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#' Compiler arguments for using Rhdf5lib
#'
#' This function returns values for \code{PKG_LIBS} variables for use in
#' Makevars files.
#'
#' @param opt A scalar character from the list of available options;
#' default is \code{PKG_CXX_LIBS}. Valid options are \code{PKG_C_LIBS},
#' \code{PKG_CXX_LIBS}, \code{PKG_C_HL_LIBS} and \code{PKG_CXX_HL_LIBS}, where
#' \code{HL} indicates that you want to include the HDF5 'high-level' API and
#' \code{CXX} denotes including the C++ interface.
#' @return \code{NULL}; prints the corresponding value to stdout.
#' @examples
#' pkgconfig("PKG_C_LIBS")
#' pkgconfig("PKG_CXX_LIBS")
#' pkgconfig("PKG_C_HL_LIBS")
#' pkgconfig("PKG_CXX_HL_LIBS")
#' @export
#' @rawNamespace if(tools:::.OStype() == "windows") { importFrom(utils, shortPathName) }
pkgconfig <- function(opt = c("PKG_CXX_LIBS", "PKG_C_LIBS", "PKG_CXX_HL_LIBS", "PKG_C_HL_LIBS")) {
path <- Sys.getenv(
x = "RHDF5LIB_RPATH",
unset = system.file("libs", package="Rhdf5lib", mustWork=TRUE)
)
if (nzchar(.Platform$r_arch)) {
arch <- sprintf("/%s", .Platform$r_arch)
} else {
arch <- ""
}
patharch <- paste0(path, arch)
sysname <- Sys.info()['sysname']
if(sysname == "Windows") {
## add "-ucrt" to the library directory if needed
## this might be removed in the future - 2021-01-20
if(!is.null(R.version$crt) && R.version$crt == "ucrt" && R.version$arch == "x86_64") {
patharch <- paste0(patharch, "-ucrt")
}
## for some reason double quotes aren't always sufficient on Windows
## so we use the 8+3 form of the path and replace slashes
patharch <- gsub(x = utils::shortPathName(patharch),
pattern = "\\",
replacement = "/",
fixed = TRUE)
winlibs <- "-lcurl -lssh2 -lssl -lcrypto -lwldap32 -lws2_32 -lcrypt32 -lszip -lz -lpsapi"
if(!is.null(R.version$crt) && R.version$crt == "ucrt") {
winlibs <- gsub(pattern = "-lszip", replacement = "-lsz -laec", x = winlibs, fixed = TRUE)
}
}
multiarch <- system('dpkg-architecture -qDEB_HOST_MULTIARCH', intern=TRUE)
result <- switch(match.arg(opt),
PKG_C_LIBS = {
switch(sysname,
Windows = {
sprintf('-L%s -lhdf5 %s',
patharch, winlibs)
}, {
sprintf('"/usr/lib/%s/hdf5/serial/libhdf5.a"%s%s',
multiarch, .getSzipLoc(patharch), .getDynamicLinks())
}
)
},
PKG_CXX_LIBS = {
switch(sysname,
Windows = {
sprintf('-L%s -lhdf5_cpp -lhdf5 %s',
patharch, winlibs)
}, {
sprintf('"/usr/lib/%s/hdf5/serial/libhdf5_cpp.a" "/usr/lib/%s/hdf5/serial/libhdf5.a"%s%s',
multiarch, multiarch, .getSzipLoc(patharch), .getDynamicLinks())
}
)
},
PKG_C_HL_LIBS = {
switch(sysname,
Windows = {
sprintf('-L%s -lhdf5_hl -lhdf5 %s',
patharch, winlibs)
}, {
sprintf('"/usr/lib/%s/hdf5/serial/libhdf5_hl.a" "/usr/lib/%s/hdf5/serial/libhdf5.a"%s%s',
multiarch, multiarch, .getSzipLoc(patharch), .getDynamicLinks())
}
)
},
PKG_CXX_HL_LIBS = {
switch(sysname,
Windows = {
sprintf('-L%s -lhdf5_hl_cpp -lhdf5_hl -lhdf5_cpp -lhdf5 %s',
patharch, winlibs)
}, {
sprintf('"/usr/lib/%s/hdf5/serial/libhdf5_hl_cpp.a" "/usr/lib/%s/hdf5/serial/libhdf5_hl.a" "/usr/lib/%s/hdf5/serial/libhdf5_cpp.a" "/usr/lib/%s/hdf5/serial/libhdf5.a"%s%s',
multiarch, multiarch, multiarch, multiarch, .getSzipLoc(patharch), .getDynamicLinks())
}
)
}
)
cat(result)
}
#' Report the version of HDF5 distributed with this package
#'
#' This function returns the version number of the HDF5 library that is
#' distributed with this package.
#'
#' @return Returns a \code{character} vector of length 1 containing the version
#' number.
#'
#' @examples
#' getHdf5Version()
#' @export
getHdf5Version <- function() {
cReturn <- .Call("Rhdf5lib_hdf5_libversion",
PACKAGE = "Rhdf5lib")
versionNum <- paste(cReturn, collapse = ".")
return(versionNum)
}
#' Return the link flags determined when HDF5 was configured
#'
#' @keywords internal
.getDynamicLinks <- function() {
sysname <- Sys.info()['sysname']
if(sysname == "Windows") {
links <- "-lz"
} else {
# It has been built with the args given in libhdf5.settings as in the original package
multiarch <- system('dpkg-architecture -qDEB_HOST_MULTIARCH', intern=TRUE)
settings_file <- file.path('/usr/lib', multiarch, 'hdf5/serial/libhdf5.settings')
libhdf5_settings <- readLines(settings_file)
line <- grep("Extra libraries", x = libhdf5_settings)
links <- strsplit(libhdf5_settings[line], split = ":")[[1]][2]
}
return(links)
}
#' If we compiled our own version of SZIP this returns the link path
#' Otherwise it returns an empty string.
#'
#' @keywords internal
.getSzipLoc <- function(path) {
status <- file.exists(file.path(path, "libsz.a"))
if(isTRUE(status)) {
ldflags <- sprintf(' -L"%s"', path)
} else {
ldflags <- ""
}
return(ldflags)
}
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