(system.file("skeleton", "Makevars.in", package = "RcppGSL"))
settings
}
RcppGSL/cleanup 0000755 0001762 0000144 00000001105 15152313417 013100 0 ustar ligges users #!/bin/sh
rm -f config.log config.status confdefs.h \
src/*.o src/*.so src/Makevars src/symbols.rds \
inst/doc/*.blg inst/doc/*.bbl \
*/*~ *~
rm -rf autom4te.cache inst/doc/*/auto
(cd inst/examples/RcppGSLExample; \
rm -f config.log config.status \
src/*.o src/*.so src/Makevars \
*/*~ *~ ; \
rm -rf autom4te.cache)
(cd vignettes/rmd && \
rm -rf RcppGSL*.log RcppGSL*.aux RcppGSL*.out RcppGSL*.tex RcppGSL*.pdf *.blg *.bbl \
*.xwm jss.bst pinp.cls \
auto ../auto unitTests-results/ jss/auto/ )
RcppGSL/vignettes/ 0000755 0001762 0000144 00000000000 15152313416 013535 5 ustar ligges users RcppGSL/vignettes/RcppGSL-introduction.pdf.asis 0000644 0001762 0000144 00000000235 15152162217 021160 0 ustar ligges users %\VignetteIndexEntry{RcppGSL}
%\VignetteKeywords{R,GSL,Rcpp,data transfer}
%\VignettePackage{RcppGSL}
%\VignetteEncoding{UTF-8}
%\VignetteEngine{Rcpp::asis}
RcppGSL/src/ 0000755 0001762 0000144 00000000000 15152313416 012314 5 ustar ligges users RcppGSL/src/RcppExports.cpp 0000644 0001762 0000144 00000003541 14573065575 015334 0 ustar ligges users // Generated by using Rcpp::compileAttributes() -> do not edit by hand
// Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
#include "../inst/include/RcppGSL.h"
#include "../inst/include/RcppGSL_types.h"
#include
using namespace Rcpp;
#ifdef RCPP_USE_GLOBAL_ROSTREAM
Rcpp::Rostream& Rcpp::Rcout = Rcpp::Rcpp_cout_get();
Rcpp::Rostream& Rcpp::Rcerr = Rcpp::Rcpp_cerr_get();
#endif
// fastLm
Rcpp::List fastLm(const RcppGSL::Matrix& X, const RcppGSL::Vector& y);
RcppExport SEXP _RcppGSL_fastLm(SEXP XSEXP, SEXP ySEXP) {
BEGIN_RCPP
Rcpp::RObject rcpp_result_gen;
Rcpp::RNGScope rcpp_rngScope_gen;
Rcpp::traits::input_parameter< const RcppGSL::Matrix& >::type X(XSEXP);
Rcpp::traits::input_parameter< const RcppGSL::Vector& >::type y(ySEXP);
rcpp_result_gen = Rcpp::wrap(fastLm(X, y));
return rcpp_result_gen;
END_RCPP
}
// gslSetErrorHandlerOff
bool gslSetErrorHandlerOff();
RcppExport SEXP _RcppGSL_gslSetErrorHandlerOff() {
BEGIN_RCPP
Rcpp::RObject rcpp_result_gen;
Rcpp::RNGScope rcpp_rngScope_gen;
rcpp_result_gen = Rcpp::wrap(gslSetErrorHandlerOff());
return rcpp_result_gen;
END_RCPP
}
// gslResetErrorHandler
bool gslResetErrorHandler();
RcppExport SEXP _RcppGSL_gslResetErrorHandler() {
BEGIN_RCPP
Rcpp::RObject rcpp_result_gen;
Rcpp::RNGScope rcpp_rngScope_gen;
rcpp_result_gen = Rcpp::wrap(gslResetErrorHandler());
return rcpp_result_gen;
END_RCPP
}
static const R_CallMethodDef CallEntries[] = {
{"_RcppGSL_fastLm", (DL_FUNC) &_RcppGSL_fastLm, 2},
{"_RcppGSL_gslSetErrorHandlerOff", (DL_FUNC) &_RcppGSL_gslSetErrorHandlerOff, 0},
{"_RcppGSL_gslResetErrorHandler", (DL_FUNC) &_RcppGSL_gslResetErrorHandler, 0},
{NULL, NULL, 0}
};
RcppExport void R_init_RcppGSL(DllInfo *dll) {
R_registerRoutines(dll, NULL, CallEntries, NULL, NULL);
R_useDynamicSymbols(dll, FALSE);
}
RcppGSL/src/setErrorHandler.cpp 0000644 0001762 0000144 00000002612 12774327533 016140 0 ustar ligges users // -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; tab-width: 4 -*-
//
// setErrorHandler.cpp: Set the GSL error handler
//
// Copyright (C) 2015 Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#include
#include
// See Chapter 3 of the GSL Reference manual on this
// Keep a pointer around in case someone wants to reset
static gsl_error_handler_t *ptr_gsl_error_handler_t = NULL;
// [[Rcpp::export]]
bool gslSetErrorHandlerOff() {
ptr_gsl_error_handler_t = gsl_set_error_handler_off();
return true;
}
// [[Rcpp::export]]
bool gslResetErrorHandler() {
if (ptr_gsl_error_handler_t == NULL) {
return false;
}
ptr_gsl_error_handler_t = gsl_set_error_handler(ptr_gsl_error_handler_t);
return true;
}
RcppGSL/src/Makevars.win 0000644 0001762 0000144 00000000400 14064644126 014604 0 ustar ligges users PKG_CPPFLAGS= -I../windows/gsl-2.7/include -I../inst/include
PKG_LIBS= -L../windows/gsl-2.7/lib${R_ARCH}${CRT} -lgsl -lgslcblas
all: clean winlibs
winlibs:
"${R_HOME}/bin${R_ARCH_BIN}/Rscript.exe" "../tools/winlibs.R"
clean:
rm -f $(SHLIB) $(OBJECTS)
RcppGSL/src/Makevars.ucrt 0000644 0001762 0000144 00000000133 14213126314 014755 0 ustar ligges users ## -*- mode: Makefile; -*-
##
PKG_CPPFLAGS = -I../inst/include
PKG_LIBS = -lgsl -lgslcblas
RcppGSL/src/fastLm.cpp 0000644 0001762 0000144 00000003707 14573065355 014271 0 ustar ligges users // -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; indent-tabs-mode: nil; -*-
//
// fastLm.cpp: Rcpp and GSL based implementation of lm
//
// Copyright (C) 2010 - 2024 Dirk Eddelbuettel and Romain Francois
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#include
#include
#include
// [[Rcpp::export(fastLm_impl)]]
Rcpp::List fastLm(const RcppGSL::Matrix &X, const RcppGSL::Vector &y) {
int n = X.nrow(), k = X.ncol();
double chisq;
RcppGSL::Vector coef(k); // to hold the coefficient vector
RcppGSL::Matrix cov(k,k); // and the covariance matrix
// the actual fit requires working memory we allocate and free
gsl_multifit_linear_workspace *work = gsl_multifit_linear_alloc (n, k);
gsl_multifit_linear (X, y, coef, cov, &chisq, work);
gsl_multifit_linear_free (work);
// assign diagonal to a vector, then take square roots to get std.error
Rcpp::NumericVector std_err;
std_err = gsl_matrix_diagonal(cov); // need two step decl. and assignment
std_err = Rcpp::sqrt(std_err); // sqrt() is an Rcpp sugar function
return Rcpp::List::create(Rcpp::Named("coefficients") = coef,
Rcpp::Named("stderr") = std_err,
Rcpp::Named("df.residual") = n - k);
}
RcppGSL/src/Makevars.in 0000644 0001762 0000144 00000000267 13553062260 014423 0 ustar ligges users
# set by configure
GSL_CFLAGS = @GSL_CFLAGS@
GSL_LIBS = @GSL_LIBS@
# combine with standard arguments for R
PKG_CPPFLAGS = $(GSL_CFLAGS) -I../inst/include
PKG_LIBS = $(GSL_LIBS)
RcppGSL/ChangeLog 0000644 0001762 0000144 00000053364 15152312566 013317 0 ustar ligges users 2026-03-05 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.14
* configure.ac: Idem
* configure: Idem
* vignettes/RcppGSL-introduction.pdf.asis: Switch to 'asis' vignette
builder
* DESCRIPTION (VignetteBuilder): Add 'VignetteBuilder: Rcpp' along
with versioned Imports: on version 1.1.1 or newer
* vignettes/RcppGSL-introduction.pdf: Re-rendered
* vignettes/rmd/RcppGSL-introduction.Rmd: Prefer https
* vignettes/rmd/Rcpp.bib: Updated references, prefer doi and https
* vignettes/rmd/Makefile: Also remove .log file
2026-02-27 Dirk Eddelbuettel
* inst/examples/RcppGSLExample/src/colNorm_old.cpp (colNorm_old):
Replace ::Rf_error with (Rf_error) in pure demo code outside package
2026-01-22 Dirk Eddelbuettel
* .github/workflows/ci.yaml: Switch to actions/checkout@v6
2025-05-11 Dirk Eddelbuettel
* .github/workflows/ci.yaml: Simplify to r-ci with included bootstrap
2024-10-18 Dirk Eddelbuettel
* DESCRIPTION (Authors@R): Added
2024-07-16 Dirk Eddelbuettel
* README.md: Switch some URLs from http to https
2024-03-26 Dirk Eddelbuettel
* .github/workflows/ci.yaml (jobs): Update to actions/checkout@v4,
add r-ci-setup actions
2024-03-09 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Roll micro release and date
* src/fastLm.cpp: Export compute functionas fastLm_impl
* R/fastLm.R: Call generated wrapper fastLm_impl
* src/init.c: Removed as RcppExports generates its content
* src/RcppExports.cpp: Regenerated
* R/RcppExports.R: Idem
2023-01-12 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.13
* configure.ac: Idem
* configure: Idem
* configure.ac: Remove 'AC_PROG_CC' to appease a CRAN email
2022-10-30 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New release 0.3.12
* configure.ac: Idem
* configure: Idem
* src/init.c: Add 'void' for proper prototypes pleasing clang-15
* .github/workflows/ci.yaml (jobs): Update to actions/checkout@v3
2022-03-12 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New release 0.3.11
* configure.ac: Idem
* configure: Idem
* src/Makevars.ucrt: Updated for RTools42
2021-12-18 Dirk Eddelbuettel
* README.md: Remove unused continuous integration artifact and badge
2021-10-07 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New release 0.3.10
* configure.ac: Idem
* configure: Idem
* configure.ac: Updated via 'autoupdate' and 'autoreconf
--warnings=obsolete' to bring to autoconf 2.69 standards
* configure: Idem
2021-06-24 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Roll minor version and date
* inst/tinytest/test_client_package.R: Skip Windows if no LIB_GSL var
2021-06-23 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New release 0.3.9
* configure: Rebuilt
2021-06-23 Jeroen Ooms
* tools/winlibs.R: Update to GSL 2.7 and support UCRT build
* src/Makevars.win: Update to GSL 2.7
* src/Makevars.ucrt: Support UCRT build
2021-05-20 Dirk Eddelbuettel
* DESCRIPTION (URL, BugReports): Added
2021-01-10 Dirk Eddelbuettel
* .github/workflows/ci.yaml: Add CI runner using r-ci
* README.md: Add new badge
2020-11-29 Dirk Eddelbuettel
* vignettes/rmd/RcppGSL-introduction.Rmd: And short subsection
mentioning need for explicit getter in output.
2020-06-21 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New release 0.3.8
* configure: Rebuilt
* inst/include/RcppGSLForward.h: Add some missing 'inline' statements
* inst/include/RcppGSL_matrix.h: Idem
* inst/include/RcppGSL_matrix_view.h: Idem
* inst/include/RcppGSL_vector.h: Idem
* inst/include/RcppGSL_vector_view.h: Idem
* inst/include/RcppGSLForward.h: Idem
* inst/examples/RcppGSLExample/src/colNorm_old.cpp: Spun off
alternate versions in seperate file to keep reference file simpler
* inst/examples/RcppGSLExample/src/colNorm.cpp: Shortened
* inst/examples/RcppGSLExample/man/colNorm.Rd: Update documentation
to refer to matrix G just like the code does
* .travis.yml: Update to 'bionic' and R 4.0
* DESCRIPTION (Suggests): Removed 'inline' which is no longer used
* .travis.yml (install): Idem
2020-04-01 Dirk Eddelbuettel
* README.md: Added a 'last commit' badge, small edits
2020-01-23 Dirk Eddelbuettel
* README.md: Add a Debian badge
2019-10-20 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New release 0.3.7
* configure.ac: Mark as 0.3.7
* configure: Rebuilt
* inst/include/RcppGSL_types.h: Revert back from nullptr to NULL to
not impose C++11 compilation on client packages
* vignettes/rmd/RcppGSL-introduction.Rmd: Updated bibluigraphy handling
* vignettes/rmd/Rcpp.bib: Copied in from Rcpp package
* vignettes/rmd/Makefile: Added
2019-10-19 Dirk Eddelbuettel
* DESCRIPTION (Date, Version): Roll minor version
* DESCRIPTION(Suggests): Switch from RUnit to tinytest
* tests/tinytest.R: Renamed and converted from doRUnit.R
* inst/tinytest/: Renamed and converted from unitTests/
* .travis.yml (install): Install r-cran-tinytest not of r-cran-runit
2019-10-15 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw: Wrapper around pre-made vignette
* vignettes/RcppGSL-intro.Rmd: Moved to rmd/RcppGSL-introduction.pdf
and included pre-made in simpler Sweave vignette
* vignettes/RcppGSL-unitTests.Rnw: Removed
2019-10-14 Dirk Eddelbuettel
* inst/include/RcppGSL_types.h: Correct logic, actually call free()
2018-09-02 Dirk Eddelbuettel
* .travis.yml: Switch Travis CI to R 3.5 repo
2018-06-10 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.6
* vignettes/header.tex: Split off vignette as pandoc 2.* no longer
allows embedding this in the header [CRAN request]
* vignettes/bib.tex: Idem, also updated entries
* vignettes/RcppGSL-intro.Rmd: Use bib.tex and header.tex
2018-05-19 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.5
* man/RcppGSL-package.Rd: Update using Rd macros [CRAN request]
2018-05-06 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.4
2018-05-05 Dirk Eddelbuettel
* inst/include/RcppGSL_matrix.h: Remove dynamic exception
specifications which are deprecated in C++11
* inst/include/RcppGSL_types.h: Idem
* vignettes/RcppGSL-intro.Rmd: Idem in one example
* src/Makevars.in: Undo CXX98 setting which is no longer needed
* inst/unitTests/cpp/gsl.cpp: Add explicit local sqrt() to be used
with std::transform to make the Solaris compiler happier
2018-01-21 Dirk Eddelbuettel
* src/Makevars.in (PKG_LIBS): Set 'CXX_STD = CXX98' to avoid g++
whining about dynamic exception specification which C++11 dislikes
[ reverted later, see 2018-05-05 entry ]
2017-12-23 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): New minor version
2017-12-23 Jeroen Ooms
* src/Makevars.win: Support native Windows builds
* tools/winlibs.R: Fetch Windows files if needed
* .Rbuildignore: Ignore top-level windows/ directory
* .gitignore: Idem
2017-09-24 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.3
* vignettes/RcppGSL-intro.Rmd: Now typset in two-column mode
* tests/doRUnit.R: Small edits and improvements
2017-09-23 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rmd: Converted to Rmd, uses pinp
* DESCRIPTION: Updated Suggests: and VignetteBuilder:
* .travis.yml (before_install): Install r-cran-pinp
* cleanup: Extended
2017-08-26 Dirk Eddelbuettel
* .travis.yml (before_install): Use https for curl fetch
2017-04-03 Dirk Eddelbuettel
* R/inline.R (.onLoad): Check for gsl-config at run-time too
2017-03-04 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.2
* DESCRIPTION (Description): Reworded and shortened
* src/init.c (R_init_RcppGSL): Call R_registerRoutines()
and R_useDynamicSymbols()
* NAMESPACE: Use .registration=TRUE on useDynLib
* R/fastLm.R (fastLmPure): Use PACKAGE= with .Call()
* README.md: One more canonical URL
2017-01-15 Dirk Eddelbuettel
* inst/skeleton/configure (GSL_LIBS): No longer need RCPP_LIBS
* inst/skeleton/configure.win (GSL_LIBS): Idem
* inst/skeleton/Makevars.in (PKG_CPPFLAGS): Idem
* inst/skeleton/Makevars.win (PKG_LIBS): Idem
* R/inline.R: Updated / edited
2016-10-02 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.1
* tests/doRUnit.R: Rewritten in simpler form following lead of some
other packages using the RUnit testing frameworks
* R/unit.test.R: Remove unused and unexported function
* inst/unitTests/runTests.R: Ditto
* vignettes/RcppGSL-intro.Rnw: Restore 'boxed' display of code
* .travis.yml: Switch to using run.sh for Travis CI
2016-05-19 Dirk Eddelbuettel
* vignettes/RcppGSL-unitTests.Rnw: Do not write unit test results to
/tmp per request from CRAN to not write outside test directories
2015-08-30 Dirk Eddelbuettel
* DESCRIPTION (Version, Date): Release 0.3.0
* vignettes/RcppGSL-intro.Rnw: Minor edits
2015-08-29 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw: Updated throughout
2015-08-20 Dirk Eddelbuettel
* inst/examples/bSpline/bSpline.cpp: Updated example
2015-08-18 Daniel C. Dillon
* inst/include/RcppGSLForward: Rework vector_view and matrix_view to
better support const variants
* inst/include/RcppGSL_types.h: Idem
* inst/examples/RcppGSLExample/src/colNorm.cpp: Update usage example
* inst/unitTests/cpp/gsl.cpp: Update unite tests
2015-08-18 Dirk Eddelbuettel
* inst/examples/RcppGSLExample/src/colNorm.cpp: Use 'const &'
2015-08-16 Daniel C. Dillon
* inst/include/RcppGSLForward: Add support for const references
* inst/include/RcppGSL_types.h: Idem
* src/fastLm: Use 'const &' in function interface
2015-07-27 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw (Rcpp): Added GSL usage table
2015-07-23 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw: Several small updates and edits
2015-07-20 Dirk Eddelbuettel
* inst/include/RcppGSL_typedef.h: Also define MatrixView and VectorView
2015-07-19 Dirk Eddelbuettel
* src/fastLm.cpp: Simplified thanks to reference counting and
improved object management: GSL objects now in signature, and no
longer require an explicit free() call (but still allow it).
* inst/examples/RcppGSLExample: idem
* inst/examples/bSpline: idem
* vignettes/RcppGSL-intro.Rnw: idem
* inst/include/*: Consistent indentation and whitespace
* inst/include/RcppGSL_typedef.h: Define Matrix and Vector shorthands
2015-07-17 Dirk Eddelbuettel
* inst/include/macros/RCPPGSL_SPEC.h: Add boolean to check whether
'data' remains allocated, and use it to free resources in destructor
2015-07-06 Dirk Eddelbuettel
* DESCRIPTION: Release 0.2.5
* NAMESPACE: Added now-required importFrom() statements
* DESCRIPTION: Added Imports: stats
2015-07-04 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw (Rcpp): Updated and edited throughout.
2015-06-27 Dirk Eddelbuettel
* DESCRIPTION (Description, Date): More Title Case; rolled Date
2015-06-26 Dirk Eddelbuettel
* inst/examples/RcppGSLExample/DESCRIPTION: Updated Date and Version
* inst/examples/RcppGSLExample/src/colNorm.cpp: Added new version
based on Attributes
* inst/examples/RcppGSLExample/src/RcppExports.cpp: Added
* inst/examples/RcppGSLExample/R/RcppExports.R: Added
* inst/examples/RcppGSLExample/R/colNorm.R: Retired
* inst/unitTests/runit.client.package.R (test.client.package):
Updated to use version 0.0.3 of RcppGSLExample
* vignettes/RcppGSL-intro.Rnw (Rcpp): Updated to reflect updated
example client package RcppGSLExample
* src/RcppExports.cpp: Updated via newer compileAttributes()
* .travis.yml (install): Use Launchpad PPA for r-cran-* packages
2015-06-24 Dirk Eddelbuettel
* inst/examples/bSpline/bSpline.cpp (fitData): Removed unneccessary
instantiation of a data.frame object
2015-01-24 Dirk Eddelbuettel
* DESCRIPTION: Version 0.2.4
2015-01-22 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw: Updated to note that package turns off
GSL error when loaded via .onAttach().
2015-01-14 Dirk Eddelbuettel
* src/setErrorHandler.cpp: Add two simple functions to turn off the
GSL error handler (which is recommended), and to reset to the default
value if so desired. Note that under the default value GSL will abort
on error which is not desirable when called from R.
* R/init.R (.onAttach): Call the new gslSetErrorHandler() function
2015-01-13 Qiang Kou
* vignettes/RcppGSL-intro.Rnw: Add section about setting default
error in GSL per http://thread.gmane.org/gmane.comp.lang.r.rcpp/7905
2015-01-10 Dirk Eddelbuettel
* DESCRIPTION: Version 0.2.3
2015-01-09 Dirk Eddelbuettel
* vignettes/RcppGSL-intro.Rnw: Small update for look&feel, also
updated regarding configure variables
2015-01-06 Dirk Eddelbuettel
* src/Makevars.in: One char correction requested by CRAN Maintainers
* configure.ac: Updated and shortened
* configure: Ditto
2014-05-31 Dirk Eddelbuettel
* DESCRIPTION: Version 0.2.2
* inst/NEWS.Rd: Ditto
2014-05-30 Kevin Ushey
* inst/include/RcppGSLForward.h: Take address of private member, not
variable passed in
2014-05-26 Dirk Eddelbuettel
* DESCRIPTION: Version 0.2.1
* inst/unitTests/runit.client.package.R: Add 'require(Rcpp)' which is
now needed as we only Import: rather than Depends: in the example
2014-05-22 Dirk Eddelbuettel
* inst/examples/RcppGSLExample/DESCRIPTION: Updated
* inst/examples/RcppGSLExample/NAMESPACE: Ditto
* inst/examples/RcppGSLExample/configure.ac: Ditto
* inst/examples/RcppGSLExample/configure: Ditto
* inst/examples/RcppGSLExample/src/Makevars.in: Ditto
* inst/examples/RcppGSLExample/src/Makevars.win: Ditto
2014-05-21 Dirk Eddelbuettel
* DESCRIPTION: Updated for Rcpp (>= 0.11.0)
* NAMESPACE: Ditto
* configure.ac: Simplified as we longer need -L flags for Rcpp
* src/Makevars.in: Ditto
* src/Makevars.win (PKG_LIBS): Removed call to Rcpp:::LdFlags()
* R/inline.R (inlineCxxPlugin): Now call Rcpp::Rcpp.plugin.maker()
* .Rbuildignore: Added
2013-10-22 Dirk Eddelbuettel
* DESCRIPTION: Added 'Suggests: Rcpp' to build vignette as we call
into Rcpp to get its bibtex file
2013-10-09 Dirk Eddelbuettel
* NAMESPACE: Export LdFlags and CFlags
* man/LdFlags.Rd: Added documentation for exported functions
2013-09-10 Dirk Eddelbuettel
* DESCRIPTION (Imports): Now 'Imports: Rcpp' rather than Depends: to
satisfy R CMD check for the R version under development
2013-08-24 Dirk Eddelbuettel
* DESCRIPTION (Suggests): Added 'highlight' so that the package is
available during 'R CMD check' in order to build vignettes
* vignettes/RcppGSL-intro.Rnw: Also cite the Eddelbuettel and
Sanderson (2013, CSDA) paper on RcppArmadillo
2013-06-23 Dirk Eddelbuettel
* inst/unitTests/runit.gsl.R: Corrections to new unitTest scheme
* inst/unitTests/cpp/gsl.cpp: Idem
2013-06-22 Dirk Eddelbuettel
* inst/unitTests/runit.gsl.R: Rewritten to use sourceCpp()
* inst/unitTests/cpp/gsl.cpp: New C++ file with unit tests
* vignettes/RcppGSL-unitTests.Rnw: Minor tweaking
* vignettes/RcppGSL-intro.Rnw: Added section on attributes
* vignettes/buildVignette.R: Default to all .Rnw files in directory,
also set boxes option to TRUE
2013-06-21 Dirk Eddelbuettel
* vignettes/buildVignette.R: Added simple helper script to build
the vignette(s) on the command-line (which requires highlight)
* cleanup: Take some tasks that the vignette/Makefile had
* src/fastLm.cpp: Minor improvement in computing std.error of est.
2013-06-19 Dirk Eddelbuettel
* vignettes/RcppGSL/RcppGSL-intro.Rnw: Some fixes
2013-06-19 Romain Francois
* vignettes/RcppGSL/RcppGSL-intro.Rnw: Converted back to use with
package highlight (>= 0.4.2)
2012-11-11 Dirk Eddelbuettel
* inst/examples/bSpline/bSpline.cpp: New example for B-spline fit
taken from GSL manual
* inst/examples/bSpline/bSpline.cpp: R wrapper and illustration
2012-10-14 Dirk Eddelbuettel
* vignettes/RcppGSL/RcppGSL-intro.Rnw: Switch to using Rcpp:::bib()
and the bibtex file shipped with Rcpp
2012-07-22 Dirk Eddelbuettel
* DESCRIPTION: Version 0.2.0
* inst/unitTests/runit.fastLm.R: expanded unit tests
* R/inline.R: Use two variables in a new package-global environment
to store RcppGSL compiler and linker flags
* vignettes/RcppGSL/RcppGSL-intro.Rnw: Skip use of highlight for
C++ and shell snippets to sidestep build issues on 32bit OSs
* vignettes/RcppGSL.bib: updated references
2012-07-21 Dirk Eddelbuettel
* R/fastLm.R: expanded summary() display as in RcppArmadillo
* inst/NEWS.Rd: converted from ascii text to Rd format
* vignettes/*: moved from inst/doc/* per newer R Policy
* vignettes/: renamed main vignette to RcppGSL-intro to not clash
with the filename of the package reference manual RcppGSL.pdf
* DESCRIPTION: changed Maintainer: to single person per CRAN Policy
2011-12-23 Dirk Eddelbuettel
* inst/unitTests/runTests.R: unit tests output 'fallback' directory
changed to '..' and files are now in top-level of $pkg.Rcheck/
2011-12-22 Dirk Eddelbuettel
* inst/include/RcppGSLForward.h (RcppGSL): Commented-out long and
ulong declarations which currently clash with int64
* inst/include/RcppGSL_matrix.h (RcppGSL): Commented-out long and
ulong casts which currently clash with int64
* inst/unitTests/runit.gsl.R: Disable corresponding tests
2011-06-14 Douglas Bates
* R/fastLm.R, man/fastLm.Rd, src/fastLm.cpp,
inst/unitTests/runit.fastLm.R: Change order of arguments in
fastLm.cpp, fastLm.R, unit test and documentation.
2011-06-13 Dirk Eddelbuettel
* NAMESPACE: Properly export S3methods as such
* man/fastLm.Rd: Similar updates to help page
2011-04-08 Dirk Eddelbuettel
* R/fastLm.R: In print.summary.fastLm(), use 'P.values' not 'P.value'
2011-04-05 Dirk Eddelbuettel
* DESCRIPTION: Version 0.1.1
2011-04-04 Dirk Eddelbuettel
* inst/doc/Makefile: Do not call clean in all target
2011-02-28 Dirk Eddelbuettel
* inst/doc/Makefile: Call R and Rscript relative to R_HOME/bin
2011-02-11 Dirk Eddelbuettel
* inst/doc/RcppGSL/Makefile: Also create unitTest vignette
* inst/doc/RcppGSL/RcppGSL-unitTests.Rnw: idem
* inst/doc/RcppGSL/unitTests/RcppGSL-unitTests.R: idem
2010-12-06 Romain Francois
* inst/doc/RcppGSL/RcppGSL.Rnw: cosmetics
2010-11-30 Dirk Eddelbuettel
* DESCRIPTION: Version 0.1.0 and initial release
2010-11-29 Romain Francois
* inst/include/RcppGSLForward.h: vector_view now exposes a conversion
operator to implicitely convert it to the associated gsl_vector_foo * type.
Similarly matrix_view expose a conversion operator to the associated
gsl matrix pointer.
2010-11-28 Dirk Eddelbuettel
* inst/examples/RcppGSLExample/: Started as a means to provide a
simple yet complete example of using RcppGSL in a user package
* NEWS: Added with initial notes towards a release
2010-11-27 Romain Francois
* include/include/*h: Updated to satisfy some grumblings from g++
2010-11-27 Dirk Eddelbuettel
* R/fastLm.R: summary() now also computed R2 and adjR2
2010-05-25 Romain Francois
* inst/include/RcppGSLForward.h : add indexing operator, stl iterator
and begin() and end() methods to RcppGSL::vector using proxy classes
* inst/include/RcppGSLForward.h : RcppGSL::matrix gets indexing
operator(int,int)
* configure.win: added empty configure.win so that R CMD check does
not get jealous about the configure script
* src/Makevars.win: use Brian Ripley's suggestions to anticipate R 2.12.0
* inst/include/*.h: RcppGSL::vector_view and RcppGSL::matrix_view
2010-05-13 Dirk Eddelbuettel
* R/fastLm.R: fastLm is now generic and behaves similar to lm():
formula interface, returns object of class 'fastLm', and had methods
for print, summary and predict
* man/fasttLm.Rd: documented interface accordingly
* src/fastLm.cpp: Added and degrees of freedom to list of result
returned from C++ to R
2010-05-13 Romain Francois
* inst/include/*.h: wrap specializations are now inline
* inst/include/*.h: new classes RcppGSL::matrix and
RcppGSL::matrix_view
2010-05-12 Dirk Eddelbuettel
* src/fastLm.cpp : added fastLm from Rcpp examples
2010-05-12 Romain Francois
* inst/include/*.h: added classes RcppGSL::vector that act as
smart pointers to gsl_vector_* objects. This gives nicer syntax and
helps Rcpp implicit converters wrap and as.
RcppGSL/NAMESPACE 0000644 0001762 0000144 00000000601 15152162426 012744 0 ustar ligges users useDynLib(RcppGSL, .registration=TRUE)
importFrom(Rcpp, evalCpp)
importFrom(stats, model.frame, model.matrix, model.response, fitted, coef, printCoefmat, pt)
export(fastLmPure,
fastLm,
LdFlags,
CFlags)
S3method(fastLm, default)
S3method(fastLm, formula)
S3method(predict, fastLm)
S3method(print, fastLm)
S3method(summary, fastLm)
S3method(print, summary.fastLm)
RcppGSL/TODO 0000644 0001762 0000144 00000000271 12774327533 012231 0 ustar ligges users
o [DONE] More STL-like interface for vectors:
* RcppGSL::vector<>::operator[]
* RcppGSL::vector<>::iterator
* RcppGSL::vector<>::begin
* RcppGSL::vector<>::end
RcppGSL/configure.ac 0000644 0001762 0000144 00000001776 15152161357 014033 0 ustar ligges users
## Process this file with autoconf to produce a configure script.
##
## Configure.ac for RcppGSL
##
## Copyright (C) 2010 Romain Francois and Dirk Eddelbuettel
## Copyright (C) 2014-2026 Dirk Eddelbuettel
##
## Licensed under GNU GPL 2 or later
# The version set here will propagate to other files from here
## Process this file with autoconf to produce a configure script.
AC_INIT([RcppGSL],[0.3.14],[edd@debian.org])
## Use gsl-config to find arguments for compiler and linker flags
##
## Check for non-standard programs: gsl-config(1)
AC_PATH_PROG([GSL_CONFIG], [gsl-config])
## If gsl-config was found, let's use it
if test "${GSL_CONFIG}" != ""; then
# Use gsl-config for header and linker arguments
GSL_CFLAGS=`${GSL_CONFIG} --cflags`
GSL_LIBS=`${GSL_CONFIG} --libs`
else
AC_MSG_ERROR([gsl-config not found, is GSL installed?])
fi
# Now substitute these variables in src/Makevars.in to create src/Makevars
AC_SUBST(GSL_CFLAGS)
AC_SUBST(GSL_LIBS)
AC_CONFIG_FILES([src/Makevars])
AC_OUTPUT
RcppGSL/inst/ 0000755 0001762 0000144 00000000000 15152313416 012502 5 ustar ligges users RcppGSL/inst/include/ 0000755 0001762 0000144 00000000000 13673662403 014136 5 ustar ligges users RcppGSL/inst/include/RcppGSL.h 0000644 0001762 0000144 00000002225 12774327533 015565 0 ustar ligges users // -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; indent-tabs-mode: nil; -*-
//
// RcppGSL.h: Seamless R and GSL Integration via Rcpp
//
// Copyright (C) 2010 - 2015 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__RCPPGSL_H
#define RCPPGSL__RCPPGSL_H
#include
#include
#include
#include
#include
#include
#include
#endif
RcppGSL/inst/include/RcppGSL_vector_view.h 0000644 0001762 0000144 00000004437 13673660700 020203 0 ustar ligges users
// RcppGSL_vector_view.h: Vector view class for Seamless R and GSL Integration
//
// Copyright (C) 2010 - 2020 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__RCPPGSL_VECTOR_VIEW_H
#define RCPPGSL__RCPPGSL_VECTOR_VIEW_H
#include
#include
namespace Rcpp{
#define RCPPGSL_VIEW(SUFFIX) \
template <> inline SEXP wrap(const gsl_vector##SUFFIX##_view& x) { \
return wrap(x.vector); \
} \
template <> inline SEXP wrap(const gsl_vector##SUFFIX##_const_view& x) { \
return wrap(x.vector); \
}
RCPPGSL_VIEW(_int)
RCPPGSL_VIEW(_float)
RCPPGSL_VIEW(_long)
RCPPGSL_VIEW(_char)
RCPPGSL_VIEW(_complex)
RCPPGSL_VIEW(_complex_float)
RCPPGSL_VIEW(_complex_long_double)
RCPPGSL_VIEW(_long_double)
RCPPGSL_VIEW(_short)
RCPPGSL_VIEW(_uchar)
RCPPGSL_VIEW(_uint)
RCPPGSL_VIEW(_ushort)
RCPPGSL_VIEW(_ulong)
#undef RCPPGSL_VIEW
template <> inline SEXP wrap(const gsl_vector_view& x){
return wrap(x.vector) ;
}
template <> inline SEXP wrap(const gsl_vector_const_view& x ){
return wrap(x.vector) ;
}
template inline SEXP wrap(const ::RcppGSL::vector_view& x){
return wrap( x.view.vector ) ;
}
}
#endif
RcppGSL/inst/include/RcppGSL_typedef.h 0000644 0001762 0000144 00000002453 12774327533 017310 0 ustar ligges users // -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; indent-tabs-mode: nil; -*-
//
// RcppGSL_typedef.h: Shorthand Definitions for Seamless R and GSL Integration
//
// Copyright (C) 2015 Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__TYPEDEF_H
#define RCPPGSL__TYPEDEF_H
namespace RcppGSL {
typedef matrix Matrix;
typedef vector Vector;
typedef matrix_view MatrixView;
typedef vector_view VectorView;
typedef matrix IntMatrix;
typedef vector IntVector;
typedef matrix_view IntMatrixView;
typedef vector_view IntVectorView;
}
#endif
RcppGSL/inst/include/RcppGSL_types.h 0000644 0001762 0000144 00000064451 13553061757 017021 0 ustar ligges users // -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; indent-tabs-mode: nil; -*-
//
// RcppGSL_types.h: Type macros for Seamless R and GSL Integration
//
// Copyright (C) 2010 - 2019 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL_RCPPGSL_SPEC_H
#define RCPPGSL_RCPPGSL_SPEC_H
#undef _RCPPGSL_SPEC
#undef _RCPPGSL_SPEC_NOSUFFIX
#define _RCPPGSL_SPEC(__T__,__SUFFIX__,__CAST__) \
template <> struct vector_view_type<__T__> { \
typedef gsl_vector##__SUFFIX__##_view type; \
typedef gsl_vector##__SUFFIX__##_const_view const_type; \
}; \
template <> struct matrix_view_type<__T__> { \
typedef gsl_matrix##__SUFFIX__##_view type; \
typedef gsl_matrix##__SUFFIX__##_const_view const_type; \
}; \
template <> class vector<__T__> { \
public: \
typedef __T__ type; \
typedef __T__* pointer; \
typedef gsl_vector##__SUFFIX__ gsltype; \
gsltype* data; \
class Proxy { \
public: \
Proxy(gsltype* data_, int index_) : \
index(index_), parent(data_) {} \
Proxy& operator=(type x) { \
gsl_vector##__SUFFIX__##_set(parent, index, x); \
return *this; \
} \
inline operator type() { \
return gsl_vector##__SUFFIX__##_get(parent, index); \
} \
inline operator const type() const { \
return gsl_vector##__SUFFIX__##_get(parent, index); \
} \
int index; \
gsltype* parent; \
inline void move(int d) { index += d; } \
}; \
class ConstProxy { \
public: \
ConstProxy(const gsltype* data_, int index_) : \
index(index_), parent(data_) {} \
inline operator type() { \
return gsl_vector##__SUFFIX__##_get(parent, index); \
} \
inline operator const type() const { \
return gsl_vector##__SUFFIX__##_get(parent, index); \
} \
int index; \
const gsltype* parent; \
inline void move(int d) { index += d; } \
}; \
typedef ::Rcpp::internal::Proxy_Iterator iterator; \
typedef ::Rcpp::internal::Proxy_Iterator const_iterator;\
const static int RTYPE = \
::Rcpp::traits::r_sexptype_traits::rtype; \
vector(SEXP x) : \
data(NULL), allocated(false) { \
SEXP y = ::Rcpp::r_cast(x); \
int size = ::Rf_length(y); \
data = gsl_vector##__SUFFIX__##_calloc(size); \
::Rcpp::internal::export_range<__CAST__*>(y, \
reinterpret_cast<__CAST__*>(data->data)); \
} \
vector(gsltype* x) : data(x), allocated(false) {} \
vector(int size) : \
data(gsl_vector##__SUFFIX__##_calloc(size)), \
allocated(true) {} \
~vector() { free(); } \
operator gsltype*() { return data; } \
operator const gsltype*() const { return data; } \
gsltype* operator->() const { return data; } \
gsltype& operator*() const { return *data; } \
vector(const vector& x) : data(x.data), allocated(x.allocated) {} \
vector& operator=(const vector& other) { \
data = other.data; \
allocated = other.allocated; \
return *this; \
} \
inline Proxy operator[](int i) { \
return Proxy(data, i); \
} \
inline ConstProxy operator[](int i) const { \
return ConstProxy(data, i); \
} \
inline iterator begin() { return iterator(Proxy(*this, 0)); } \
inline iterator end() { return iterator(Proxy(*this,data->size)); } \
inline const_iterator begin() const { \
return const_iterator(ConstProxy(*this, 0)); \
} \
inline const_iterator end() const { \
return const_iterator(ConstProxy(*this, data->size)); \
} \
inline size_t size() const { return data->size; } \
inline void free() { \
if (allocated && data) { \
gsl_vector##__SUFFIX__##_free(data); \
allocated = false; \
data = NULL; \
} \
} \
private: \
bool allocated; \
}; \
template <> class matrix<__T__> { \
public: \
typedef __T__ type; \
typedef __T__* pointer; \
typedef gsl_matrix##__SUFFIX__ gsltype; \
gsltype* data; \
const static int RTYPE = \
::Rcpp::traits::r_sexptype_traits::rtype; \
class Proxy { \
public: \
Proxy(gsltype* data_, int row_, int col_) : \
row(row_), col(col_), parent(data_) {} \
Proxy& operator=(type x) { \
gsl_matrix##__SUFFIX__##_set(parent, row, col, x); \
return *this; \
} \
inline operator type() { \
return gsl_matrix##__SUFFIX__##_get(parent, row, col); \
} \
inline operator const type() const { \
return gsl_matrix##__SUFFIX__##_get(parent, row, col); \
} \
int row; \
int col; \
gsltype* parent; \
}; \
class ConstProxy { \
public: \
ConstProxy(const gsltype* data_, int row_, int col_) : \
row(row_), col(col_), parent(data_) {} \
inline operator type() { \
return gsl_matrix##__SUFFIX__##_get(parent, row, col); \
} \
inline operator const type() const { \
return gsl_matrix##__SUFFIX__##_get(parent, row, col); \
} \
int row; \
int col; \
const gsltype* parent; \
}; \
matrix(SEXP x) : \
data(NULL), allocated(false) { import(x); } \
matrix(gsltype* x) : data(x), allocated(false) {} \
matrix(int nrow, int ncol) : \
data(gsl_matrix##__SUFFIX__##_alloc(nrow, ncol)), \
allocated(true) {} \
~matrix() { free(); } \
operator gsltype*() { return data; } \
operator const gsltype*() const { return data; } \
gsltype* operator->() const { return data; } \
gsltype& operator*() const { return *data; } \
matrix(const matrix& x) : data(x.data), allocated(x.allocated) {} \
matrix& operator=(const matrix& other) { \
data = other.data; \
allocated = other.allocated; \
return *this; \
} \
inline size_t nrow() const { return data->size1; } \
inline size_t ncol() const { return data->size2; } \
inline size_t size() const { return data->size1 * data->size2; } \
inline Proxy operator()(int row, int col){ \
return Proxy( *this, row, col); \
} \
inline ConstProxy operator()(int row, int col) const { \
return ConstProxy( *this, row, col); \
} \
void free(){ \
if (allocated && data) { \
gsl_matrix##__SUFFIX__##_free(data); \
allocated = false; \
data = NULL; \
} \
} \
private: \
inline void import(SEXP x); \
bool allocated; \
}; \
#define _RCPPGSL_SPEC_NOSUFFIX(__T__,__CAST__) \
template <> struct vector_view_type<__T__> { \
typedef gsl_vector_view type; \
typedef gsl_vector_const_view const_type; \
}; \
template <> struct matrix_view_type<__T__> { \
typedef gsl_matrix_view type; \
typedef gsl_matrix_const_view const_type; \
}; \
template <> class vector<__T__> { \
public: \
typedef __T__ type; \
typedef __T__* pointer; \
typedef gsl_vector gsltype; \
gsltype* data; \
class Proxy { \
public: \
Proxy(gsltype* data_, int index_) : \
index(index_), parent(data_) {} \
Proxy& operator=(type x) { \
gsl_vector_set(parent, index, x); \
return *this; \
} \
inline operator type() { \
return gsl_vector_get(parent, index); \
} \
inline operator const type() const { \
return gsl_vector_get(parent, index); \
} \
int index; \
gsltype* parent; \
inline void move(int d) { index += d; } \
}; \
class ConstProxy { \
public: \
ConstProxy(const gsltype* data_, int index_) : \
index(index_), parent(data_) {} \
inline operator type() { \
return gsl_vector_get(parent, index); \
} \
inline operator const type() const { \
return gsl_vector_get(parent, index); \
} \
int index; \
const gsltype* parent; \
inline void move(int d) { index += d; } \
}; \
typedef ::Rcpp::internal::Proxy_Iterator iterator; \
typedef ::Rcpp::internal::Proxy_Iterator const_iterator; \
const static int RTYPE = \
::Rcpp::traits::r_sexptype_traits::rtype; \
vector(SEXP x) : \
data(NULL), allocated(false) { \
SEXP y = ::Rcpp::r_cast(x); \
int size = ::Rf_length(y); \
data = gsl_vector_calloc(size); \
::Rcpp::internal::export_range<__CAST__*>(y, \
reinterpret_cast<__CAST__*>(data->data)); \
} \
vector(gsltype* x) : data(x), allocated(false) {} \
vector(int size) : \
data(gsl_vector_calloc(size)), allocated(true) {} \
~vector() { free(); } \
operator gsltype*() { return data; } \
operator const gsltype*() const { return data; } \
gsltype* operator->() const { return data; } \
gsltype& operator*() const { return *data; } \
vector(const vector& x) : data(x.data), allocated(x.allocated) {} \
vector& operator=(const vector& other) { \
data = other.data; \
allocated = other.allocated; \
return *this; \
} \
inline Proxy operator[](int i) { \
return Proxy(data, i); \
} \
inline ConstProxy operator[](int i) const { \
return ConstProxy(data, i); \
} \
inline iterator begin() { return iterator(Proxy(*this, 0)); } \
inline iterator end() { return iterator(Proxy(*this, data->size)); } \
inline const_iterator begin() const { \
return const_iterator(ConstProxy(*this, 0)); \
} \
inline const_iterator end() const { \
return const_iterator(ConstProxy(*this, data->size)); \
} \
inline size_t size() const { return data->size; } \
inline void free() { \
if (allocated && data) { \
gsl_vector_free(data); \
allocated = false; \
data = NULL; \
} \
} \
private: \
bool allocated; \
}; \
template <> class matrix<__T__> { \
public: \
typedef __T__ type; \
typedef __T__* pointer; \
typedef gsl_matrix gsltype; \
gsltype* data; \
const static int RTYPE = \
::Rcpp::traits::r_sexptype_traits::rtype; \
class Proxy { \
public: \
Proxy(gsltype* data_, int row_, int col_) : \
row(row_), col(col_), parent(data_) {} \
Proxy& operator=(type x) { \
gsl_matrix_set(parent, row, col, x); \
return *this; \
} \
inline operator type() { \
return gsl_matrix_get(parent, row, col); \
} \
inline operator const type() const { \
return gsl_matrix_get(parent, row, col); \
} \
int row; \
int col; \
gsltype* parent; \
}; \
class ConstProxy { \
public: \
ConstProxy(const gsltype* data_, int row_, int col_) : \
row(row_), col(col_), parent(data_) {} \
inline operator type() { \
return gsl_matrix_get(parent, row, col); \
} \
inline operator const type() const { \
return gsl_matrix_get(parent, row, col); \
} \
int row; \
int col; \
const gsltype* parent; \
}; \
matrix(SEXP x) : \
data(NULL), allocated(false) { import(x); } \
matrix(gsltype* x) : data(x), allocated(false) {} \
matrix(int nrow, int ncol) : \
data(gsl_matrix_alloc(nrow, ncol)), allocated(true) {} \
~matrix() { free(); } \
operator gsltype*() { return data; } \
operator const gsltype*() const { return data; } \
gsltype* operator->() const { return data; } \
gsltype& operator*() const { return *data; } \
matrix(const matrix& x) : data(x.data), allocated(x.allocated) {} \
matrix& operator=(const matrix& other) { \
data = other.data; \
allocated = other.allocated; \
return *this; \
} \
inline size_t nrow() const { return data->size1; } \
inline size_t ncol() const { return data->size2; } \
inline size_t size() const { return data->size1 * data->size2; } \
inline Proxy operator()(int row, int col) { \
return Proxy(*this, row, col); \
} \
inline ConstProxy operator()(int row, int col) const { \
return ConstProxy(*this, row, col); \
} \
void free() { \
if (allocated && data) { \
gsl_matrix_free(data); \
allocated = false; \
data = NULL; \
} \
} \
private: \
inline void import(SEXP x); \
bool allocated; \
}; \
#endif
RcppGSL/inst/include/RcppGSL_vector.h 0000644 0001762 0000144 00000006223 13673662403 017146 0 ustar ligges users
// RcppGSL_vector.h: Vector class for Seamless R and GSL Integration
//
// Copyright (C) 2010 - 2020 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__RCPPGSL_VECTOR_H
#define RCPPGSL__RCPPGSL_VECTOR_H
#include
#include
namespace RcppGSL {
template class gslvector_importer {
public:
typedef T r_import_type; /* this is important */
private:
r_import_type* data;
int stride;
int n;
public:
gslvector_importer(T* data_, int stride_, int n_) : data(data_), stride(stride_), n(n_) {}
inline r_import_type get(int i) const {
return data[ i * stride ];
}
inline int size() const { return n; }
};
}
namespace Rcpp {
#define RCPPGSL_WRAP(__TYPE__,__DATA__) \
template <> inline SEXP wrap(const __TYPE__& x) { \
return wrap(RcppGSL::gslvector_importer<__DATA__>(x.data, x.stride, x.size ) ); \
}
#define RCPPGSL_WRAP_CAST(__TYPE__,__DATA__,__CAST__) \
template <> inline SEXP wrap(const __TYPE__& x) { \
return wrap(RcppGSL::gslvector_importer<__DATA__>(reinterpret_cast<__CAST__>(x.data), x.stride, x.size ) ); \
}
RCPPGSL_WRAP(gsl_vector ,double)
RCPPGSL_WRAP(gsl_vector_float ,float)
RCPPGSL_WRAP(gsl_vector_int ,int)
RCPPGSL_WRAP(gsl_vector_long ,long)
RCPPGSL_WRAP(gsl_vector_long_double ,long double)
RCPPGSL_WRAP(gsl_vector_short ,short)
RCPPGSL_WRAP(gsl_vector_uchar ,unsigned char)
RCPPGSL_WRAP(gsl_vector_uint ,unsigned int)
RCPPGSL_WRAP(gsl_vector_ushort ,unsigned short)
RCPPGSL_WRAP(gsl_vector_ulong ,unsigned long)
RCPPGSL_WRAP_CAST(gsl_vector_char ,unsigned char ,Rbyte* const)
RCPPGSL_WRAP_CAST(gsl_vector_complex ,gsl_complex ,gsl_complex*)
RCPPGSL_WRAP_CAST(gsl_vector_complex_float ,gsl_complex_float ,gsl_complex_float*)
RCPPGSL_WRAP_CAST(gsl_vector_complex_long_double,gsl_complex_long_double,gsl_complex_long_double*)
template inline SEXP wrap(const ::RcppGSL::vector& x) {
return wrap(*(x.data));
}
#undef RCPPGSL_WRAP_CAST
#undef RCPPGSL_WRAP
}
#endif
RcppGSL/inst/include/RcppGSL_matrix.h 0000644 0001762 0000144 00000022604 13673662344 017155 0 ustar ligges users
// RcppGSL_matrix.h: Matrix class for Seamless R and GSL Integration
//
// Copyright (C) 2010 - 2020 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__RCPPGSL_MATRIX_H
#define RCPPGSL__RCPPGSL_MATRIX_H
#include
#include
namespace RcppGSL {
template class gslmatrix_importer {
public:
typedef T r_import_type; /* this is important */
private:
r_import_type* ptr;
int size1;
int size2;
int tda;
public:
gslmatrix_importer(r_import_type* ptr_, int size1_, int size2_, int tda_) :
ptr(ptr_), size1(size1_), size2(size2_), tda(tda_) {};
inline int size() const { return size1 * size2; };
r_import_type get(int i) const {
int col = (int)(i / size1);
int row = i - col * size1;
return ptr[ row * tda + col ];
}
};
}
namespace Rcpp {
#define RCPPGSL_WRAP(__TYPE__,__DATA__) \
template <> inline SEXP wrap(const __TYPE__& x) { \
SEXP res = PROTECT(wrap(RcppGSL::gslmatrix_importer<__DATA__>( \
x.data, x.size1, x.size2, x.tda))); \
SEXP dims = PROTECT(::Rf_allocVector(INTSXP, 2)); \
INTEGER(dims)[0] = x.size1; \
INTEGER(dims)[1] = x.size2; \
::Rf_setAttrib(res, R_DimSymbol, dims); \
UNPROTECT(2); \
return res; \
}
#define RCPPGSL_WRAP_CAST(__TYPE__,__DATA__) \
template <> inline SEXP wrap(const __TYPE__& x) { \
SEXP res = PROTECT(wrap(RcppGSL::gslmatrix_importer<__DATA__>( \
reinterpret_cast<__DATA__*>(x.data), \
x.size1, x.size2, x.tda))); \
SEXP dims = PROTECT(::Rf_allocVector(INTSXP, 2)); \
INTEGER(dims)[0] = x.size1; \
INTEGER(dims)[1] = x.size2; \
::Rf_setAttrib(res, R_DimSymbol, dims); \
UNPROTECT(2); \
return res; \
}
RCPPGSL_WRAP(gsl_matrix , double)
RCPPGSL_WRAP(gsl_matrix_float , float)
RCPPGSL_WRAP(gsl_matrix_int , int)
RCPPGSL_WRAP(gsl_matrix_long , long)
RCPPGSL_WRAP(gsl_matrix_long_double , long double)
RCPPGSL_WRAP(gsl_matrix_short , short)
RCPPGSL_WRAP(gsl_matrix_uchar , unsigned char)
RCPPGSL_WRAP(gsl_matrix_uint , unsigned int)
RCPPGSL_WRAP(gsl_matrix_ushort , unsigned short)
RCPPGSL_WRAP(gsl_matrix_ulong , unsigned long)
RCPPGSL_WRAP_CAST(gsl_matrix_char ,Rbyte )
RCPPGSL_WRAP_CAST(gsl_matrix_complex ,gsl_complex )
RCPPGSL_WRAP_CAST(gsl_matrix_complex_float ,gsl_complex_float )
RCPPGSL_WRAP_CAST(gsl_matrix_complex_long_double,gsl_complex_long_double)
#undef RCPPGSL_WRAP
#undef RCPPGSL_WRAP_CAST
}
namespace RcppGSL {
#undef _RCPPGSL_DEF
#define _RCPPGSL_DEF(__T__,__SUFFIX__) \
inline void matrix<__T__>::import(SEXP x) { \
Rcpp::Matrix mat(x); \
int nc = mat.ncol(); \
int nr = mat.nrow(); \
int i = 0, j = 0; \
data = gsl_matrix##__SUFFIX__##_alloc(nr, nc); \
Rcpp::Matrix::iterator it = mat.begin(); \
for (; j::import(SEXP x) { \
Rcpp::Matrix mat(x); \
int nc = mat.ncol(); \
int nr = mat.nrow(); \
int i = 0, j = 0; \
data = gsl_matrix##__SUFFIX__##_alloc(nr, nc); \
Rcpp::Matrix::iterator it = mat.begin(); \
typedef Rcpp::traits::storage_type::type STORAGE; \
for (; j(*it)); \
} \
} \
}
inline void matrix::import(SEXP x) {
Rcpp::Matrix mat(x);
int nc = mat.ncol();
int nr = mat.nrow();
int i = 0, j = 0;
data = gsl_matrix_alloc(nr, nc);
Rcpp::Matrix::iterator it = mat.begin();
for (; j::import(SEXP x) {
Rcpp::Matrix mat(x);
int nc = mat.ncol();
int nr = mat.nrow();
int i = 0, j = 0;
data = gsl_matrix_char_alloc(nr, nc);
Rcpp::Matrix::iterator it = mat.begin();
for (; j(*it));
}
}
}
#undef _RCPPGSL_DEF
#undef _RCPPGSL_DEF_CAST
}
namespace Rcpp {
template inline SEXP wrap(const ::RcppGSL::matrix& x) {
return wrap(*(x.data));
}
}
#endif
RcppGSL/inst/include/RcppGSL_matrix_view.h 0000644 0001762 0000144 00000004522 13673662356 020211 0 ustar ligges users
// RcppGSL_matrix_view.h: Matrix view class for Seamless R and GSL Integration
//
// Copyright (C) 2010 - 2020 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__RCPPGSL_MATRIX_VIEW_H
#define RCPPGSL__RCPPGSL_MATRIX_VIEW_H
#include
#include
namespace Rcpp{
#define RCPPGSL_VIEW(SUFFIX) \
template <> inline SEXP wrap(const gsl_matrix##SUFFIX##_view& x) { \
return wrap(x.matrix); \
} \
template <> inline SEXP wrap( const gsl_matrix##SUFFIX##_const_view& x ){ \
return wrap(x.matrix) ; \
}
RCPPGSL_VIEW(_int)
RCPPGSL_VIEW(_float)
RCPPGSL_VIEW(_long)
RCPPGSL_VIEW(_char)
RCPPGSL_VIEW(_complex)
RCPPGSL_VIEW(_complex_float)
RCPPGSL_VIEW(_complex_long_double)
RCPPGSL_VIEW(_long_double)
RCPPGSL_VIEW(_short)
RCPPGSL_VIEW(_uchar)
RCPPGSL_VIEW(_uint)
RCPPGSL_VIEW(_ushort)
RCPPGSL_VIEW(_ulong)
#undef RCPPGSL_VIEW
#define RCPPGSL_VIEW(SUFFIX)
template <> inline SEXP wrap(const gsl_matrix_view& x) {
return wrap(x.matrix);
}
template <> inline SEXP wrap(const gsl_matrix_const_view& x) {
return wrap(x.matrix);
}
template inline SEXP wrap(const ::RcppGSL::matrix_view& x) {
return wrap(x.view.matrix);
}
}
#endif
RcppGSL/inst/include/RcppGSLForward.h 0000644 0001762 0000144 00000023210 13673656737 017121 0 ustar ligges users
// RcppGSLForward.h: Forward Declarations for Seamless R and GSL Integration
//
// Copyright (C) 2010 - 2020 Romain Francois and Dirk Eddelbuettel
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#ifndef RCPPGSL__RCPPGSLFORWARD_H
#define RCPPGSL__RCPPGSLFORWARD_H
#include
#include
#include
namespace Rcpp {
namespace traits {
/* support for gsl_complex */
template<> struct r_sexptype_traits { enum { rtype = CPLXSXP }; };
template<> struct wrap_type_traits { typedef wrap_type_primitive_tag wrap_category; };
template<> struct r_type_traits { typedef r_type_primitive_tag r_category; };
template<> struct r_type_traits< std::pair > { typedef r_type_primitive_tag r_category; };
/* support for gsl_complex_float */
template<> struct r_sexptype_traits { enum { rtype = CPLXSXP }; };
template<> struct wrap_type_traits { typedef wrap_type_primitive_tag wrap_category; };
template<> struct r_type_traits { typedef r_type_primitive_tag r_category; };
template<> struct r_type_traits< std::pair > { typedef r_type_primitive_tag r_category; };
/* support for gsl_complex_long_double */
template<> struct r_sexptype_traits { enum { rtype = CPLXSXP }; };
template<> struct wrap_type_traits { typedef wrap_type_primitive_tag wrap_category; };
template<> struct r_type_traits { typedef r_type_primitive_tag r_category; };
template<> struct r_type_traits< std::pair > { typedef r_type_primitive_tag r_category; };
}
namespace internal {
template<> inline gsl_complex caster(Rcomplex from) {
gsl_complex x;
GSL_REAL(x) = from.r;
GSL_IMAG(x) = from.i;
return x;
}
template<> inline Rcomplex caster(gsl_complex from) {
Rcomplex x;
x.r = GSL_REAL(from);
x.i = GSL_IMAG(from);
return x;
}
template<> inline gsl_complex_float caster(Rcomplex from) {
gsl_complex_float x;
GSL_REAL(x) = static_cast(from.r);
GSL_IMAG(x) = static_cast(from.i);
return x;
}
template<> inline Rcomplex caster(gsl_complex_float from) {
Rcomplex x;
x.r = static_cast(GSL_REAL(from));
x.i = static_cast(GSL_IMAG(from));
return x;
}
template<> inline gsl_complex_long_double caster(Rcomplex from) {
gsl_complex_long_double x;
GSL_REAL(x) = static_cast(from.r);
GSL_IMAG(x) = static_cast(from.i);
return x;
}
template<> inline Rcomplex caster(gsl_complex_long_double from) {
Rcomplex x;
x.r = static_cast(GSL_REAL(from));
x.i = static_cast(GSL_IMAG(from));
return x;
}
}
}
namespace RcppGSL {
template class vector;
template class matrix;
template struct vector_view_type;
template struct matrix_view_type;
#include "RcppGSL_types.h"
_RCPPGSL_SPEC_NOSUFFIX(double , double )
_RCPPGSL_SPEC(float , _float , float )
_RCPPGSL_SPEC(int , _int , int )
//_RCPPGSL_SPEC(long , _long , long )
_RCPPGSL_SPEC(long double , _long_double , long double )
_RCPPGSL_SPEC(short , _short , short )
_RCPPGSL_SPEC(unsigned char , _uchar , unsigned char )
_RCPPGSL_SPEC(unsigned int , _uint , unsigned int )
_RCPPGSL_SPEC(unsigned short , _ushort , unsigned short )
//_RCPPGSL_SPEC(unsigned long , _ulong , unsigned long )
_RCPPGSL_SPEC(char , _char , unsigned char )
_RCPPGSL_SPEC(gsl_complex , _complex , gsl_complex )
_RCPPGSL_SPEC(gsl_complex_float , _complex_float , gsl_complex_float )
_RCPPGSL_SPEC(gsl_complex_long_double , _complex_long_double , gsl_complex_long_double)
#undef _RCPPGSL_SPEC
#undef _RCPPGSL_SPEC_NOSUFFIX
template class vector_view {
public:
struct internal_view {
const gsl_vector vector;
inline internal_view(const gsl_vector &v) : vector(v) {}
};
typedef typename vector::type type;
typedef typename vector::const_iterator const_iterator;
typedef typename vector::gsltype gsltype;
typedef typename vector_view_type::type view_type;
typedef typename vector_view_type::const_type const_view_type;
typedef typename vector::ConstProxy ConstProxy;
vector_view(view_type v) : view(v.vector) {}
vector_view(const_view_type v) : view(v.vector) {}
inline ConstProxy operator[](int i) {
return ConstProxy(&view.vector, i);
}
inline const_iterator begin() const {
return const_iterator(ConstProxy(&view.vector, 0));
}
inline const_iterator end() const {
return const_iterator(ConstProxy(&view.vector, view.vector.size));
}
inline size_t size() const { return view.vector.size; }
inline operator const gsltype*() { return &view.vector; }
internal_view view;
};
template class matrix_view {
public:
struct internal_view {
const gsl_matrix matrix;
inline internal_view(const gsl_matrix &m) : matrix(m) {}
};
typedef typename matrix::type type;
typedef typename matrix::gsltype gsltype;
typedef typename matrix_view_type::type view_type;
typedef typename matrix_view_type::const_type const_view_type;
typedef typename matrix::ConstProxy ConstProxy;
matrix_view(view_type v) : view(v.matrix) {}
matrix_view(const_view_type v) : view(v.matrix) {}
inline ConstProxy operator()(int row, int col) {
return ConstProxy(&view.matrix, row, col);
}
inline size_t nrow() const { return view.matrix.size1; }
inline size_t ncol() const { return view.matrix.size2; }
inline size_t size() const { return view.matrix.size1 * view.matrix.size2; }
inline operator const gsltype*() { return &view.matrix; }
internal_view view;
};
}
/* forward declarations */
namespace Rcpp {
#undef _RCPPGSL_WRAPDEF
#define _RCPPGSL_WRAPDEF(__SUFFIX__) \
template<> inline SEXP wrap(const gsl_vector##__SUFFIX__&); \
template<> inline SEXP wrap(const gsl_vector##__SUFFIX__##_view&); \
template<> inline SEXP wrap(const gsl_vector##__SUFFIX__##_const_view&); \
template<> inline SEXP wrap(const gsl_matrix##__SUFFIX__&); \
template<> inline SEXP wrap(const gsl_matrix##__SUFFIX__##_view&); \
template<> inline SEXP wrap(const gsl_matrix##__SUFFIX__##_const_view&);
_RCPPGSL_WRAPDEF(_int)
_RCPPGSL_WRAPDEF(_float)
_RCPPGSL_WRAPDEF(_long)
_RCPPGSL_WRAPDEF(_char)
_RCPPGSL_WRAPDEF(_complex)
_RCPPGSL_WRAPDEF(_complex_float)
_RCPPGSL_WRAPDEF(_complex_long_double)
_RCPPGSL_WRAPDEF(_long_double)
_RCPPGSL_WRAPDEF(_short)
_RCPPGSL_WRAPDEF(_uchar)
_RCPPGSL_WRAPDEF(_uint)
_RCPPGSL_WRAPDEF(_ushort)
_RCPPGSL_WRAPDEF(_ulong)
template<> inline SEXP wrap(const gsl_vector&);
template<> inline SEXP wrap(const gsl_vector_view&);
template<> inline SEXP wrap(const gsl_vector_const_view&);
template<> inline SEXP wrap(const gsl_matrix&);
template<> inline SEXP wrap(const gsl_matrix_view&);
template<> inline SEXP wrap(const gsl_matrix_const_view&);
template inline SEXP wrap(const ::RcppGSL::vector&);
template inline SEXP wrap(const ::RcppGSL::matrix&);
template inline SEXP wrap(const ::RcppGSL::vector_view&);
template inline SEXP wrap(const ::RcppGSL::matrix_view&);
}
#endif
RcppGSL/inst/examples/ 0000755 0001762 0000144 00000000000 12774327533 014334 5 ustar ligges users RcppGSL/inst/examples/RcppGSLExample/ 0000755 0001762 0000144 00000000000 12774327533 017122 5 ustar ligges users RcppGSL/inst/examples/RcppGSLExample/R/ 0000755 0001762 0000144 00000000000 13673465130 017316 5 ustar ligges users RcppGSL/inst/examples/RcppGSLExample/R/RcppExports.R 0000644 0001762 0000144 00000000663 13673465130 021737 0 ustar ligges users # Generated by using Rcpp::compileAttributes() -> do not edit by hand
# Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
colNorm <- function(G) {
.Call('_RcppGSLExample_colNorm', PACKAGE = 'RcppGSLExample', G)
}
colNorm_old2 <- function(M) {
.Call('_RcppGSLExample_colNorm_old2', PACKAGE = 'RcppGSLExample', M)
}
colNorm_old3 <- function(G) {
.Call('_RcppGSLExample_colNorm_old3', PACKAGE = 'RcppGSLExample', G)
}
RcppGSL/inst/examples/RcppGSLExample/R/colNorm.R 0000644 0001762 0000144 00000001731 12774327533 021061 0 ustar ligges users ## colNorm.R: R wrapper to Rcpp/GSL colNorm implementation
##
## Copyright (C) 2010 Dirk Eddelbuettel and Romain Francois
##
## This file is part of RcppGSL.
##
## RcppGSL is free software: you can redistribute it and/or modify it
## under the terms of the GNU General Public License as published by
## the Free Software Foundation, either version 2 of the License, or
## (at your option) any later version.
##
## RcppGSL is distributed in the hope that it will be useful, but
## WITHOUT ANY WARRANTY; without even the implied warranty of
## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
## GNU General Public License for more details.
##
## You should have received a copy of the GNU General Public License
## along with RcppGSL. If not, see .
## old call now shadowed by auto-generated colNorm() in RcppExports.R
colNorm_old <- function(M) {
stopifnot(is.matrix(M))
res <- .Call("colNorm_old", M, package="RcppGSLExample")
}
RcppGSL/inst/examples/RcppGSLExample/src/ 0000755 0001762 0000144 00000000000 15150354302 017672 5 ustar ligges users RcppGSL/inst/examples/RcppGSLExample/src/RcppExports.cpp 0000644 0001762 0000144 00000003522 13673465130 022703 0 ustar ligges users // Generated by using Rcpp::compileAttributes() -> do not edit by hand
// Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
#include
#include
using namespace Rcpp;
// colNorm
Rcpp::NumericVector colNorm(const RcppGSL::Matrix& G);
RcppExport SEXP _RcppGSLExample_colNorm(SEXP GSEXP) {
BEGIN_RCPP
Rcpp::RObject rcpp_result_gen;
Rcpp::RNGScope rcpp_rngScope_gen;
Rcpp::traits::input_parameter< const RcppGSL::Matrix& >::type G(GSEXP);
rcpp_result_gen = Rcpp::wrap(colNorm(G));
return rcpp_result_gen;
END_RCPP
}
// colNorm_old2
Rcpp::NumericVector colNorm_old2(Rcpp::NumericMatrix M);
RcppExport SEXP _RcppGSLExample_colNorm_old2(SEXP MSEXP) {
BEGIN_RCPP
Rcpp::RObject rcpp_result_gen;
Rcpp::RNGScope rcpp_rngScope_gen;
Rcpp::traits::input_parameter< Rcpp::NumericMatrix >::type M(MSEXP);
rcpp_result_gen = Rcpp::wrap(colNorm_old2(M));
return rcpp_result_gen;
END_RCPP
}
// colNorm_old3
Rcpp::NumericVector colNorm_old3(RcppGSL::matrix G);
RcppExport SEXP _RcppGSLExample_colNorm_old3(SEXP GSEXP) {
BEGIN_RCPP
Rcpp::RObject rcpp_result_gen;
Rcpp::RNGScope rcpp_rngScope_gen;
Rcpp::traits::input_parameter< RcppGSL::matrix >::type G(GSEXP);
rcpp_result_gen = Rcpp::wrap(colNorm_old3(G));
return rcpp_result_gen;
END_RCPP
}
RcppExport SEXP colNorm_old(SEXP, SEXP);
static const R_CallMethodDef CallEntries[] = {
{"_RcppGSLExample_colNorm", (DL_FUNC) &_RcppGSLExample_colNorm, 1},
{"_RcppGSLExample_colNorm_old2", (DL_FUNC) &_RcppGSLExample_colNorm_old2, 1},
{"_RcppGSLExample_colNorm_old3", (DL_FUNC) &_RcppGSLExample_colNorm_old3, 1},
{"colNorm_old", (DL_FUNC) &colNorm_old, 2},
{NULL, NULL, 0}
};
RcppExport void R_init_RcppGSLExample(DllInfo *dll) {
R_registerRoutines(dll, NULL, CallEntries, NULL, NULL);
R_useDynamicSymbols(dll, FALSE);
}
RcppGSL/inst/examples/RcppGSLExample/src/Makevars.win 0000644 0001762 0000144 00000000230 12774327533 022174 0 ustar ligges users ## This assumes that the LIB_GSL variable points to working GSL libraries
PKG_CPPFLAGS=-I$(LIB_GSL)/include
PKG_LIBS=-L$(LIB_GSL)/lib -lgsl -lgslcblas
RcppGSL/inst/examples/RcppGSLExample/src/colNorm_old.cpp 0000644 0001762 0000144 00000005724 15150354302 022655 0 ustar ligges users
// colNorm.cpp: Rcpp and GSL based example of column norm
// adapted from `Section 8.4.13 Example programs for matrices'
// of the GSL manual
//
// Copyright (C) 2010 - 2026 Dirk Eddelbuettel and Romain Francois
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
// Just for completeness and history, this file contains some _older_
// versions of the column norm function. *You can ignore these.*
//
// Use the sibbling file colNorm.cpp as the reference implementation.
#include
#include
#include
// old initial implementation, kept for comparison
extern "C" SEXP colNorm_old(SEXP sM) {
try {
RcppGSL::matrix M = sM; // create gsl data structures from SEXP
int k = M.ncol();
Rcpp::NumericVector n(k); // to store results
for (int j = 0; j < k; j++) {
RcppGSL::vector_view colview = gsl_matrix_const_column (M, j);
n[j] = gsl_blas_dnrm2(colview);
}
M.free() ;
return n; // return vector
} catch( std::exception &ex ) {
forward_exception_to_r( ex );
} catch(...) {
(Rf_error)("c++ exception (unknown reason)");
}
return R_NilValue; // -Wall
}
// newer Attributes-based implementation
// [[Rcpp::export]]
Rcpp::NumericVector colNorm_old2(Rcpp::NumericMatrix M) {
// this conversion involves an allocation
RcppGSL::matrix G = Rcpp::as< RcppGSL::matrix >(M);
int k = G.ncol();
Rcpp::NumericVector n(k); // to store results
for (int j = 0; j < k; j++) {
RcppGSL::vector_view colview = gsl_matrix_const_column (G, j);
n[j] = gsl_blas_dnrm2(colview);
}
G.free();
return n; // return vector
}
// newer Attributes-based simplementation with reference counting
// [[Rcpp::export]]
Rcpp::NumericVector colNorm_old3(RcppGSL::matrix G) {
int k = G.ncol();
Rcpp::NumericVector n(k); // to store results
for (int j = 0; j < k; j++) {
RcppGSL::vector_view colview = gsl_matrix_column (G, j);
n[j] = gsl_blas_dnrm2(colview);
}
return n; // return vector
}
RcppGSL/inst/examples/RcppGSLExample/src/colNorm.cpp 0000644 0001762 0000144 00000003065 13673464702 022031 0 ustar ligges users
// colNorm.cpp: Rcpp and GSL based example of column norm
// adapted from `Section 8.4.13 Example programs for matrices'
// of the GSL manual
//
// Copyright (C) 2010 - 2020 Dirk Eddelbuettel and Romain Francois
//
// This file is part of RcppGSL.
//
// RcppGSL is free software: you can redistribute it and/or modify it
// under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 2 of the License, or
// (at your option) any later version.
//
// RcppGSL is distributed in the hope that it will be useful, but
// WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License
// along with RcppGSL. If not, see .
#include
#include
#include
// newest version using typedefs and const &
//
// see file colNorm_old.cpp for some older implementations if you are
// interested in comparing to those older versions, otherwise just enjoy
// this much shorter and simpler one
// [[Rcpp::export]]
Rcpp::NumericVector colNorm(const RcppGSL::Matrix & G) {
int k = G.ncol();
Rcpp::NumericVector n(k); // to store results
for (int j = 0; j < k; j++) {
RcppGSL::VectorView colview = gsl_matrix_const_column (G, j);
n[j] = gsl_blas_dnrm2(colview);
}
return n; // return vector
}
RcppGSL/inst/examples/RcppGSLExample/src/Makevars.in 0000644 0001762 0000144 00000000244 12774327533 022012 0 ustar ligges users
# set by configure
GSL_CFLAGS = @GSL_CFLAGS@
GSL_LIBS = @GSL_LIBS@
# combine with standard arguments for R
PKG_CPPFLAGS = $(GSL_CFLAGS)
PKG_LIBS = $(GSL_LIBS)
RcppGSL/inst/examples/RcppGSLExample/NAMESPACE 0000644 0001762 0000144 00000000104 12774327533 020334 0 ustar ligges users useDynLib(RcppGSLExample)
importFrom(Rcpp, evalCpp)
export(colNorm)
RcppGSL/inst/examples/RcppGSLExample/configure.ac 0000644 0001762 0000144 00000001546 12774327533 021416 0 ustar ligges users
AC_INIT([RcppGSLExample], 0.1.0)
## Use gsl-config to find arguments for compiler and linker flags
##
## Check for non-standard programs: gsl-config(1)
AC_PATH_PROG([GSL_CONFIG], [gsl-config])
## If gsl-config was found, let's use it
if test "${GSL_CONFIG}" != ""; then
# Use gsl-config for header and linker arguments (without BLAS which we get from R)
GSL_CFLAGS=`${GSL_CONFIG} --cflags`
GSL_LIBS=`${GSL_CONFIG} --libs`
else
AC_MSG_ERROR([gsl-config not found, is GSL installed?])
fi
## Use Rscript to query Rcpp for compiler and linker flags
## link flag providing libary as well as path to library, and optionally rpath
##RCPP_LDFLAGS=`${R_HOME}/bin/Rscript -e 'Rcpp:::LdFlags()'`
# Now substitute these variables in src/Makevars.in to create src/Makevars
AC_SUBST(GSL_CFLAGS)
AC_SUBST(GSL_LIBS)
##AC_SUBST(RCPP_LDFLAGS)
AC_OUTPUT(src/Makevars)
RcppGSL/inst/examples/RcppGSLExample/configure 0000755 0001762 0000144 00000246433 15152313417 021032 0 ustar ligges users #! /bin/sh
# Guess values for system-dependent variables and create Makefiles.
# Generated by GNU Autoconf 2.69 for RcppGSLExample 0.1.0.
#
#
# Copyright (C) 1992-1996, 1998-2012 Free Software Foundation, Inc.
#
#
# This configure script is free software; the Free Software Foundation
# gives unlimited permission to copy, distribute and modify it.
## -------------------- ##
## M4sh Initialization. ##
## -------------------- ##
# Be more Bourne compatible
DUALCASE=1; export DUALCASE # for MKS sh
if test -n "${ZSH_VERSION+set}" && (emulate sh) >/dev/null 2>&1; then :
emulate sh
NULLCMD=:
# Pre-4.2 versions of Zsh do word splitting on ${1+"$@"}, which
# is contrary to our usage. Disable this feature.
alias -g '${1+"$@"}'='"$@"'
setopt NO_GLOB_SUBST
else
case `(set -o) 2>/dev/null` in #(
*posix*) :
set -o posix ;; #(
*) :
;;
esac
fi
as_nl='
'
export as_nl
# Printing a long string crashes Solaris 7 /usr/bin/printf.
as_echo='\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\'
as_echo=$as_echo$as_echo$as_echo$as_echo$as_echo
as_echo=$as_echo$as_echo$as_echo$as_echo$as_echo$as_echo
# Prefer a ksh shell builtin over an external printf program on Solaris,
# but without wasting forks for bash or zsh.
if test -z "$BASH_VERSION$ZSH_VERSION" \
&& (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then
as_echo='print -r --'
as_echo_n='print -rn --'
elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then
as_echo='printf %s\n'
as_echo_n='printf %s'
else
if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then
as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"'
as_echo_n='/usr/ucb/echo -n'
else
as_echo_body='eval expr "X$1" : "X\\(.*\\)"'
as_echo_n_body='eval
arg=$1;
case $arg in #(
*"$as_nl"*)
expr "X$arg" : "X\\(.*\\)$as_nl";
arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;;
esac;
expr "X$arg" : "X\\(.*\\)" | tr -d "$as_nl"
'
export as_echo_n_body
as_echo_n='sh -c $as_echo_n_body as_echo'
fi
export as_echo_body
as_echo='sh -c $as_echo_body as_echo'
fi
# The user is always right.
if test "${PATH_SEPARATOR+set}" != set; then
PATH_SEPARATOR=:
(PATH='/bin;/bin'; FPATH=$PATH; sh -c :) >/dev/null 2>&1 && {
(PATH='/bin:/bin'; FPATH=$PATH; sh -c :) >/dev/null 2>&1 ||
PATH_SEPARATOR=';'
}
fi
# IFS
# We need space, tab and new line, in precisely that order. Quoting is
# there to prevent editors from complaining about space-tab.
# (If _AS_PATH_WALK were called with IFS unset, it would disable word
# splitting by setting IFS to empty value.)
IFS=" "" $as_nl"
# Find who we are. Look in the path if we contain no directory separator.
as_myself=
case $0 in #((
*[\\/]* ) as_myself=$0 ;;
*) as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
for as_dir in $PATH
do
IFS=$as_save_IFS
test -z "$as_dir" && as_dir=.
test -r "$as_dir/$0" && as_myself=$as_dir/$0 && break
done
IFS=$as_save_IFS
;;
esac
# We did not find ourselves, most probably we were run as `sh COMMAND'
# in which case we are not to be found in the path.
if test "x$as_myself" = x; then
as_myself=$0
fi
if test ! -f "$as_myself"; then
$as_echo "$as_myself: error: cannot find myself; rerun with an absolute file name" >&2
exit 1
fi
# Unset variables that we do not need and which cause bugs (e.g. in
# pre-3.0 UWIN ksh). But do not cause bugs in bash 2.01; the "|| exit 1"
# suppresses any "Segmentation fault" message there. '((' could
# trigger a bug in pdksh 5.2.14.
for as_var in BASH_ENV ENV MAIL MAILPATH
do eval test x\${$as_var+set} = xset \
&& ( (unset $as_var) || exit 1) >/dev/null 2>&1 && unset $as_var || :
done
PS1='$ '
PS2='> '
PS4='+ '
# NLS nuisances.
LC_ALL=C
export LC_ALL
LANGUAGE=C
export LANGUAGE
# CDPATH.
(unset CDPATH) >/dev/null 2>&1 && unset CDPATH
# Use a proper internal environment variable to ensure we don't fall
# into an infinite loop, continuously re-executing ourselves.
if test x"${_as_can_reexec}" != xno && test "x$CONFIG_SHELL" != x; then
_as_can_reexec=no; export _as_can_reexec;
# We cannot yet assume a decent shell, so we have to provide a
# neutralization value for shells without unset; and this also
# works around shells that cannot unset nonexistent variables.
# Preserve -v and -x to the replacement shell.
BASH_ENV=/dev/null
ENV=/dev/null
(unset BASH_ENV) >/dev/null 2>&1 && unset BASH_ENV ENV
case $- in # ((((
*v*x* | *x*v* ) as_opts=-vx ;;
*v* ) as_opts=-v ;;
*x* ) as_opts=-x ;;
* ) as_opts= ;;
esac
exec $CONFIG_SHELL $as_opts "$as_myself" ${1+"$@"}
# Admittedly, this is quite paranoid, since all the known shells bail
# out after a failed `exec'.
$as_echo "$0: could not re-execute with $CONFIG_SHELL" >&2
as_fn_exit 255
fi
# We don't want this to propagate to other subprocesses.
{ _as_can_reexec=; unset _as_can_reexec;}
if test "x$CONFIG_SHELL" = x; then
as_bourne_compatible="if test -n \"\${ZSH_VERSION+set}\" && (emulate sh) >/dev/null 2>&1; then :
emulate sh
NULLCMD=:
# Pre-4.2 versions of Zsh do word splitting on \${1+\"\$@\"}, which
# is contrary to our usage. Disable this feature.
alias -g '\${1+\"\$@\"}'='\"\$@\"'
setopt NO_GLOB_SUBST
else
case \`(set -o) 2>/dev/null\` in #(
*posix*) :
set -o posix ;; #(
*) :
;;
esac
fi
"
as_required="as_fn_return () { (exit \$1); }
as_fn_success () { as_fn_return 0; }
as_fn_failure () { as_fn_return 1; }
as_fn_ret_success () { return 0; }
as_fn_ret_failure () { return 1; }
exitcode=0
as_fn_success || { exitcode=1; echo as_fn_success failed.; }
as_fn_failure && { exitcode=1; echo as_fn_failure succeeded.; }
as_fn_ret_success || { exitcode=1; echo as_fn_ret_success failed.; }
as_fn_ret_failure && { exitcode=1; echo as_fn_ret_failure succeeded.; }
if ( set x; as_fn_ret_success y && test x = \"\$1\" ); then :
else
exitcode=1; echo positional parameters were not saved.
fi
test x\$exitcode = x0 || exit 1
test -x / || exit 1"
as_suggested=" as_lineno_1=";as_suggested=$as_suggested$LINENO;as_suggested=$as_suggested" as_lineno_1a=\$LINENO
as_lineno_2=";as_suggested=$as_suggested$LINENO;as_suggested=$as_suggested" as_lineno_2a=\$LINENO
eval 'test \"x\$as_lineno_1'\$as_run'\" != \"x\$as_lineno_2'\$as_run'\" &&
test \"x\`expr \$as_lineno_1'\$as_run' + 1\`\" = \"x\$as_lineno_2'\$as_run'\"' || exit 1"
if (eval "$as_required") 2>/dev/null; then :
as_have_required=yes
else
as_have_required=no
fi
if test x$as_have_required = xyes && (eval "$as_suggested") 2>/dev/null; then :
else
as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
as_found=false
for as_dir in /bin$PATH_SEPARATOR/usr/bin$PATH_SEPARATOR$PATH
do
IFS=$as_save_IFS
test -z "$as_dir" && as_dir=.
as_found=:
case $as_dir in #(
/*)
for as_base in sh bash ksh sh5; do
# Try only shells that exist, to save several forks.
as_shell=$as_dir/$as_base
if { test -f "$as_shell" || test -f "$as_shell.exe"; } &&
{ $as_echo "$as_bourne_compatible""$as_required" | as_run=a "$as_shell"; } 2>/dev/null; then :
CONFIG_SHELL=$as_shell as_have_required=yes
if { $as_echo "$as_bourne_compatible""$as_suggested" | as_run=a "$as_shell"; } 2>/dev/null; then :
break 2
fi
fi
done;;
esac
as_found=false
done
$as_found || { if { test -f "$SHELL" || test -f "$SHELL.exe"; } &&
{ $as_echo "$as_bourne_compatible""$as_required" | as_run=a "$SHELL"; } 2>/dev/null; then :
CONFIG_SHELL=$SHELL as_have_required=yes
fi; }
IFS=$as_save_IFS
if test "x$CONFIG_SHELL" != x; then :
export CONFIG_SHELL
# We cannot yet assume a decent shell, so we have to provide a
# neutralization value for shells without unset; and this also
# works around shells that cannot unset nonexistent variables.
# Preserve -v and -x to the replacement shell.
BASH_ENV=/dev/null
ENV=/dev/null
(unset BASH_ENV) >/dev/null 2>&1 && unset BASH_ENV ENV
case $- in # ((((
*v*x* | *x*v* ) as_opts=-vx ;;
*v* ) as_opts=-v ;;
*x* ) as_opts=-x ;;
* ) as_opts= ;;
esac
exec $CONFIG_SHELL $as_opts "$as_myself" ${1+"$@"}
# Admittedly, this is quite paranoid, since all the known shells bail
# out after a failed `exec'.
$as_echo "$0: could not re-execute with $CONFIG_SHELL" >&2
exit 255
fi
if test x$as_have_required = xno; then :
$as_echo "$0: This script requires a shell more modern than all"
$as_echo "$0: the shells that I found on your system."
if test x${ZSH_VERSION+set} = xset ; then
$as_echo "$0: In particular, zsh $ZSH_VERSION has bugs and should"
$as_echo "$0: be upgraded to zsh 4.3.4 or later."
else
$as_echo "$0: Please tell bug-autoconf@gnu.org about your system,
$0: including any error possibly output before this
$0: message. Then install a modern shell, or manually run
$0: the script under such a shell if you do have one."
fi
exit 1
fi
fi
fi
SHELL=${CONFIG_SHELL-/bin/sh}
export SHELL
# Unset more variables known to interfere with behavior of common tools.
CLICOLOR_FORCE= GREP_OPTIONS=
unset CLICOLOR_FORCE GREP_OPTIONS
## --------------------- ##
## M4sh Shell Functions. ##
## --------------------- ##
# as_fn_unset VAR
# ---------------
# Portably unset VAR.
as_fn_unset ()
{
{ eval $1=; unset $1;}
}
as_unset=as_fn_unset
# as_fn_set_status STATUS
# -----------------------
# Set $? to STATUS, without forking.
as_fn_set_status ()
{
return $1
} # as_fn_set_status
# as_fn_exit STATUS
# -----------------
# Exit the shell with STATUS, even in a "trap 0" or "set -e" context.
as_fn_exit ()
{
set +e
as_fn_set_status $1
exit $1
} # as_fn_exit
# as_fn_mkdir_p
# -------------
# Create "$as_dir" as a directory, including parents if necessary.
as_fn_mkdir_p ()
{
case $as_dir in #(
-*) as_dir=./$as_dir;;
esac
test -d "$as_dir" || eval $as_mkdir_p || {
as_dirs=
while :; do
case $as_dir in #(
*\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'(
*) as_qdir=$as_dir;;
esac
as_dirs="'$as_qdir' $as_dirs"
as_dir=`$as_dirname -- "$as_dir" ||
$as_expr X"$as_dir" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
X"$as_dir" : 'X\(//\)[^/]' \| \
X"$as_dir" : 'X\(//\)$' \| \
X"$as_dir" : 'X\(/\)' \| . 2>/dev/null ||
$as_echo X"$as_dir" |
sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{
s//\1/
q
}
/^X\(\/\/\)[^/].*/{
s//\1/
q
}
/^X\(\/\/\)$/{
s//\1/
q
}
/^X\(\/\).*/{
s//\1/
q
}
s/.*/./; q'`
test -d "$as_dir" && break
done
test -z "$as_dirs" || eval "mkdir $as_dirs"
} || test -d "$as_dir" || as_fn_error $? "cannot create directory $as_dir"
} # as_fn_mkdir_p
# as_fn_executable_p FILE
# -----------------------
# Test if FILE is an executable regular file.
as_fn_executable_p ()
{
test -f "$1" && test -x "$1"
} # as_fn_executable_p
# as_fn_append VAR VALUE
# ----------------------
# Append the text in VALUE to the end of the definition contained in VAR. Take
# advantage of any shell optimizations that allow amortized linear growth over
# repeated appends, instead of the typical quadratic growth present in naive
# implementations.
if (eval "as_var=1; as_var+=2; test x\$as_var = x12") 2>/dev/null; then :
eval 'as_fn_append ()
{
eval $1+=\$2
}'
else
as_fn_append ()
{
eval $1=\$$1\$2
}
fi # as_fn_append
# as_fn_arith ARG...
# ------------------
# Perform arithmetic evaluation on the ARGs, and store the result in the
# global $as_val. Take advantage of shells that can avoid forks. The arguments
# must be portable across $(()) and expr.
if (eval "test \$(( 1 + 1 )) = 2") 2>/dev/null; then :
eval 'as_fn_arith ()
{
as_val=$(( $* ))
}'
else
as_fn_arith ()
{
as_val=`expr "$@" || test $? -eq 1`
}
fi # as_fn_arith
# as_fn_error STATUS ERROR [LINENO LOG_FD]
# ----------------------------------------
# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are
# provided, also output the error to LOG_FD, referencing LINENO. Then exit the
# script with STATUS, using 1 if that was 0.
as_fn_error ()
{
as_status=$1; test $as_status -eq 0 && as_status=1
if test "$4"; then
as_lineno=${as_lineno-"$3"} as_lineno_stack=as_lineno_stack=$as_lineno_stack
$as_echo "$as_me:${as_lineno-$LINENO}: error: $2" >&$4
fi
$as_echo "$as_me: error: $2" >&2
as_fn_exit $as_status
} # as_fn_error
if expr a : '\(a\)' >/dev/null 2>&1 &&
test "X`expr 00001 : '.*\(...\)'`" = X001; then
as_expr=expr
else
as_expr=false
fi
if (basename -- /) >/dev/null 2>&1 && test "X`basename -- / 2>&1`" = "X/"; then
as_basename=basename
else
as_basename=false
fi
if (as_dir=`dirname -- /` && test "X$as_dir" = X/) >/dev/null 2>&1; then
as_dirname=dirname
else
as_dirname=false
fi
as_me=`$as_basename -- "$0" ||
$as_expr X/"$0" : '.*/\([^/][^/]*\)/*$' \| \
X"$0" : 'X\(//\)$' \| \
X"$0" : 'X\(/\)' \| . 2>/dev/null ||
$as_echo X/"$0" |
sed '/^.*\/\([^/][^/]*\)\/*$/{
s//\1/
q
}
/^X\/\(\/\/\)$/{
s//\1/
q
}
/^X\/\(\/\).*/{
s//\1/
q
}
s/.*/./; q'`
# Avoid depending upon Character Ranges.
as_cr_letters='abcdefghijklmnopqrstuvwxyz'
as_cr_LETTERS='ABCDEFGHIJKLMNOPQRSTUVWXYZ'
as_cr_Letters=$as_cr_letters$as_cr_LETTERS
as_cr_digits='0123456789'
as_cr_alnum=$as_cr_Letters$as_cr_digits
as_lineno_1=$LINENO as_lineno_1a=$LINENO
as_lineno_2=$LINENO as_lineno_2a=$LINENO
eval 'test "x$as_lineno_1'$as_run'" != "x$as_lineno_2'$as_run'" &&
test "x`expr $as_lineno_1'$as_run' + 1`" = "x$as_lineno_2'$as_run'"' || {
# Blame Lee E. McMahon (1931-1989) for sed's syntax. :-)
sed -n '
p
/[$]LINENO/=
' <$as_myself |
sed '
s/[$]LINENO.*/&-/
t lineno
b
:lineno
N
:loop
s/[$]LINENO\([^'$as_cr_alnum'_].*\n\)\(.*\)/\2\1\2/
t loop
s/-\n.*//
' >$as_me.lineno &&
chmod +x "$as_me.lineno" ||
{ $as_echo "$as_me: error: cannot create $as_me.lineno; rerun with a POSIX shell" >&2; as_fn_exit 1; }
# If we had to re-execute with $CONFIG_SHELL, we're ensured to have
# already done that, so ensure we don't try to do so again and fall
# in an infinite loop. This has already happened in practice.
_as_can_reexec=no; export _as_can_reexec
# Don't try to exec as it changes $[0], causing all sort of problems
# (the dirname of $[0] is not the place where we might find the
# original and so on. Autoconf is especially sensitive to this).
. "./$as_me.lineno"
# Exit status is that of the last command.
exit
}
ECHO_C= ECHO_N= ECHO_T=
case `echo -n x` in #(((((
-n*)
case `echo 'xy\c'` in
*c*) ECHO_T=' ';; # ECHO_T is single tab character.
xy) ECHO_C='\c';;
*) echo `echo ksh88 bug on AIX 6.1` > /dev/null
ECHO_T=' ';;
esac;;
*)
ECHO_N='-n';;
esac
rm -f conf$$ conf$$.exe conf$$.file
if test -d conf$$.dir; then
rm -f conf$$.dir/conf$$.file
else
rm -f conf$$.dir
mkdir conf$$.dir 2>/dev/null
fi
if (echo >conf$$.file) 2>/dev/null; then
if ln -s conf$$.file conf$$ 2>/dev/null; then
as_ln_s='ln -s'
# ... but there are two gotchas:
# 1) On MSYS, both `ln -s file dir' and `ln file dir' fail.
# 2) DJGPP < 2.04 has no symlinks; `ln -s' creates a wrapper executable.
# In both cases, we have to default to `cp -pR'.
ln -s conf$$.file conf$$.dir 2>/dev/null && test ! -f conf$$.exe ||
as_ln_s='cp -pR'
elif ln conf$$.file conf$$ 2>/dev/null; then
as_ln_s=ln
else
as_ln_s='cp -pR'
fi
else
as_ln_s='cp -pR'
fi
rm -f conf$$ conf$$.exe conf$$.dir/conf$$.file conf$$.file
rmdir conf$$.dir 2>/dev/null
if mkdir -p . 2>/dev/null; then
as_mkdir_p='mkdir -p "$as_dir"'
else
test -d ./-p && rmdir ./-p
as_mkdir_p=false
fi
as_test_x='test -x'
as_executable_p=as_fn_executable_p
# Sed expression to map a string onto a valid CPP name.
as_tr_cpp="eval sed 'y%*$as_cr_letters%P$as_cr_LETTERS%;s%[^_$as_cr_alnum]%_%g'"
# Sed expression to map a string onto a valid variable name.
as_tr_sh="eval sed 'y%*+%pp%;s%[^_$as_cr_alnum]%_%g'"
test -n "$DJDIR" || exec 7<&0 &1
# Name of the host.
# hostname on some systems (SVR3.2, old GNU/Linux) returns a bogus exit status,
# so uname gets run too.
ac_hostname=`(hostname || uname -n) 2>/dev/null | sed 1q`
#
# Initializations.
#
ac_default_prefix=/usr/local
ac_clean_files=
ac_config_libobj_dir=.
LIBOBJS=
cross_compiling=no
subdirs=
MFLAGS=
MAKEFLAGS=
# Identity of this package.
PACKAGE_NAME='RcppGSLExample'
PACKAGE_TARNAME='rcppgslexample'
PACKAGE_VERSION='0.1.0'
PACKAGE_STRING='RcppGSLExample 0.1.0'
PACKAGE_BUGREPORT=''
PACKAGE_URL=''
ac_subst_vars='LTLIBOBJS
LIBOBJS
GSL_LIBS
GSL_CFLAGS
GSL_CONFIG
target_alias
host_alias
build_alias
LIBS
ECHO_T
ECHO_N
ECHO_C
DEFS
mandir
localedir
libdir
psdir
pdfdir
dvidir
htmldir
infodir
docdir
oldincludedir
includedir
localstatedir
sharedstatedir
sysconfdir
datadir
datarootdir
libexecdir
sbindir
bindir
program_transform_name
prefix
exec_prefix
PACKAGE_URL
PACKAGE_BUGREPORT
PACKAGE_STRING
PACKAGE_VERSION
PACKAGE_TARNAME
PACKAGE_NAME
PATH_SEPARATOR
SHELL'
ac_subst_files=''
ac_user_opts='
enable_option_checking
'
ac_precious_vars='build_alias
host_alias
target_alias'
# Initialize some variables set by options.
ac_init_help=
ac_init_version=false
ac_unrecognized_opts=
ac_unrecognized_sep=
# The variables have the same names as the options, with
# dashes changed to underlines.
cache_file=/dev/null
exec_prefix=NONE
no_create=
no_recursion=
prefix=NONE
program_prefix=NONE
program_suffix=NONE
program_transform_name=s,x,x,
silent=
site=
srcdir=
verbose=
x_includes=NONE
x_libraries=NONE
# Installation directory options.
# These are left unexpanded so users can "make install exec_prefix=/foo"
# and all the variables that are supposed to be based on exec_prefix
# by default will actually change.
# Use braces instead of parens because sh, perl, etc. also accept them.
# (The list follows the same order as the GNU Coding Standards.)
bindir='${exec_prefix}/bin'
sbindir='${exec_prefix}/sbin'
libexecdir='${exec_prefix}/libexec'
datarootdir='${prefix}/share'
datadir='${datarootdir}'
sysconfdir='${prefix}/etc'
sharedstatedir='${prefix}/com'
localstatedir='${prefix}/var'
includedir='${prefix}/include'
oldincludedir='/usr/include'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
infodir='${datarootdir}/info'
htmldir='${docdir}'
dvidir='${docdir}'
pdfdir='${docdir}'
psdir='${docdir}'
libdir='${exec_prefix}/lib'
localedir='${datarootdir}/locale'
mandir='${datarootdir}/man'
ac_prev=
ac_dashdash=
for ac_option
do
# If the previous option needs an argument, assign it.
if test -n "$ac_prev"; then
eval $ac_prev=\$ac_option
ac_prev=
continue
fi
case $ac_option in
*=?*) ac_optarg=`expr "X$ac_option" : '[^=]*=\(.*\)'` ;;
*=) ac_optarg= ;;
*) ac_optarg=yes ;;
esac
# Accept the important Cygnus configure options, so we can diagnose typos.
case $ac_dashdash$ac_option in
--)
ac_dashdash=yes ;;
-bindir | --bindir | --bindi | --bind | --bin | --bi)
ac_prev=bindir ;;
-bindir=* | --bindir=* | --bindi=* | --bind=* | --bin=* | --bi=*)
bindir=$ac_optarg ;;
-build | --build | --buil | --bui | --bu)
ac_prev=build_alias ;;
-build=* | --build=* | --buil=* | --bui=* | --bu=*)
build_alias=$ac_optarg ;;
-cache-file | --cache-file | --cache-fil | --cache-fi \
| --cache-f | --cache- | --cache | --cach | --cac | --ca | --c)
ac_prev=cache_file ;;
-cache-file=* | --cache-file=* | --cache-fil=* | --cache-fi=* \
| --cache-f=* | --cache-=* | --cache=* | --cach=* | --cac=* | --ca=* | --c=*)
cache_file=$ac_optarg ;;
--config-cache | -C)
cache_file=config.cache ;;
-datadir | --datadir | --datadi | --datad)
ac_prev=datadir ;;
-datadir=* | --datadir=* | --datadi=* | --datad=*)
datadir=$ac_optarg ;;
-datarootdir | --datarootdir | --datarootdi | --datarootd | --dataroot \
| --dataroo | --dataro | --datar)
ac_prev=datarootdir ;;
-datarootdir=* | --datarootdir=* | --datarootdi=* | --datarootd=* \
| --dataroot=* | --dataroo=* | --dataro=* | --datar=*)
datarootdir=$ac_optarg ;;
-disable-* | --disable-*)
ac_useropt=`expr "x$ac_option" : 'x-*disable-\(.*\)'`
# Reject names that are not valid shell variable names.
expr "x$ac_useropt" : ".*[^-+._$as_cr_alnum]" >/dev/null &&
as_fn_error $? "invalid feature name: $ac_useropt"
ac_useropt_orig=$ac_useropt
ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
case $ac_user_opts in
*"
"enable_$ac_useropt"
"*) ;;
*) ac_unrecognized_opts="$ac_unrecognized_opts$ac_unrecognized_sep--disable-$ac_useropt_orig"
ac_unrecognized_sep=', ';;
esac
eval enable_$ac_useropt=no ;;
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ac_prev=docdir ;;
-docdir=* | --docdir=* | --docdi=* | --doc=* | --do=*)
docdir=$ac_optarg ;;
-dvidir | --dvidir | --dvidi | --dvid | --dvi | --dv)
ac_prev=dvidir ;;
-dvidir=* | --dvidir=* | --dvidi=* | --dvid=* | --dvi=* | --dv=*)
dvidir=$ac_optarg ;;
-enable-* | --enable-*)
ac_useropt=`expr "x$ac_option" : 'x-*enable-\([^=]*\)'`
# Reject names that are not valid shell variable names.
expr "x$ac_useropt" : ".*[^-+._$as_cr_alnum]" >/dev/null &&
as_fn_error $? "invalid feature name: $ac_useropt"
ac_useropt_orig=$ac_useropt
ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
case $ac_user_opts in
*"
"enable_$ac_useropt"
"*) ;;
*) ac_unrecognized_opts="$ac_unrecognized_opts$ac_unrecognized_sep--enable-$ac_useropt_orig"
ac_unrecognized_sep=', ';;
esac
eval enable_$ac_useropt=\$ac_optarg ;;
-exec-prefix | --exec_prefix | --exec-prefix | --exec-prefi \
| --exec-pref | --exec-pre | --exec-pr | --exec-p | --exec- \
| --exec | --exe | --ex)
ac_prev=exec_prefix ;;
-exec-prefix=* | --exec_prefix=* | --exec-prefix=* | --exec-prefi=* \
| --exec-pref=* | --exec-pre=* | --exec-pr=* | --exec-p=* | --exec-=* \
| --exec=* | --exe=* | --ex=*)
exec_prefix=$ac_optarg ;;
-gas | --gas | --ga | --g)
# Obsolete; use --with-gas.
with_gas=yes ;;
-help | --help | --hel | --he | -h)
ac_init_help=long ;;
-help=r* | --help=r* | --hel=r* | --he=r* | -hr*)
ac_init_help=recursive ;;
-help=s* | --help=s* | --hel=s* | --he=s* | -hs*)
ac_init_help=short ;;
-host | --host | --hos | --ho)
ac_prev=host_alias ;;
-host=* | --host=* | --hos=* | --ho=*)
host_alias=$ac_optarg ;;
-htmldir | --htmldir | --htmldi | --htmld | --html | --htm | --ht)
ac_prev=htmldir ;;
-htmldir=* | --htmldir=* | --htmldi=* | --htmld=* | --html=* | --htm=* \
| --ht=*)
htmldir=$ac_optarg ;;
-includedir | --includedir | --includedi | --included | --include \
| --includ | --inclu | --incl | --inc)
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\`configure' configures RcppGSLExample 0.1.0 to adapt to many kinds of systems.
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# WARNING: Use '\'' to represent an apostrophe within the trap.
# WARNING: Do not start the trap code with a newline, due to a FreeBSD 4.0 bug.
trap 'exit_status=$?
# Save into config.log some information that might help in debugging.
{
echo
$as_echo "## ---------------- ##
## Cache variables. ##
## ---------------- ##"
echo
# The following way of writing the cache mishandles newlines in values,
(
for ac_var in `(set) 2>&1 | sed -n '\''s/^\([a-zA-Z_][a-zA-Z0-9_]*\)=.*/\1/p'\''`; do
eval ac_val=\$$ac_var
case $ac_val in #(
*${as_nl}*)
case $ac_var in #(
*_cv_*) { $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: cache variable $ac_var contains a newline" >&5
$as_echo "$as_me: WARNING: cache variable $ac_var contains a newline" >&2;} ;;
esac
case $ac_var in #(
_ | IFS | as_nl) ;; #(
BASH_ARGV | BASH_SOURCE) eval $ac_var= ;; #(
*) { eval $ac_var=; unset $ac_var;} ;;
esac ;;
esac
done
(set) 2>&1 |
case $as_nl`(ac_space='\'' '\''; set) 2>&1` in #(
*${as_nl}ac_space=\ *)
sed -n \
"s/'\''/'\''\\\\'\'''\''/g;
s/^\\([_$as_cr_alnum]*_cv_[_$as_cr_alnum]*\\)=\\(.*\\)/\\1='\''\\2'\''/p"
;; #(
*)
sed -n "/^[_$as_cr_alnum]*_cv_[_$as_cr_alnum]*=/p"
;;
esac |
sort
)
echo
$as_echo "## ----------------- ##
## Output variables. ##
## ----------------- ##"
echo
for ac_var in $ac_subst_vars
do
eval ac_val=\$$ac_var
case $ac_val in
*\'\''*) ac_val=`$as_echo "$ac_val" | sed "s/'\''/'\''\\\\\\\\'\'''\''/g"`;;
esac
$as_echo "$ac_var='\''$ac_val'\''"
done | sort
echo
if test -n "$ac_subst_files"; then
$as_echo "## ------------------- ##
## File substitutions. ##
## ------------------- ##"
echo
for ac_var in $ac_subst_files
do
eval ac_val=\$$ac_var
case $ac_val in
*\'\''*) ac_val=`$as_echo "$ac_val" | sed "s/'\''/'\''\\\\\\\\'\'''\''/g"`;;
esac
$as_echo "$ac_var='\''$ac_val'\''"
done | sort
echo
fi
if test -s confdefs.h; then
$as_echo "## ----------- ##
## confdefs.h. ##
## ----------- ##"
echo
cat confdefs.h
echo
fi
test "$ac_signal" != 0 &&
$as_echo "$as_me: caught signal $ac_signal"
$as_echo "$as_me: exit $exit_status"
} >&5
rm -f core *.core core.conftest.* &&
rm -f -r conftest* confdefs* conf$$* $ac_clean_files &&
exit $exit_status
' 0
for ac_signal in 1 2 13 15; do
trap 'ac_signal='$ac_signal'; as_fn_exit 1' $ac_signal
done
ac_signal=0
# confdefs.h avoids OS command line length limits that DEFS can exceed.
rm -f -r conftest* confdefs.h
$as_echo "/* confdefs.h */" > confdefs.h
# Predefined preprocessor variables.
cat >>confdefs.h <<_ACEOF
#define PACKAGE_NAME "$PACKAGE_NAME"
_ACEOF
cat >>confdefs.h <<_ACEOF
#define PACKAGE_TARNAME "$PACKAGE_TARNAME"
_ACEOF
cat >>confdefs.h <<_ACEOF
#define PACKAGE_VERSION "$PACKAGE_VERSION"
_ACEOF
cat >>confdefs.h <<_ACEOF
#define PACKAGE_STRING "$PACKAGE_STRING"
_ACEOF
cat >>confdefs.h <<_ACEOF
#define PACKAGE_BUGREPORT "$PACKAGE_BUGREPORT"
_ACEOF
cat >>confdefs.h <<_ACEOF
#define PACKAGE_URL "$PACKAGE_URL"
_ACEOF
# Let the site file select an alternate cache file if it wants to.
# Prefer an explicitly selected file to automatically selected ones.
ac_site_file1=NONE
ac_site_file2=NONE
if test -n "$CONFIG_SITE"; then
# We do not want a PATH search for config.site.
case $CONFIG_SITE in #((
-*) ac_site_file1=./$CONFIG_SITE;;
*/*) ac_site_file1=$CONFIG_SITE;;
*) ac_site_file1=./$CONFIG_SITE;;
esac
elif test "x$prefix" != xNONE; then
ac_site_file1=$prefix/share/config.site
ac_site_file2=$prefix/etc/config.site
else
ac_site_file1=$ac_default_prefix/share/config.site
ac_site_file2=$ac_default_prefix/etc/config.site
fi
for ac_site_file in "$ac_site_file1" "$ac_site_file2"
do
test "x$ac_site_file" = xNONE && continue
if test /dev/null != "$ac_site_file" && test -r "$ac_site_file"; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: loading site script $ac_site_file" >&5
$as_echo "$as_me: loading site script $ac_site_file" >&6;}
sed 's/^/| /' "$ac_site_file" >&5
. "$ac_site_file" \
|| { { $as_echo "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
$as_echo "$as_me: error: in \`$ac_pwd':" >&2;}
as_fn_error $? "failed to load site script $ac_site_file
See \`config.log' for more details" "$LINENO" 5; }
fi
done
if test -r "$cache_file"; then
# Some versions of bash will fail to source /dev/null (special files
# actually), so we avoid doing that. DJGPP emulates it as a regular file.
if test /dev/null != "$cache_file" && test -f "$cache_file"; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: loading cache $cache_file" >&5
$as_echo "$as_me: loading cache $cache_file" >&6;}
case $cache_file in
[\\/]* | ?:[\\/]* ) . "$cache_file";;
*) . "./$cache_file";;
esac
fi
else
{ $as_echo "$as_me:${as_lineno-$LINENO}: creating cache $cache_file" >&5
$as_echo "$as_me: creating cache $cache_file" >&6;}
>$cache_file
fi
# Check that the precious variables saved in the cache have kept the same
# value.
ac_cache_corrupted=false
for ac_var in $ac_precious_vars; do
eval ac_old_set=\$ac_cv_env_${ac_var}_set
eval ac_new_set=\$ac_env_${ac_var}_set
eval ac_old_val=\$ac_cv_env_${ac_var}_value
eval ac_new_val=\$ac_env_${ac_var}_value
case $ac_old_set,$ac_new_set in
set,)
{ $as_echo "$as_me:${as_lineno-$LINENO}: error: \`$ac_var' was set to \`$ac_old_val' in the previous run" >&5
$as_echo "$as_me: error: \`$ac_var' was set to \`$ac_old_val' in the previous run" >&2;}
ac_cache_corrupted=: ;;
,set)
{ $as_echo "$as_me:${as_lineno-$LINENO}: error: \`$ac_var' was not set in the previous run" >&5
$as_echo "$as_me: error: \`$ac_var' was not set in the previous run" >&2;}
ac_cache_corrupted=: ;;
,);;
*)
if test "x$ac_old_val" != "x$ac_new_val"; then
# differences in whitespace do not lead to failure.
ac_old_val_w=`echo x $ac_old_val`
ac_new_val_w=`echo x $ac_new_val`
if test "$ac_old_val_w" != "$ac_new_val_w"; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: error: \`$ac_var' has changed since the previous run:" >&5
$as_echo "$as_me: error: \`$ac_var' has changed since the previous run:" >&2;}
ac_cache_corrupted=:
else
{ $as_echo "$as_me:${as_lineno-$LINENO}: warning: ignoring whitespace changes in \`$ac_var' since the previous run:" >&5
$as_echo "$as_me: warning: ignoring whitespace changes in \`$ac_var' since the previous run:" >&2;}
eval $ac_var=\$ac_old_val
fi
{ $as_echo "$as_me:${as_lineno-$LINENO}: former value: \`$ac_old_val'" >&5
$as_echo "$as_me: former value: \`$ac_old_val'" >&2;}
{ $as_echo "$as_me:${as_lineno-$LINENO}: current value: \`$ac_new_val'" >&5
$as_echo "$as_me: current value: \`$ac_new_val'" >&2;}
fi;;
esac
# Pass precious variables to config.status.
if test "$ac_new_set" = set; then
case $ac_new_val in
*\'*) ac_arg=$ac_var=`$as_echo "$ac_new_val" | sed "s/'/'\\\\\\\\''/g"` ;;
*) ac_arg=$ac_var=$ac_new_val ;;
esac
case " $ac_configure_args " in
*" '$ac_arg' "*) ;; # Avoid dups. Use of quotes ensures accuracy.
*) as_fn_append ac_configure_args " '$ac_arg'" ;;
esac
fi
done
if $ac_cache_corrupted; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5
$as_echo "$as_me: error: in \`$ac_pwd':" >&2;}
{ $as_echo "$as_me:${as_lineno-$LINENO}: error: changes in the environment can compromise the build" >&5
$as_echo "$as_me: error: changes in the environment can compromise the build" >&2;}
as_fn_error $? "run \`make distclean' and/or \`rm $cache_file' and start over" "$LINENO" 5
fi
## -------------------- ##
## Main body of script. ##
## -------------------- ##
ac_ext=c
ac_cpp='$CPP $CPPFLAGS'
ac_compile='$CC -c $CFLAGS $CPPFLAGS conftest.$ac_ext >&5'
ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5'
ac_compiler_gnu=$ac_cv_c_compiler_gnu
## Use gsl-config to find arguments for compiler and linker flags
##
## Check for non-standard programs: gsl-config(1)
# Extract the first word of "gsl-config", so it can be a program name with args.
set dummy gsl-config; ac_word=$2
{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5
$as_echo_n "checking for $ac_word... " >&6; }
if ${ac_cv_path_GSL_CONFIG+:} false; then :
$as_echo_n "(cached) " >&6
else
case $GSL_CONFIG in
[\\/]* | ?:[\\/]*)
ac_cv_path_GSL_CONFIG="$GSL_CONFIG" # Let the user override the test with a path.
;;
*)
as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
for as_dir in $PATH
do
IFS=$as_save_IFS
test -z "$as_dir" && as_dir=.
for ac_exec_ext in '' $ac_executable_extensions; do
if as_fn_executable_p "$as_dir/$ac_word$ac_exec_ext"; then
ac_cv_path_GSL_CONFIG="$as_dir/$ac_word$ac_exec_ext"
$as_echo "$as_me:${as_lineno-$LINENO}: found $as_dir/$ac_word$ac_exec_ext" >&5
break 2
fi
done
done
IFS=$as_save_IFS
;;
esac
fi
GSL_CONFIG=$ac_cv_path_GSL_CONFIG
if test -n "$GSL_CONFIG"; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $GSL_CONFIG" >&5
$as_echo "$GSL_CONFIG" >&6; }
else
{ $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5
$as_echo "no" >&6; }
fi
## If gsl-config was found, let's use it
if test "${GSL_CONFIG}" != ""; then
# Use gsl-config for header and linker arguments (without BLAS which we get from R)
GSL_CFLAGS=`${GSL_CONFIG} --cflags`
GSL_LIBS=`${GSL_CONFIG} --libs`
else
as_fn_error $? "gsl-config not found, is GSL installed?" "$LINENO" 5
fi
## Use Rscript to query Rcpp for compiler and linker flags
## link flag providing libary as well as path to library, and optionally rpath
##RCPP_LDFLAGS=`${R_HOME}/bin/Rscript -e 'Rcpp:::LdFlags()'`
# Now substitute these variables in src/Makevars.in to create src/Makevars
##AC_SUBST(RCPP_LDFLAGS)
ac_config_files="$ac_config_files src/Makevars"
cat >confcache <<\_ACEOF
# This file is a shell script that caches the results of configure
# tests run on this system so they can be shared between configure
# scripts and configure runs, see configure's option --config-cache.
# It is not useful on other systems. If it contains results you don't
# want to keep, you may remove or edit it.
#
# config.status only pays attention to the cache file if you give it
# the --recheck option to rerun configure.
#
# `ac_cv_env_foo' variables (set or unset) will be overridden when
# loading this file, other *unset* `ac_cv_foo' will be assigned the
# following values.
_ACEOF
# The following way of writing the cache mishandles newlines in values,
# but we know of no workaround that is simple, portable, and efficient.
# So, we kill variables containing newlines.
# Ultrix sh set writes to stderr and can't be redirected directly,
# and sets the high bit in the cache file unless we assign to the vars.
(
for ac_var in `(set) 2>&1 | sed -n 's/^\([a-zA-Z_][a-zA-Z0-9_]*\)=.*/\1/p'`; do
eval ac_val=\$$ac_var
case $ac_val in #(
*${as_nl}*)
case $ac_var in #(
*_cv_*) { $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: cache variable $ac_var contains a newline" >&5
$as_echo "$as_me: WARNING: cache variable $ac_var contains a newline" >&2;} ;;
esac
case $ac_var in #(
_ | IFS | as_nl) ;; #(
BASH_ARGV | BASH_SOURCE) eval $ac_var= ;; #(
*) { eval $ac_var=; unset $ac_var;} ;;
esac ;;
esac
done
(set) 2>&1 |
case $as_nl`(ac_space=' '; set) 2>&1` in #(
*${as_nl}ac_space=\ *)
# `set' does not quote correctly, so add quotes: double-quote
# substitution turns \\\\ into \\, and sed turns \\ into \.
sed -n \
"s/'/'\\\\''/g;
s/^\\([_$as_cr_alnum]*_cv_[_$as_cr_alnum]*\\)=\\(.*\\)/\\1='\\2'/p"
;; #(
*)
# `set' quotes correctly as required by POSIX, so do not add quotes.
sed -n "/^[_$as_cr_alnum]*_cv_[_$as_cr_alnum]*=/p"
;;
esac |
sort
) |
sed '
/^ac_cv_env_/b end
t clear
:clear
s/^\([^=]*\)=\(.*[{}].*\)$/test "${\1+set}" = set || &/
t end
s/^\([^=]*\)=\(.*\)$/\1=${\1=\2}/
:end' >>confcache
if diff "$cache_file" confcache >/dev/null 2>&1; then :; else
if test -w "$cache_file"; then
if test "x$cache_file" != "x/dev/null"; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: updating cache $cache_file" >&5
$as_echo "$as_me: updating cache $cache_file" >&6;}
if test ! -f "$cache_file" || test -h "$cache_file"; then
cat confcache >"$cache_file"
else
case $cache_file in #(
*/* | ?:*)
mv -f confcache "$cache_file"$$ &&
mv -f "$cache_file"$$ "$cache_file" ;; #(
*)
mv -f confcache "$cache_file" ;;
esac
fi
fi
else
{ $as_echo "$as_me:${as_lineno-$LINENO}: not updating unwritable cache $cache_file" >&5
$as_echo "$as_me: not updating unwritable cache $cache_file" >&6;}
fi
fi
rm -f confcache
test "x$prefix" = xNONE && prefix=$ac_default_prefix
# Let make expand exec_prefix.
test "x$exec_prefix" = xNONE && exec_prefix='${prefix}'
# Transform confdefs.h into DEFS.
# Protect against shell expansion while executing Makefile rules.
# Protect against Makefile macro expansion.
#
# If the first sed substitution is executed (which looks for macros that
# take arguments), then branch to the quote section. Otherwise,
# look for a macro that doesn't take arguments.
ac_script='
:mline
/\\$/{
N
s,\\\n,,
b mline
}
t clear
:clear
s/^[ ]*#[ ]*define[ ][ ]*\([^ (][^ (]*([^)]*)\)[ ]*\(.*\)/-D\1=\2/g
t quote
s/^[ ]*#[ ]*define[ ][ ]*\([^ ][^ ]*\)[ ]*\(.*\)/-D\1=\2/g
t quote
b any
:quote
s/[ `~#$^&*(){}\\|;'\''"<>?]/\\&/g
s/\[/\\&/g
s/\]/\\&/g
s/\$/$$/g
H
:any
${
g
s/^\n//
s/\n/ /g
p
}
'
DEFS=`sed -n "$ac_script" confdefs.h`
ac_libobjs=
ac_ltlibobjs=
U=
for ac_i in : $LIBOBJS; do test "x$ac_i" = x: && continue
# 1. Remove the extension, and $U if already installed.
ac_script='s/\$U\././;s/\.o$//;s/\.obj$//'
ac_i=`$as_echo "$ac_i" | sed "$ac_script"`
# 2. Prepend LIBOBJDIR. When used with automake>=1.10 LIBOBJDIR
# will be set to the directory where LIBOBJS objects are built.
as_fn_append ac_libobjs " \${LIBOBJDIR}$ac_i\$U.$ac_objext"
as_fn_append ac_ltlibobjs " \${LIBOBJDIR}$ac_i"'$U.lo'
done
LIBOBJS=$ac_libobjs
LTLIBOBJS=$ac_ltlibobjs
: "${CONFIG_STATUS=./config.status}"
ac_write_fail=0
ac_clean_files_save=$ac_clean_files
ac_clean_files="$ac_clean_files $CONFIG_STATUS"
{ $as_echo "$as_me:${as_lineno-$LINENO}: creating $CONFIG_STATUS" >&5
$as_echo "$as_me: creating $CONFIG_STATUS" >&6;}
as_write_fail=0
cat >$CONFIG_STATUS <<_ASEOF || as_write_fail=1
#! $SHELL
# Generated by $as_me.
# Run this file to recreate the current configuration.
# Compiler output produced by configure, useful for debugging
# configure, is in config.log if it exists.
debug=false
ac_cs_recheck=false
ac_cs_silent=false
SHELL=\${CONFIG_SHELL-$SHELL}
export SHELL
_ASEOF
cat >>$CONFIG_STATUS <<\_ASEOF || as_write_fail=1
## -------------------- ##
## M4sh Initialization. ##
## -------------------- ##
# Be more Bourne compatible
DUALCASE=1; export DUALCASE # for MKS sh
if test -n "${ZSH_VERSION+set}" && (emulate sh) >/dev/null 2>&1; then :
emulate sh
NULLCMD=:
# Pre-4.2 versions of Zsh do word splitting on ${1+"$@"}, which
# is contrary to our usage. Disable this feature.
alias -g '${1+"$@"}'='"$@"'
setopt NO_GLOB_SUBST
else
case `(set -o) 2>/dev/null` in #(
*posix*) :
set -o posix ;; #(
*) :
;;
esac
fi
as_nl='
'
export as_nl
# Printing a long string crashes Solaris 7 /usr/bin/printf.
as_echo='\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\\'
as_echo=$as_echo$as_echo$as_echo$as_echo$as_echo
as_echo=$as_echo$as_echo$as_echo$as_echo$as_echo$as_echo
# Prefer a ksh shell builtin over an external printf program on Solaris,
# but without wasting forks for bash or zsh.
if test -z "$BASH_VERSION$ZSH_VERSION" \
&& (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then
as_echo='print -r --'
as_echo_n='print -rn --'
elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then
as_echo='printf %s\n'
as_echo_n='printf %s'
else
if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then
as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"'
as_echo_n='/usr/ucb/echo -n'
else
as_echo_body='eval expr "X$1" : "X\\(.*\\)"'
as_echo_n_body='eval
arg=$1;
case $arg in #(
*"$as_nl"*)
expr "X$arg" : "X\\(.*\\)$as_nl";
arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;;
esac;
expr "X$arg" : "X\\(.*\\)" | tr -d "$as_nl"
'
export as_echo_n_body
as_echo_n='sh -c $as_echo_n_body as_echo'
fi
export as_echo_body
as_echo='sh -c $as_echo_body as_echo'
fi
# The user is always right.
if test "${PATH_SEPARATOR+set}" != set; then
PATH_SEPARATOR=:
(PATH='/bin;/bin'; FPATH=$PATH; sh -c :) >/dev/null 2>&1 && {
(PATH='/bin:/bin'; FPATH=$PATH; sh -c :) >/dev/null 2>&1 ||
PATH_SEPARATOR=';'
}
fi
# IFS
# We need space, tab and new line, in precisely that order. Quoting is
# there to prevent editors from complaining about space-tab.
# (If _AS_PATH_WALK were called with IFS unset, it would disable word
# splitting by setting IFS to empty value.)
IFS=" "" $as_nl"
# Find who we are. Look in the path if we contain no directory separator.
as_myself=
case $0 in #((
*[\\/]* ) as_myself=$0 ;;
*) as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
for as_dir in $PATH
do
IFS=$as_save_IFS
test -z "$as_dir" && as_dir=.
test -r "$as_dir/$0" && as_myself=$as_dir/$0 && break
done
IFS=$as_save_IFS
;;
esac
# We did not find ourselves, most probably we were run as `sh COMMAND'
# in which case we are not to be found in the path.
if test "x$as_myself" = x; then
as_myself=$0
fi
if test ! -f "$as_myself"; then
$as_echo "$as_myself: error: cannot find myself; rerun with an absolute file name" >&2
exit 1
fi
# Unset variables that we do not need and which cause bugs (e.g. in
# pre-3.0 UWIN ksh). But do not cause bugs in bash 2.01; the "|| exit 1"
# suppresses any "Segmentation fault" message there. '((' could
# trigger a bug in pdksh 5.2.14.
for as_var in BASH_ENV ENV MAIL MAILPATH
do eval test x\${$as_var+set} = xset \
&& ( (unset $as_var) || exit 1) >/dev/null 2>&1 && unset $as_var || :
done
PS1='$ '
PS2='> '
PS4='+ '
# NLS nuisances.
LC_ALL=C
export LC_ALL
LANGUAGE=C
export LANGUAGE
# CDPATH.
(unset CDPATH) >/dev/null 2>&1 && unset CDPATH
# as_fn_error STATUS ERROR [LINENO LOG_FD]
# ----------------------------------------
# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are
# provided, also output the error to LOG_FD, referencing LINENO. Then exit the
# script with STATUS, using 1 if that was 0.
as_fn_error ()
{
as_status=$1; test $as_status -eq 0 && as_status=1
if test "$4"; then
as_lineno=${as_lineno-"$3"} as_lineno_stack=as_lineno_stack=$as_lineno_stack
$as_echo "$as_me:${as_lineno-$LINENO}: error: $2" >&$4
fi
$as_echo "$as_me: error: $2" >&2
as_fn_exit $as_status
} # as_fn_error
# as_fn_set_status STATUS
# -----------------------
# Set $? to STATUS, without forking.
as_fn_set_status ()
{
return $1
} # as_fn_set_status
# as_fn_exit STATUS
# -----------------
# Exit the shell with STATUS, even in a "trap 0" or "set -e" context.
as_fn_exit ()
{
set +e
as_fn_set_status $1
exit $1
} # as_fn_exit
# as_fn_unset VAR
# ---------------
# Portably unset VAR.
as_fn_unset ()
{
{ eval $1=; unset $1;}
}
as_unset=as_fn_unset
# as_fn_append VAR VALUE
# ----------------------
# Append the text in VALUE to the end of the definition contained in VAR. Take
# advantage of any shell optimizations that allow amortized linear growth over
# repeated appends, instead of the typical quadratic growth present in naive
# implementations.
if (eval "as_var=1; as_var+=2; test x\$as_var = x12") 2>/dev/null; then :
eval 'as_fn_append ()
{
eval $1+=\$2
}'
else
as_fn_append ()
{
eval $1=\$$1\$2
}
fi # as_fn_append
# as_fn_arith ARG...
# ------------------
# Perform arithmetic evaluation on the ARGs, and store the result in the
# global $as_val. Take advantage of shells that can avoid forks. The arguments
# must be portable across $(()) and expr.
if (eval "test \$(( 1 + 1 )) = 2") 2>/dev/null; then :
eval 'as_fn_arith ()
{
as_val=$(( $* ))
}'
else
as_fn_arith ()
{
as_val=`expr "$@" || test $? -eq 1`
}
fi # as_fn_arith
if expr a : '\(a\)' >/dev/null 2>&1 &&
test "X`expr 00001 : '.*\(...\)'`" = X001; then
as_expr=expr
else
as_expr=false
fi
if (basename -- /) >/dev/null 2>&1 && test "X`basename -- / 2>&1`" = "X/"; then
as_basename=basename
else
as_basename=false
fi
if (as_dir=`dirname -- /` && test "X$as_dir" = X/) >/dev/null 2>&1; then
as_dirname=dirname
else
as_dirname=false
fi
as_me=`$as_basename -- "$0" ||
$as_expr X/"$0" : '.*/\([^/][^/]*\)/*$' \| \
X"$0" : 'X\(//\)$' \| \
X"$0" : 'X\(/\)' \| . 2>/dev/null ||
$as_echo X/"$0" |
sed '/^.*\/\([^/][^/]*\)\/*$/{
s//\1/
q
}
/^X\/\(\/\/\)$/{
s//\1/
q
}
/^X\/\(\/\).*/{
s//\1/
q
}
s/.*/./; q'`
# Avoid depending upon Character Ranges.
as_cr_letters='abcdefghijklmnopqrstuvwxyz'
as_cr_LETTERS='ABCDEFGHIJKLMNOPQRSTUVWXYZ'
as_cr_Letters=$as_cr_letters$as_cr_LETTERS
as_cr_digits='0123456789'
as_cr_alnum=$as_cr_Letters$as_cr_digits
ECHO_C= ECHO_N= ECHO_T=
case `echo -n x` in #(((((
-n*)
case `echo 'xy\c'` in
*c*) ECHO_T=' ';; # ECHO_T is single tab character.
xy) ECHO_C='\c';;
*) echo `echo ksh88 bug on AIX 6.1` > /dev/null
ECHO_T=' ';;
esac;;
*)
ECHO_N='-n';;
esac
rm -f conf$$ conf$$.exe conf$$.file
if test -d conf$$.dir; then
rm -f conf$$.dir/conf$$.file
else
rm -f conf$$.dir
mkdir conf$$.dir 2>/dev/null
fi
if (echo >conf$$.file) 2>/dev/null; then
if ln -s conf$$.file conf$$ 2>/dev/null; then
as_ln_s='ln -s'
# ... but there are two gotchas:
# 1) On MSYS, both `ln -s file dir' and `ln file dir' fail.
# 2) DJGPP < 2.04 has no symlinks; `ln -s' creates a wrapper executable.
# In both cases, we have to default to `cp -pR'.
ln -s conf$$.file conf$$.dir 2>/dev/null && test ! -f conf$$.exe ||
as_ln_s='cp -pR'
elif ln conf$$.file conf$$ 2>/dev/null; then
as_ln_s=ln
else
as_ln_s='cp -pR'
fi
else
as_ln_s='cp -pR'
fi
rm -f conf$$ conf$$.exe conf$$.dir/conf$$.file conf$$.file
rmdir conf$$.dir 2>/dev/null
# as_fn_mkdir_p
# -------------
# Create "$as_dir" as a directory, including parents if necessary.
as_fn_mkdir_p ()
{
case $as_dir in #(
-*) as_dir=./$as_dir;;
esac
test -d "$as_dir" || eval $as_mkdir_p || {
as_dirs=
while :; do
case $as_dir in #(
*\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'(
*) as_qdir=$as_dir;;
esac
as_dirs="'$as_qdir' $as_dirs"
as_dir=`$as_dirname -- "$as_dir" ||
$as_expr X"$as_dir" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
X"$as_dir" : 'X\(//\)[^/]' \| \
X"$as_dir" : 'X\(//\)$' \| \
X"$as_dir" : 'X\(/\)' \| . 2>/dev/null ||
$as_echo X"$as_dir" |
sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{
s//\1/
q
}
/^X\(\/\/\)[^/].*/{
s//\1/
q
}
/^X\(\/\/\)$/{
s//\1/
q
}
/^X\(\/\).*/{
s//\1/
q
}
s/.*/./; q'`
test -d "$as_dir" && break
done
test -z "$as_dirs" || eval "mkdir $as_dirs"
} || test -d "$as_dir" || as_fn_error $? "cannot create directory $as_dir"
} # as_fn_mkdir_p
if mkdir -p . 2>/dev/null; then
as_mkdir_p='mkdir -p "$as_dir"'
else
test -d ./-p && rmdir ./-p
as_mkdir_p=false
fi
# as_fn_executable_p FILE
# -----------------------
# Test if FILE is an executable regular file.
as_fn_executable_p ()
{
test -f "$1" && test -x "$1"
} # as_fn_executable_p
as_test_x='test -x'
as_executable_p=as_fn_executable_p
# Sed expression to map a string onto a valid CPP name.
as_tr_cpp="eval sed 'y%*$as_cr_letters%P$as_cr_LETTERS%;s%[^_$as_cr_alnum]%_%g'"
# Sed expression to map a string onto a valid variable name.
as_tr_sh="eval sed 'y%*+%pp%;s%[^_$as_cr_alnum]%_%g'"
exec 6>&1
## ----------------------------------- ##
## Main body of $CONFIG_STATUS script. ##
## ----------------------------------- ##
_ASEOF
test $as_write_fail = 0 && chmod +x $CONFIG_STATUS || ac_write_fail=1
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# Save the log message, to keep $0 and so on meaningful, and to
# report actual input values of CONFIG_FILES etc. instead of their
# values after options handling.
ac_log="
This file was extended by RcppGSLExample $as_me 0.1.0, which was
generated by GNU Autoconf 2.69. Invocation command line was
CONFIG_FILES = $CONFIG_FILES
CONFIG_HEADERS = $CONFIG_HEADERS
CONFIG_LINKS = $CONFIG_LINKS
CONFIG_COMMANDS = $CONFIG_COMMANDS
$ $0 $@
on `(hostname || uname -n) 2>/dev/null | sed 1q`
"
_ACEOF
case $ac_config_files in *"
"*) set x $ac_config_files; shift; ac_config_files=$*;;
esac
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
# Files that config.status was made for.
config_files="$ac_config_files"
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
ac_cs_usage="\
\`$as_me' instantiates files and other configuration actions
from templates according to the current configuration. Unless the files
and actions are specified as TAGs, all are instantiated by default.
Usage: $0 [OPTION]... [TAG]...
-h, --help print this help, then exit
-V, --version print version number and configuration settings, then exit
--config print configuration, then exit
-q, --quiet, --silent
do not print progress messages
-d, --debug don't remove temporary files
--recheck update $as_me by reconfiguring in the same conditions
--file=FILE[:TEMPLATE]
instantiate the configuration file FILE
Configuration files:
$config_files
Report bugs to the package provider."
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cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
ac_cs_version="\\
RcppGSLExample config.status 0.1.0
configured by $0, generated by GNU Autoconf 2.69,
with options \\"\$ac_cs_config\\"
Copyright (C) 2012 Free Software Foundation, Inc.
This config.status script is free software; the Free Software Foundation
gives unlimited permission to copy, distribute and modify it."
ac_pwd='$ac_pwd'
srcdir='$srcdir'
test -n "\$AWK" || AWK=awk
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# The default lists apply if the user does not specify any file.
ac_need_defaults=:
while test $# != 0
do
case $1 in
--*=?*)
ac_option=`expr "X$1" : 'X\([^=]*\)='`
ac_optarg=`expr "X$1" : 'X[^=]*=\(.*\)'`
ac_shift=:
;;
--*=)
ac_option=`expr "X$1" : 'X\([^=]*\)='`
ac_optarg=
ac_shift=:
;;
*)
ac_option=$1
ac_optarg=$2
ac_shift=shift
;;
esac
case $ac_option in
# Handling of the options.
-recheck | --recheck | --rechec | --reche | --rech | --rec | --re | --r)
ac_cs_recheck=: ;;
--version | --versio | --versi | --vers | --ver | --ve | --v | -V )
$as_echo "$ac_cs_version"; exit ;;
--config | --confi | --conf | --con | --co | --c )
$as_echo "$ac_cs_config"; exit ;;
--debug | --debu | --deb | --de | --d | -d )
debug=: ;;
--file | --fil | --fi | --f )
$ac_shift
case $ac_optarg in
*\'*) ac_optarg=`$as_echo "$ac_optarg" | sed "s/'/'\\\\\\\\''/g"` ;;
'') as_fn_error $? "missing file argument" ;;
esac
as_fn_append CONFIG_FILES " '$ac_optarg'"
ac_need_defaults=false;;
--he | --h | --help | --hel | -h )
$as_echo "$ac_cs_usage"; exit ;;
-q | -quiet | --quiet | --quie | --qui | --qu | --q \
| -silent | --silent | --silen | --sile | --sil | --si | --s)
ac_cs_silent=: ;;
# This is an error.
-*) as_fn_error $? "unrecognized option: \`$1'
Try \`$0 --help' for more information." ;;
*) as_fn_append ac_config_targets " $1"
ac_need_defaults=false ;;
esac
shift
done
ac_configure_extra_args=
if $ac_cs_silent; then
exec 6>/dev/null
ac_configure_extra_args="$ac_configure_extra_args --silent"
fi
_ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
if \$ac_cs_recheck; then
set X $SHELL '$0' $ac_configure_args \$ac_configure_extra_args --no-create --no-recursion
shift
\$as_echo "running CONFIG_SHELL=$SHELL \$*" >&6
CONFIG_SHELL='$SHELL'
export CONFIG_SHELL
exec "\$@"
fi
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
exec 5>>config.log
{
echo
sed 'h;s/./-/g;s/^.../## /;s/...$/ ##/;p;x;p;x' <<_ASBOX
## Running $as_me. ##
_ASBOX
$as_echo "$ac_log"
} >&5
_ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# Handling of arguments.
for ac_config_target in $ac_config_targets
do
case $ac_config_target in
"src/Makevars") CONFIG_FILES="$CONFIG_FILES src/Makevars" ;;
*) as_fn_error $? "invalid argument: \`$ac_config_target'" "$LINENO" 5;;
esac
done
# If the user did not use the arguments to specify the items to instantiate,
# then the envvar interface is used. Set only those that are not.
# We use the long form for the default assignment because of an extremely
# bizarre bug on SunOS 4.1.3.
if $ac_need_defaults; then
test "${CONFIG_FILES+set}" = set || CONFIG_FILES=$config_files
fi
# Have a temporary directory for convenience. Make it in the build tree
# simply because there is no reason against having it here, and in addition,
# creating and moving files from /tmp can sometimes cause problems.
# Hook for its removal unless debugging.
# Note that there is a small window in which the directory will not be cleaned:
# after its creation but before its name has been assigned to `$tmp'.
$debug ||
{
tmp= ac_tmp=
trap 'exit_status=$?
: "${ac_tmp:=$tmp}"
{ test ! -d "$ac_tmp" || rm -fr "$ac_tmp"; } && exit $exit_status
' 0
trap 'as_fn_exit 1' 1 2 13 15
}
# Create a (secure) tmp directory for tmp files.
{
tmp=`(umask 077 && mktemp -d "./confXXXXXX") 2>/dev/null` &&
test -d "$tmp"
} ||
{
tmp=./conf$$-$RANDOM
(umask 077 && mkdir "$tmp")
} || as_fn_error $? "cannot create a temporary directory in ." "$LINENO" 5
ac_tmp=$tmp
# Set up the scripts for CONFIG_FILES section.
# No need to generate them if there are no CONFIG_FILES.
# This happens for instance with `./config.status config.h'.
if test -n "$CONFIG_FILES"; then
ac_cr=`echo X | tr X '\015'`
# On cygwin, bash can eat \r inside `` if the user requested igncr.
# But we know of no other shell where ac_cr would be empty at this
# point, so we can use a bashism as a fallback.
if test "x$ac_cr" = x; then
eval ac_cr=\$\'\\r\'
fi
ac_cs_awk_cr=`$AWK 'BEGIN { print "a\rb" }' /dev/null`
if test "$ac_cs_awk_cr" = "a${ac_cr}b"; then
ac_cs_awk_cr='\\r'
else
ac_cs_awk_cr=$ac_cr
fi
echo 'BEGIN {' >"$ac_tmp/subs1.awk" &&
_ACEOF
{
echo "cat >conf$$subs.awk <<_ACEOF" &&
echo "$ac_subst_vars" | sed 's/.*/&!$&$ac_delim/' &&
echo "_ACEOF"
} >conf$$subs.sh ||
as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5
ac_delim_num=`echo "$ac_subst_vars" | grep -c '^'`
ac_delim='%!_!# '
for ac_last_try in false false false false false :; do
. ./conf$$subs.sh ||
as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5
ac_delim_n=`sed -n "s/.*$ac_delim\$/X/p" conf$$subs.awk | grep -c X`
if test $ac_delim_n = $ac_delim_num; then
break
elif $ac_last_try; then
as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5
else
ac_delim="$ac_delim!$ac_delim _$ac_delim!! "
fi
done
rm -f conf$$subs.sh
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
cat >>"\$ac_tmp/subs1.awk" <<\\_ACAWK &&
_ACEOF
sed -n '
h
s/^/S["/; s/!.*/"]=/
p
g
s/^[^!]*!//
:repl
t repl
s/'"$ac_delim"'$//
t delim
:nl
h
s/\(.\{148\}\)..*/\1/
t more1
s/["\\]/\\&/g; s/^/"/; s/$/\\n"\\/
p
n
b repl
:more1
s/["\\]/\\&/g; s/^/"/; s/$/"\\/
p
g
s/.\{148\}//
t nl
:delim
h
s/\(.\{148\}\)..*/\1/
t more2
s/["\\]/\\&/g; s/^/"/; s/$/"/
p
b
:more2
s/["\\]/\\&/g; s/^/"/; s/$/"\\/
p
g
s/.\{148\}//
t delim
' >$CONFIG_STATUS || ac_write_fail=1
rm -f conf$$subs.awk
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
_ACAWK
cat >>"\$ac_tmp/subs1.awk" <<_ACAWK &&
for (key in S) S_is_set[key] = 1
FS = ""
}
{
line = $ 0
nfields = split(line, field, "@")
substed = 0
len = length(field[1])
for (i = 2; i < nfields; i++) {
key = field[i]
keylen = length(key)
if (S_is_set[key]) {
value = S[key]
line = substr(line, 1, len) "" value "" substr(line, len + keylen + 3)
len += length(value) + length(field[++i])
substed = 1
} else
len += 1 + keylen
}
print line
}
_ACAWK
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
if sed "s/$ac_cr//" < /dev/null > /dev/null 2>&1; then
sed "s/$ac_cr\$//; s/$ac_cr/$ac_cs_awk_cr/g"
else
cat
fi < "$ac_tmp/subs1.awk" > "$ac_tmp/subs.awk" \
|| as_fn_error $? "could not setup config files machinery" "$LINENO" 5
_ACEOF
# VPATH may cause trouble with some makes, so we remove sole $(srcdir),
# ${srcdir} and @srcdir@ entries from VPATH if srcdir is ".", strip leading and
# trailing colons and then remove the whole line if VPATH becomes empty
# (actually we leave an empty line to preserve line numbers).
if test "x$srcdir" = x.; then
ac_vpsub='/^[ ]*VPATH[ ]*=[ ]*/{
h
s///
s/^/:/
s/[ ]*$/:/
s/:\$(srcdir):/:/g
s/:\${srcdir}:/:/g
s/:@srcdir@:/:/g
s/^:*//
s/:*$//
x
s/\(=[ ]*\).*/\1/
G
s/\n//
s/^[^=]*=[ ]*$//
}'
fi
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
fi # test -n "$CONFIG_FILES"
eval set X " :F $CONFIG_FILES "
shift
for ac_tag
do
case $ac_tag in
:[FHLC]) ac_mode=$ac_tag; continue;;
esac
case $ac_mode$ac_tag in
:[FHL]*:*);;
:L* | :C*:*) as_fn_error $? "invalid tag \`$ac_tag'" "$LINENO" 5;;
:[FH]-) ac_tag=-:-;;
:[FH]*) ac_tag=$ac_tag:$ac_tag.in;;
esac
ac_save_IFS=$IFS
IFS=:
set x $ac_tag
IFS=$ac_save_IFS
shift
ac_file=$1
shift
case $ac_mode in
:L) ac_source=$1;;
:[FH])
ac_file_inputs=
for ac_f
do
case $ac_f in
-) ac_f="$ac_tmp/stdin";;
*) # Look for the file first in the build tree, then in the source tree
# (if the path is not absolute). The absolute path cannot be DOS-style,
# because $ac_f cannot contain `:'.
test -f "$ac_f" ||
case $ac_f in
[\\/$]*) false;;
*) test -f "$srcdir/$ac_f" && ac_f="$srcdir/$ac_f";;
esac ||
as_fn_error 1 "cannot find input file: \`$ac_f'" "$LINENO" 5;;
esac
case $ac_f in *\'*) ac_f=`$as_echo "$ac_f" | sed "s/'/'\\\\\\\\''/g"`;; esac
as_fn_append ac_file_inputs " '$ac_f'"
done
# Let's still pretend it is `configure' which instantiates (i.e., don't
# use $as_me), people would be surprised to read:
# /* config.h. Generated by config.status. */
configure_input='Generated from '`
$as_echo "$*" | sed 's|^[^:]*/||;s|:[^:]*/|, |g'
`' by configure.'
if test x"$ac_file" != x-; then
configure_input="$ac_file. $configure_input"
{ $as_echo "$as_me:${as_lineno-$LINENO}: creating $ac_file" >&5
$as_echo "$as_me: creating $ac_file" >&6;}
fi
# Neutralize special characters interpreted by sed in replacement strings.
case $configure_input in #(
*\&* | *\|* | *\\* )
ac_sed_conf_input=`$as_echo "$configure_input" |
sed 's/[\\\\&|]/\\\\&/g'`;; #(
*) ac_sed_conf_input=$configure_input;;
esac
case $ac_tag in
*:-:* | *:-) cat >"$ac_tmp/stdin" \
|| as_fn_error $? "could not create $ac_file" "$LINENO" 5 ;;
esac
;;
esac
ac_dir=`$as_dirname -- "$ac_file" ||
$as_expr X"$ac_file" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
X"$ac_file" : 'X\(//\)[^/]' \| \
X"$ac_file" : 'X\(//\)$' \| \
X"$ac_file" : 'X\(/\)' \| . 2>/dev/null ||
$as_echo X"$ac_file" |
sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{
s//\1/
q
}
/^X\(\/\/\)[^/].*/{
s//\1/
q
}
/^X\(\/\/\)$/{
s//\1/
q
}
/^X\(\/\).*/{
s//\1/
q
}
s/.*/./; q'`
as_dir="$ac_dir"; as_fn_mkdir_p
ac_builddir=.
case "$ac_dir" in
.) ac_dir_suffix= ac_top_builddir_sub=. ac_top_build_prefix= ;;
*)
ac_dir_suffix=/`$as_echo "$ac_dir" | sed 's|^\.[\\/]||'`
# A ".." for each directory in $ac_dir_suffix.
ac_top_builddir_sub=`$as_echo "$ac_dir_suffix" | sed 's|/[^\\/]*|/..|g;s|/||'`
case $ac_top_builddir_sub in
"") ac_top_builddir_sub=. ac_top_build_prefix= ;;
*) ac_top_build_prefix=$ac_top_builddir_sub/ ;;
esac ;;
esac
ac_abs_top_builddir=$ac_pwd
ac_abs_builddir=$ac_pwd$ac_dir_suffix
# for backward compatibility:
ac_top_builddir=$ac_top_build_prefix
case $srcdir in
.) # We are building in place.
ac_srcdir=.
ac_top_srcdir=$ac_top_builddir_sub
ac_abs_top_srcdir=$ac_pwd ;;
[\\/]* | ?:[\\/]* ) # Absolute name.
ac_srcdir=$srcdir$ac_dir_suffix;
ac_top_srcdir=$srcdir
ac_abs_top_srcdir=$srcdir ;;
*) # Relative name.
ac_srcdir=$ac_top_build_prefix$srcdir$ac_dir_suffix
ac_top_srcdir=$ac_top_build_prefix$srcdir
ac_abs_top_srcdir=$ac_pwd/$srcdir ;;
esac
ac_abs_srcdir=$ac_abs_top_srcdir$ac_dir_suffix
case $ac_mode in
:F)
#
# CONFIG_FILE
#
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# If the template does not know about datarootdir, expand it.
# FIXME: This hack should be removed a few years after 2.60.
ac_datarootdir_hack=; ac_datarootdir_seen=
ac_sed_dataroot='
/datarootdir/ {
p
q
}
/@datadir@/p
/@docdir@/p
/@infodir@/p
/@localedir@/p
/@mandir@/p'
case `eval "sed -n \"\$ac_sed_dataroot\" $ac_file_inputs"` in
*datarootdir*) ac_datarootdir_seen=yes;;
*@datadir@*|*@docdir@*|*@infodir@*|*@localedir@*|*@mandir@*)
{ $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: $ac_file_inputs seems to ignore the --datarootdir setting" >&5
$as_echo "$as_me: WARNING: $ac_file_inputs seems to ignore the --datarootdir setting" >&2;}
_ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_datarootdir_hack='
s&@datadir@&$datadir&g
s&@docdir@&$docdir&g
s&@infodir@&$infodir&g
s&@localedir@&$localedir&g
s&@mandir@&$mandir&g
s&\\\${datarootdir}&$datarootdir&g' ;;
esac
_ACEOF
# Neutralize VPATH when `$srcdir' = `.'.
# Shell code in configure.ac might set extrasub.
# FIXME: do we really want to maintain this feature?
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_sed_extra="$ac_vpsub
$extrasub
_ACEOF
cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
:t
/@[a-zA-Z_][a-zA-Z_0-9]*@/!b
s|@configure_input@|$ac_sed_conf_input|;t t
s&@top_builddir@&$ac_top_builddir_sub&;t t
s&@top_build_prefix@&$ac_top_build_prefix&;t t
s&@srcdir@&$ac_srcdir&;t t
s&@abs_srcdir@&$ac_abs_srcdir&;t t
s&@top_srcdir@&$ac_top_srcdir&;t t
s&@abs_top_srcdir@&$ac_abs_top_srcdir&;t t
s&@builddir@&$ac_builddir&;t t
s&@abs_builddir@&$ac_abs_builddir&;t t
s&@abs_top_builddir@&$ac_abs_top_builddir&;t t
$ac_datarootdir_hack
"
eval sed \"\$ac_sed_extra\" "$ac_file_inputs" | $AWK -f "$ac_tmp/subs.awk" \
>$ac_tmp/out || as_fn_error $? "could not create $ac_file" "$LINENO" 5
test -z "$ac_datarootdir_hack$ac_datarootdir_seen" &&
{ ac_out=`sed -n '/\${datarootdir}/p' "$ac_tmp/out"`; test -n "$ac_out"; } &&
{ ac_out=`sed -n '/^[ ]*datarootdir[ ]*:*=/p' \
"$ac_tmp/out"`; test -z "$ac_out"; } &&
{ $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: $ac_file contains a reference to the variable \`datarootdir'
which seems to be undefined. Please make sure it is defined" >&5
$as_echo "$as_me: WARNING: $ac_file contains a reference to the variable \`datarootdir'
which seems to be undefined. Please make sure it is defined" >&2;}
rm -f "$ac_tmp/stdin"
case $ac_file in
-) cat "$ac_tmp/out" && rm -f "$ac_tmp/out";;
*) rm -f "$ac_file" && mv "$ac_tmp/out" "$ac_file";;
esac \
|| as_fn_error $? "could not create $ac_file" "$LINENO" 5
;;
esac
done # for ac_tag
as_fn_exit 0
_ACEOF
ac_clean_files=$ac_clean_files_save
test $ac_write_fail = 0 ||
as_fn_error $? "write failure creating $CONFIG_STATUS" "$LINENO" 5
# configure is writing to config.log, and then calls config.status.
# config.status does its own redirection, appending to config.log.
# Unfortunately, on DOS this fails, as config.log is still kept open
# by configure, so config.status won't be able to write to it; its
# output is simply discarded. So we exec the FD to /dev/null,
# effectively closing config.log, so it can be properly (re)opened and
# appended to by config.status. When coming back to configure, we
# need to make the FD available again.
if test "$no_create" != yes; then
ac_cs_success=:
ac_config_status_args=
test "$silent" = yes &&
ac_config_status_args="$ac_config_status_args --quiet"
exec 5>/dev/null
$SHELL $CONFIG_STATUS $ac_config_status_args || ac_cs_success=false
exec 5>>config.log
# Use ||, not &&, to avoid exiting from the if with $? = 1, which
# would make configure fail if this is the last instruction.
$ac_cs_success || as_fn_exit 1
fi
if test -n "$ac_unrecognized_opts" && test "$enable_option_checking" != no; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: WARNING: unrecognized options: $ac_unrecognized_opts" >&5
$as_echo "$as_me: WARNING: unrecognized options: $ac_unrecognized_opts" >&2;}
fi
RcppGSL/inst/examples/RcppGSLExample/man/ 0000755 0001762 0000144 00000000000 12774327533 017675 5 ustar ligges users RcppGSL/inst/examples/RcppGSLExample/man/colNorm.Rd 0000644 0001762 0000144 00000002147 13673461362 021577 0 ustar ligges users \name{colNorm}
\alias{colNorm}
\title{Column norm of a matrix}
\description{
\code{colNorm} provides a column norm of a matrix to provide an
example of using \pkg{RcppGSL} with \code{GNU GSL} library.
}
\usage{
colNorm(G)
}
\arguments{
\item{G}{a numeric matrix.}
}
\details{
The column norm of \code{G} is returned.
This example reprises an example in section 8.4.13 of the GSL
reference manual.
}
\value{
\code{colNorm} returns a vector each element of which corresponds to
the vector norm of the corresponding column of \code{M}.
}
\references{GNU GSL project: \url{http://www.gnu.org/software/gsl}}
\author{
The GNU GSL library is being written by team of authors with the
overall development, design and implementation lead by Brian Gough and
Gerard Jungman. RcppGSL is written by Romain Francois and Dirk Eddelbuettel.
}
\examples{
## see Section 8.4.13 of the GSL manual
## create M as a sum of two outer products
M <- outer(sin(0:9), rep(1,10), "*") + outer(rep(1, 10), cos(0:9), "*")
print(colNorm(M))
## same result using just R
print(apply(M, 2, function(x) sqrt(sum(x^2))))
}
RcppGSL/inst/examples/RcppGSLExample/DESCRIPTION 0000644 0001762 0000144 00000000712 12774327533 020630 0 ustar ligges users Package: RcppGSLExample
Title: A Really Simple Example of Using RcppGSL in a Package
Version: 0.0.3
Date: 2014-06-26
Author: Dirk Eddelbuettel and Romain Francois
Maintainer: Dirk Eddelbuettel
Description: A complete examples for Seamless R, C++ and GSL integration in
an R package is provided.
Depends: R (>= 2.11.0)
Imports: Rcpp (>= 0.11.0)
LinkingTo: Rcpp, RcppGSL
URL: http://dirk.eddelbuettel.com/code/rcpp.html
License: GPL (>= 2)
RcppGSL/inst/examples/bSpline/ 0000755 0001762 0000144 00000000000 12774327533 015730 5 ustar ligges users RcppGSL/inst/examples/bSpline/bSpline.R 0000644 0001762 0000144 00000002175 12774327533 017454 0 ustar ligges users
## This example illustrated use of RcppGSL using the 'Rcpp attributes' feature
##
## The example comes from Section 39.7 of the GSL Reference manual, and constructs
## a data set from the curve y(x) = \cos(x) \exp(-x/10) on the interval [0, 15] with
## added Gaussian noise --- which is then fit via linear least squares using a cubic
## B-spline basis functions with uniform breakpoints.
##
## Obviously all this could be done in R too as R can both generate data, and fit
## models including (B-)splines. But the point to be made here is that we can very
## easily translate a given GSL program (thanks to RcppGSL), and get it into R with
## ease thanks to Rcpp and Rcpp attributes.
require(Rcpp) # load Rcpp
sourceCpp("bSpline.cpp") # compile two functions
dat <- genData() # generate the data
fit <- fitData(dat) # fit the model, returns matrix and gof measures
X <- fit[["X"]] # extract vectors
Y <- fit[["Y"]]
op <- par(mar=c(3,3,1,1))
plot(dat[,"x"], dat[,"y"], pch=19, col="#00000044")
lines(X, Y, col="orange", lwd=2)
par(op)
RcppGSL/inst/examples/bSpline/bSpline.cpp 0000644 0001762 0000144 00000006620 12774327533 020034 0 ustar ligges users // -*- mode: C++; c-indent-level: 4; c-basic-offset: 4; indent-tabs-mode: nil; -*-
// [[Rcpp::depends(RcppGSL)]]
#include
#include
#include
#include
#include
#include
const int N = 200; // number of data points to fit
const int NCOEFFS = 12; // number of fit coefficients */
const int NBREAK = (NCOEFFS - 2); // ncoeffs + 2 - k = ncoeffs - 2 as k = 4 */
// [[Rcpp::export]]
Rcpp::List genData() {
const size_t n = N;
size_t i;
RcppGSL::Vector w(n), x(n), y(n);
gsl_rng_env_setup();
gsl_rng *r = gsl_rng_alloc(gsl_rng_default);
//printf("#m=0,S=0\n");
for (i = 0; i < n; ++i) { /* this is the data to be fitted */
double xi = (15.0 / (N - 1)) * i;
double yi = cos(xi) * exp(-0.1 * xi);
double sigma = 0.1 * yi;
double dy = gsl_ran_gaussian(r, sigma);
yi += dy;
x[i] = xi; // instead of gsl_vector_set(x, i, xi);
y[i] = yi; // instead of gsl_vector_set(y, i, yi);
w[i] = 1.0 / (sigma * sigma); // gsl_vector_set(w, i, 1.0 / (sigma * sigma));
//printf("%f %f\n", xi, yi);
}
gsl_rng_free(r);
return Rcpp::DataFrame::create(Rcpp::Named("x") = x,
Rcpp::Named("y") = y,
Rcpp::Named("w") = w);
}
// [[Rcpp::export]]
Rcpp::List fitData(Rcpp::DataFrame D) {
const size_t ncoeffs = NCOEFFS;
const size_t nbreak = NBREAK;
const size_t n = N;
size_t i, j;
RcppGSL::Vector y = D["y"]; // access columns by name,
RcppGSL::Vector x = D["x"]; // assigning to GSL vectors
RcppGSL::Vector w = D["w"];
gsl_bspline_workspace *bw;
RcppGSL::Vector B(ncoeffs);
RcppGSL::Vector c(ncoeffs);
RcppGSL::Matrix X(n, ncoeffs);
RcppGSL::Matrix cov(ncoeffs, ncoeffs);
gsl_multifit_linear_workspace *mw;
double chisq, Rsq, dof, tss;
bw = gsl_bspline_alloc(4, nbreak); // allocate a cubic bspline workspace (k = 4)
mw = gsl_multifit_linear_alloc(n, ncoeffs);
gsl_bspline_knots_uniform(0.0, 15.0, bw); // use uniform breakpoints on [0, 15]
for (i = 0; i < n; ++i) { // construct the fit matrix X
double xi = x[i]; // gsl_vector_get(x, i);
gsl_bspline_eval(xi, B, bw); // compute B_j(xi) for all j
for (j = 0; j < ncoeffs; ++j) { // fill in row i of X
double Bj = B[j]; // gsl_vector_get(B, j);
X(i,j) = Bj; // gsl_matrix_set(X, i, j, Bj);
}
}
gsl_multifit_wlinear(X, w, y, c, cov, &chisq, mw); // do the fit
dof = n - ncoeffs;
tss = gsl_stats_wtss(w->data, 1, y->data, 1, y->size);
Rsq = 1.0 - chisq / tss;
Rcpp::NumericVector FX(151), FY(151); // output the smoothed curve
double xi, yi, yerr;
for (xi = 0.0, i=0; xi < 15.0; xi += 0.1, i++) {
gsl_bspline_eval(xi, B, bw);
gsl_multifit_linear_est(B, c, cov, &yi, &yerr);
FX[i] = xi;
FY[i] = yi;
}
gsl_bspline_free(bw);
gsl_multifit_linear_free(mw);
return Rcpp::List::create(Rcpp::Named("X") = FX,
Rcpp::Named("Y") = FY,
Rcpp::Named("chisqdof") = Rcpp::wrap(chisq/dof),
Rcpp::Named("rsq") = Rcpp::wrap(Rsq));
}
RcppGSL/inst/doc/ 0000755 0001762 0000144 00000000000 15152313416 013247 5 ustar ligges users RcppGSL/inst/doc/RcppGSL-introduction.pdf 0000644 0001762 0000144 00001050202 15152313416 017733 0 ustar ligges users %PDF-1.7
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