[Rd] for help on building a R package with several R function and a bunch of c, c++
Hope I can get quick help from here, I have a bunch of c, c++ included main function and makefile. It works well on both UNIX and windows. I tried to build R package which include this C++ program and several other R functions. These R function here are independent of c++ code. I prefer to define one R function to call this c++ program (main function). I know how to build R package with just R function, but I don't know how to handle those c++ c code after I copied those code in ./src, I am reading manual "Writing R Extensions" , but I did n't catch the key point . Do you know any easy way to do it? , Thank you in advance! Alex __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] for help on building a R package with several R function and a bunch of c, c++
I think the first question should be how to build a R function to call a bunch of C ,C++ which include one main program, and a makefile. My goal to build a R package will be next step. I read Rcpp , I am not sure if RcppResultSet can solve my problem or other function. Once I make sure it work I need ask UNIX adminstrator to install it. I think it shouldn't be very complex, as I know to build a R function easy with one C function. Thanks you for yout attention! Alex --- On Fri, 3/5/10, Dirk Eddelbuettel wrote: From: Dirk Eddelbuettel Subject: Re: [Rd] for help on building a R package with several R function and a bunch of c, c++ To: alex46...@yahoo.com Cc: r-devel@r-project.org Date: Friday, March 5, 2010, 8:25 PM On 5 March 2010 at 13:15, alex46...@yahoo.com wrote: | Hope I can get quick help from here, I have a bunch of c, c++ included main function and makefile. It works well on both UNIX and windows. I tried to build R package which include this C++ program and several other R functions. These R function here are independent of c++ code. I prefer to define one R function to call this c++ program (main function). | | I know how to build R package with just R function, but I don't know how to handle those c++ c code after I copied those code in ./src, I am reading manual "Writing R Extensions" , but I did n't catch the key point . Do you know any easy way to do it? , When you asked _that exact same question_ this morning on r-help, you got the following answer: From: Whit Armstrong To: alex46...@yahoo.com Cc: r-h...@r-project.org Subject: Re: [R] for help on building a R package with several R function and a bunch of c, c++ Date: Fri, 5 Mar 2010 10:33:54 -0500 Pick up Rcpp, make your life easier. http://dirk.eddelbuettel.com/code/rcpp.html -Whit On Fri, Mar 5, 2010 at 9:19 AM, wrote: > Hope I can get quick help from here, I have a bunch of c, c++ included main function and makefile. It works well on both UNIX and windows. I tried to build R package which include this C++ program and several other R functions. R function here are independent c++ code. I prefer to define one R function to call this c++ program. > > Do you know any easy way to do it? I am reading manual "Writing R Extensions", I didn't catch the key point. I know how to build R package with just R function, If I put all c++ code and makefile in /src...what I need do? > > Thank you in advance! > > Alex Now, can you let us know a) what part of the answer was unclear to you, and b) what made you think you needed to repost _the identical question_ here | Thank you in advance! You're welcome. Dirk | Alex | | __ | R-devel@r-project.org mailing list | https://stat.ethz.ch/mailman/listinfo/r-devel -- Registration is open for the 2nd International conference R / Finance 2010 See http://www.RinFinance.com for details, and see you in Chicago in April! [[alternative HTML version deleted]] __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] for help on building a R package with several R function and a bunch of c, c++
Thank you for your help. So far what I did on my notebook as follows. My OS
is windows7.
Â
I downloaded Rcpp windows version, and load library("Rcpp") then.
Â
1, Change main funnction to f1.cpp, remove makefile.
2 ,run Rcpp.package.skeleton(name="test",list=c("rec1.R","rect2.R"))
3, edit  /man, /R, copied my exist file whch I have done sucessfullyÂ
without any c++ program before.
4, copy f1.cpp and all other related cpp and c into /src/
5. Rcmd build --binary test
Â
It showed--
Â
making DLL
gcc
-lâC:/PROGRA~2/R/R-210~1.1/include",âC:/PROGRA~2/R/R-210~1.1/bin/Rscript
-e' Rcpp:::CxxxFlags<>'` -03 -Wall -std =gnu -999 -c cranbombind.c -o
cranbombind.o
Â
gcc.exe: **\Documents/R/win-library/2.10/Rcpp/lib: No such file or directory...
I checked the path, it did have C:\Users\alex
**\Documents\R\win-library\2.10\Rcpp\lib
Â
I don't know how I can fix the problem. do you think it could be problem there
is a space between my first name and last name..
Â
All I tried are on my own PC at home , I will tryon other  PC in my office.
Â
Do you have suggestion?. Thanks,
Â
Alex
--- On Sun, 3/7/10, Romain Francois wrote:
From: Romain Francois
Subject: Re: [Rd] for help on building a R package with several R function and
a bunch of c, c++
To: alex46...@yahoo.com
Cc: "Dirk Eddelbuettel" , r-devel@r-project.org
Date: Sunday, March 7, 2010, 3:59 AM
On 03/06/2010 03:27 AM, alex46...@yahoo.com wrote:
> I think the first question should be how to build a R function to call a
> bunch of C ,C++ which include one main program, and a makefile. My goal to
> build a R package will be next step.
You should jump straight to making a package. You are making you life
difficult with this "main program & makefile" model.
Install Rcpp and try to use the Rcpp.package.skeleton, this will create
a simple package that uses some C++ classes from Rcpp, as well as an R
function that calls them.
> I read Rcpp , I am not sure if RcppResultSet can solve my problem or other
> function. Once I make sure it work I need ask UNIX adminstrator to install it.
We don't know what your problem is. We can answer a question, but we
cannot guess the question for you.
Rcpp works, please refer to our unit tests, for example look at this
vignette:
http://cran.r-project.org/web/packages/Rcpp/vignettes/Rcpp-unitTests.pdf
> I think it shouldn't be very complex, as I know to build a R function easy
> with one C function.
>
> Thanks you for yout attention!
>
> Alex
>
> --- On Fri, 3/5/10, Dirk Eddelbuettel wrote:
>
>
> From: Dirk Eddelbuettel
> Subject: Re: [Rd] for help on building a R package with several R function
> and a bunch of c, c++
> To: alex46...@yahoo.com
> Cc: r-devel@r-project.org
> Date: Friday, March 5, 2010, 8:25 PM
>
>
>
> On 5 March 2010 at 13:15, alex46...@yahoo.com wrote:
> | Hope I can get quick help from here, I have a bunch of c, c++ included main
> function and makefile. It works well on both UNIX and windows. I tried to
> build R package which include this C++ program and several other R
> functions. These R function here are independent of c++ code. I prefer to
> define one R function to call this c++ program (main function).
> |
> | I know how to build R package with just R function, but I don't know how to
> handle those c++ c code after I copied those code in ./src, I am reading
> manual "Writing R Extensions" , but I did n't catch the key point . Do you
> know any easy way to do it? ,
>
> When you asked _that exact same question_ this morning on r-help, you got the
> following answer:
>
>Â Â Â Â From: Whit Armstrong
>Â Â Â Â To: alex46...@yahoo.com
>Â Â Â Â Cc: r-h...@r-project.org
>Â Â Â Â Subject: Re: [R] for help on building a R package with several R
>function and a bunch of c, c++
>Â Â Â Â Date: Fri, 5 Mar 2010 10:33:54 -0500
>
>Â Â Â Â Pick up Rcpp, make your life easier.
>
>Â Â Â Â http://dirk.eddelbuettel.com/code/rcpp.html
>
>Â Â Â Â -Whit
>
>    On Fri, Mar 5, 2010 at 9:19 AM, wrote:
>Â Â Â Â >Â Hope I can get quick help from here, I have a bunch of c, c++
>included main function and makefile. It works well on both UNIX and windows. I
>tried to build R package which include this C++ program and several other R
>functions. R function here are independent c++ code. I prefer to define
>one R function to call this c++ program.
>Â Â Â Â >
>Â Â Â Â >Â Do you know any easy way to do it? I am reading manual "Writing R
>Extensions", I didn't catch the key point. I know how to build R package with
>just R function, If I put all c++ code and makefile in /src...what I need do?
>Â Â Â Â >
>Â Â Â Â >Â Thank you in advance!
>Â Â Â Â >
>Â Â Â Â >Â Alex
>
> Now, can you let us know
>
>Â Â Â a) what part of the answer was unclear to you, and
>
>Â Â Â b) what made you think you needed to repost _the identical question_
>here
>
> | Thank you in advance!
>
> You're welcome.
>
> Dirk
--
Romain Francois
Professional R Enth
[Rd] for help on building a R package with several R function and a bunch of c, c++
Hope I can get quick help from here, I have a bunch of c, c++ included main function and makefile. It works well on both UNIX and windows. I tried to build R package which include this C++ program and several other R functions. These R functions here are independent of c++ code. I prefer to define one R function to call this c++ program. I know how to build R package with just R function, But I don't know how to handle those c++, c and makefile after I copied them in /src. I am reading manual "Writing R Extensions", I didn't catch the key point . Do you guys anybody know easy way to do it?. Thank you in advance! Alex __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] for help on building a R package with several R function and a bunch of c, c++
I built R package with only R code before, this is first time I build R package
with mixed R code and C, C++ code. I would try Rcpp on our center UNIX, before
I ask the administrator to install it, I need confirm several issue are right.
Thank you for you patient.
1, I change main function as a general function with certain name such as void
tranptest(char* filename[], double* para[]), and copy this file and other
related c, c++ h, program to /src, and removed makefile.
2, I noticed there is Makevars after I ran Rcpp.package.skeleton,
do I need modify this file before I run R CMD build? what I need do for
rcpp_hello_world.cpp rcpp_hello_world.cpp? it is template file handled by the
program or it is for me to edit it as template?
3, Do I need write a R function such as tranptest<-function(inputfile,
ctlfile,outfile, param1,param2,param3)
{
filenames<-c(inputfile,ctlfile,outfile)
params<-as.vector(c(param1, param2,param3))
.C("tranptest", as.character(filenames),as.double(params))
}
before I run R CMD build? if so, that means I put this R function in /R?
4, Do I need do anything to run library.dyname to load those complied objects?
Where I can make sure it successful and I can use .C("tranptest",) in R
before the wholepackage installed?
Thank you so much!
Alex
--- On Mon, 3/8/10, Romain Francois wrote:
> From: Romain Francois
> Subject: Re: [Rd] for help on building a R package with several R function
> and a bunch of c, c++
> To: alex46...@yahoo.com
> Cc: r-devel@r-project.org, "Dirk Eddelbuettel"
> Date: Monday, March 8, 2010, 2:47 AM
> Hi,
>
> Yes, the problem is with spaces in path names. This has
> been fixed and
> will appear as Rcpp 0.7.8 in a few days.
>
> If you are in a rush, you can build it from svn, or quote
> the path that
> is returned from CxxFlags.
>
> Feel free to get back to us with more questions, although
> I'd encourage
> you to use the dedicated Rcpp-devel mailing list :
> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel
>
> Romain
>
> On 03/08/2010 04:20 AM, alex46...@yahoo.com
> wrote:
> > Thank you for your help. So far what I did on
> my notebook as follows. My OS is windows7.
> > Â
> > I downloaded Rcpp windows version, and load
> library("Rcpp") then.
> > Â
> > 1, Change main funnction to f1.cpp, remove makefile.
> > 2 ,run
> Rcpp.package.skeleton(name="test",list=c("rec1.R","rect2.R"))
> > 3, edit  /man, /R, copied my exist file whch I
> have done sucessfully without any c++ program
> before.
> > 4, copy f1.cpp and all other related cpp and c
> into /src/
> > 5. Rcmd build --binary test
> > Â
> > It showed--
> > Â
> > making DLL
> > gcc
> -l“C:/PROGRA~2/R/R-210~1.1/include",“C:/PROGRA~2/R/R-210~1.1/bin/Rscript
> -e' Rcpp:::CxxxFlags<>'` -03 -Wall -std =gnu -999 -c
> cranbombind.c -o cranbombind.o
> > Â
> > gcc.exe: **\Documents/R/win-library/2.10/Rcpp/lib: No
> such file or directory...
> >
> > I checked the path, it did have C:\Users\alex
> **\Documents\R\win-library\2.10\Rcpp\lib
> > Â
> > I don't know how I can fix the problem. do you think
> it could be problem there is a space between my first name
> and last name..
> > Â
> > All I tried are on my own PC at home , I will tryon
> other  PC in my office.
> > Â
> > Do you have suggestion?. Thanks,
> > Â
> > Alex
> > --- On Sun, 3/7/10, Romain Francois
> wrote:
> >
> >
> > From: Romain Francois
> > Subject: Re: [Rd] for help on building a R package
> with several R function and a bunch of c, c++
> > To: alex46...@yahoo.com
> > Cc: "Dirk Eddelbuettel",
> r-devel@r-project.org
> > Date: Sunday, March 7, 2010, 3:59 AM
> >
> >
> > On 03/06/2010 03:27 AM, alex46...@yahoo.com
> wrote:
> >> I think the first question should be how to build
> a R function to call a bunch of C ,C++ which include one
> main program, and a makefile. My goal to build a R package
> will be next step.
> >
> > You should jump straight to making a package. You are
> making you life
> > difficult with this "main program& makefile"
> model.
> >
> > Install Rcpp and try to use the Rcpp.package.skeleton,
> this will create
> > a simple package that uses some C++ classes from Rcpp,
> as well as an R
> > function that calls them.
> >
> >> I read Rcpp , I am not sure ifÂ
> RcppResultSet can solve my problem or other function. Once I
> make sure it work I need ask UNIX adminstrator to install
> it.
> >
> > We don't know what your problem is. We can answer a
> question, but we
> > cannot guess the question for you.
> >
> > Rcpp works, please refer to our unit tests, for
> example look at this
> > vignette:
> > http://cran.r-project.org/web/packages/Rcpp/vignettes/Rcpp-unitTests.pdf
> >
> >> I think it shouldn't be very complex, as I
> know to build a R function easy with one C function.
> >>
> >> Thanks you for yout attention!
> >>
> >> Alex
> >>
> >> --- On Fri, 3/5/10, Dirk EddelbuettelÂ
> wrote:
> >>
> >>
> >> From: Dirk Eddelbuettel
> >> Subject: Re: [Rd] for help on buildi
Re: [Rd] for help on building a R package with several R function and a bunch of c, c++
Yes! that is what I am looking for. When I post my question, I said I cannot
catch the key point in "Writing R Extensions".
Follow your suggestion, I almost have reached my goal although I passed the R
CMD check mypackage. Before I install it (I need ask UNIX adminstrator to do
it), I check the package, I got the information
> dyn.load("tranptest.so")
> filenames<-c("Mrklist.txt","CCdata.txt","outputfile")
> param<-c(1,0,1,0,1,1)
> .C("tranptest",as.character(filenames),as.double(param))
*** caught segfault ***
address 0, cause 'memory not mapped'
Traceback:
1: .C("tranptest",as.character(filenames), as.double(param))
Do you have any clue about the error? I think it is very close tothe end.
Thank you so much . You save me a tons of time,
Alex
--- On Mon, 3/8/10, Simon Urbanek wrote:
> From: Simon Urbanek
> Subject: Re: [Rd] for help on building a R package with several R function
> and a bunch of c, c++
> To: alex46...@yahoo.com
> Cc: "Romain Francois" , r-devel@r-project.org,
> "Dirk Eddelbuettel"
> Date: Monday, March 8, 2010, 12:53 PM
> Alex,
>
> On Mar 8, 2010, at 12:16 , alex46...@yahoo.com
> wrote:
>
> > I built R package with only R code before, this is
> first time I build R package with mixed R code and C, C++
> code. I would try Rcpp on our center UNIX, before I ask the
> administrator to install it, I need confirm several issue
> are right. Thank you for you patient.
> >
> > 1, I change main function as a general function with
> certain name such as void tranptest(char* filename[],
> double* para[]), and copy this file and other related c,
> c++ h, program to /src, and removed makefile.
> >
>
> Yes, that's perfect - for the kind of usage you don't need
> Rcpp at all - R supports C++ sources out of the box. Just
> make sure your tranptest function is either in a .c file or
> you put
> extern "C"
> in front of it if it's in .cpp , e.g:
>
> foo.cpp:
> extern "C" void tranptest(char **fn, double *par) {
> ...
> }
>
>
> > 2, I noticed there is Makevars after I ran
> Rcpp.package.skeleton,
> > do I need modify this file before I run R CMD build?
> what I need do for rcpp_hello_world.cpp
> rcpp_hello_world.cpp? it is template file handled by the
> program or it is for me to edit it as template?
> >
> > 3, Do I need write a R function such as
> tranptest<-function(inputfile, ctlfile,outfile,
> param1,param2,param3)
> > {
> > filenames<-c(inputfile,ctlfile,outfile)
> > params<-as.vector(c(param1, param2,param3))
> > .C("tranptest",
> as.character(filenames),as.double(params))
> > }
> > before I run R CMD build? if so, that means I put this
> R function in /R?
> >
>
> yes, in R/foo.R (replace "foo" by any name you want)
>
>
> > 4, Do I need do anything to run library.dyname to load
> those complied objects?
>
> If you have a namespace just add
> useDynLib(foo)
> where "foo" is the name of your package. If you don't have
> a namespace (or don't kwno what that is ;)) just add a file
> R/zzz.R with the following content to your package:
> .First.lib <- function(libname, pkgname)
> library.dynam("foo", pkgname, libname)
> where "foo" is the name of your package.
>
> > Where I can make sure it successful and I can use
> .C("tranptest",) in R before the wholepackage
> installed?
> >
>
> It's really simple - you don't need to install the package
> to test it. Assuming "foo" is the name of your package:
> Build the sources:
> R CMD SHLIB -o foo.so *.c*
>
> start R in the same directory:
> R
> # load the library you just compiled
> dyn.load("foo.so")
> # test your code
> .C("tranptest", c("file1", "file2"), as.double(1,2,3,4))
>
> Cheers,
> Simon
>
>
> >
> > Alex
> > --- On Mon, 3/8/10, Romain Francois
> wrote:
> >
> >> From: Romain Francois
> >> Subject: Re: [Rd] for help on building a R package
> with several R function and a bunch of c, c++
> >> To: alex46...@yahoo.com
> >> Cc: r-devel@r-project.org,
> "Dirk Eddelbuettel"
> >> Date: Monday, March 8, 2010, 2:47 AM
> >> Hi,
> >>
> >> Yes, the problem is with spaces in path names.
> This has
> >> been fixed and
> >> will appear as Rcpp 0.7.8 in a few days.
> >>
> >> If you are in a rush, you can build it from svn,
> or quote
> >> the path that
> >> is returned from CxxFlags.
> >>
> >> Feel free to get back to us with more questions,
> although
> >> I'd encourage
> >> you to use the dedicated Rcpp-devel mailing list
> :
> >> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel
> >>
> >> Romain
> >>
> >> On 03/08/2010 04:20 AM, alex46...@yahoo.com
> >> wrote:
> >>> Thank you for your help. So far what I
> did on
> >> my notebook as follows. My OS is windows7.
> >>> Â
> >>> I downloaded Rcpp windows version, and load
> >> library("Rcpp") then.
> >>> Â
> >>> 1, Change main funnction to f1.cpp, remove
> makefile.
> >>> 2 ,run
> >>
> Rcpp.package.skeleton(name="test",list=c("rec1.R","rect2.R"))
> >>> 3, edit  /man, /R, copied my exist fileÂ
> whch I
> >> have done sucessfully without any
Re: [Rd] for help on building a R package with several R function and a bunch of c, c++
I fixed the problem, it is related to my C++ code when I change main function to gneral function. You gave a great help! Thank you! Simon. have a good night! Alex __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
