similar to: Compiling R projects with multiple external libraries

hi all - i have a source package i'm writing that i'd like to be able to install with a special library that my R src files rely on. to be more precise, i have a normal R package directory structure (i.e. src/ R/ man/ DESCRIPTION NAMESPACE etc.). i also have another directory here called depPkg, and it has it's own configure file for the canonical './configure && make

Hi all, The dict package provides a dictionary (hashtable) data structure much like R's built-in environment objects, but with the following differences: - The Dict class can be subclassed. - Four different hashing functions are implemented and the user can specify which to use when creating an instance. I'm sending this here as opposed to R-packages because this package will

hi all, i posted a question before about this, but i may have been too cryptic to understand. in short, there exists an R package that someone is writing. this package depends on a custom library (written in C,), compiled as a shared, and called by the package's functions via the .Call(...) method. we are testing out different code implementations of the compiled library functions, and thus

I think Rscript has a problem running files that have mac encodings for newline (^M rather than ^J on linux). If I source the file within R, it works okay: > source('j.R') [1] "MEA_data/sernagor_new/CRX_P7_1.txt" But if I run the file using Rscript on a linux box I get a strange error message: $ Rscript --vanilla j.R " Execution halted The example script j.R is at

Is it safe to call setGeneric twice, assuming some setMethod's for the target function occur in between? By "safe" I mean that all the setMethod's remain in effect, and the 2nd call is, effectively, a no-op. ?setGeneric says nothing explicit about this behavior that I can see. It does say that if there is an existing implicity generic function it will be (re?)used. I also tried

Currently library() and attach() fail to locate an existing '.conflicts.OK' in a package wit name space, unless it is exported. Since there should be little interest in exporting '.conflicts.OK' otherwise, one may argue that those methods should look for '.conflicts.OK' even if it is not exported. If so, a patch for library() is: >svn diff library.R Index: library.R

Hi, from 'Writing R Extensions' [R version 2.11.0 Under development (unstable) (2010-03-16 r51290)] one can read: "The optional `Imports' field lists packages whose name spaces are imported from but which do not need to be attached. [...] Versions can be specified, but will not be checked when the namespace is loaded." Is it a design decision that version specifications

Hi the list, I am writing a package that happen to not be compatible with linux because I did not know that the function "savePlot" was available only on windows. Is there a list of "incompatible" function? How can I get this kind of information? Thanks Christophe

It appears that the runtime for an R script can more than double if a few references to a function foo() are replaced by more explict references of the form pkgname::foo(). The more explicit references are of course required when two loaded packages define the same function. I can understand why use of this mechanism is not free in an interpreted environment like R, but the cost seems rather

Sorry mistake from me. This was another problem in my mind , but with RMySQL. Christian > library(RMySQL) > library(sqldf) > sqldf("Select * from mtcars") Fehler in mysqlNewConnection(drv, ...) : RS-DBI driver: (Failed to connect to database: Error: Access denied for user 'user'@'localhost' (using password: NO) ) Fehler in if (dbname ==

Hi, I'm working in R 2.11.1 x64 on Windows x86_64-pc-mingw32. I'm trying to insert a very large CSV file into a SQLite database. I'm pretty new to working with databases in R, so I apologize if I'm overlooking something obvious here. I'm trying to work with the American Community Survey data, which is two 1.3GB csv files. I have enough RAM to read one of them into memory,

Hi, > x <- charToRaw("ABCDEFGx") > x[c(1:3, NA, 6)] <- x[8] *** caught segfault *** address 0x8402423f, cause 'memory not mapped' Possible actions: 1: abort (with core dump, if enabled) 2: normal R exit 3: exit R without saving workspace 4: exit R saving workspace Cheers, H. > sessionInfo() R version 2.10.0 Under development

Hi All, I'm interested in putting some unit tests into an R package I'm building. I have seen assorted things such as Runit library, svUnit library, packages with 'tests' directories, etc I grep'd "unit test" through the writing R extensions manual but didn't find anything. Are there any suggestions out there? Currently I have several (a lot?) classes/methods

Hi, On a fresh install of R on mac os x 10.6.4 (snow leopard) RSQLite did not install while running biocLite() $ R R version 2.11.1 (2010-05-31) Copyright (C) 2010 The R Foundation for Statistical Computing ISBN 3-900051-07-0 [...] Loading required package: utils BioC_mirror = http://www.bioconductor.org Change using chooseBioCmirror(). [Previously saved workspace restored] >

Dear R Help, I work with the Sage project, and we are trying to improve the ability to use R through Sage. Most things work, but make check seems to cause problems on certain platforms, and now that we want to upgrade to 2.10.1 I thought we should ask for help! R builds just fine on both Mac and Linux, but some things in make check seem to break on certain Linux boxes that don't on Mac or

Hello, I would like to compress a long string (character vector), store the compressed string in the text field of a SQLite database (using RSQLite), and then load the text back into memory and decompress it back into the the original string. My character vector can be compressed considerably using standard gzip/bzip2 compression. In theory it should be much faster for me to compress/decompress

Hi there, When I extract data from SQLite to R, the data types (or modes) of the extracted data seems to be determined by the value of the first row. Please see the following example. When I put the missing values first, the column extracted is of the mode character. > str(dbGetQuery(sql.industry, + "select pya_var from annual_data3 + order by

Dear All, I would like to have an advice for designing an R library, and thought that R-devel may be the best place to ask given so many people who are highly expert in R are around. We are at an early stage of designing an R library, which is effectively an interface to a C++ library providing fast access to large matrices stored on HDD as binary files. The core of the C++ library is

R developers, I am trying to understand how symbols are resolved, so that I can configure a package that I contributed to, and so that I can provide guidance to (linux / OSX) users of the package. To be concrete, my package uses the LAPACK Fortran symbol zsysv. This is not in libRlapack, but is defined on my system in the library /usr/lib64/liblapack.so. * I suspect that the reason the symbol is

OK: despite Dirk's very kind help, I decided that trying to deal with R configuration and Debian configuration simultaneously was too difficult. I did manage to solve my problem by reconfiguring/making/ installing all of 2.3.1 from source: ./configure F77=/usr/bin/g77 make make install A few questions inspired by this experience: (1) it seems a bit odd that R sets F77=gfortran by