[R] Problem with package development
Duncan Murdoch
murdoch.duncan at gmail.com
Thu Jun 2 20:10:38 CEST 2011
On 02/06/2011 2:03 PM, Nipesh Bajaj wrote:
> Thanks Prof. Ripley and Duncan for your pointers. Noting down your
> points I have modified my way of building package and have done
> following so far:
>
> 1. In my C: drive I create one working folder naming "R_PackageBuild"
> 2. In R console I have written following codes:
> > setwd("c:/R_packageBuild")
> > package.skeleton("trial1",namespace = TRUE, code_files = "f:/trial.r")
> 3. then I opened cmd and wrote following:
> cd C:\R_PackageBuild
> Rcmd build –binary trial1
>
> This process halted with following error:
> Error: unexpected symbol in “tools:::.test_load_package(‘trial1′,….)”
> Execution halted
> ERROR: loading failed
>
> What I have missed in this process? Can you please help me how to
> solve this issue?
You haven't done the manual changes required between steps 2 and 3.
package.skeleton() creates the skeleton of a package; you run it once as
you are starting development, the do a lot of manual updates, described
on the ?package.skeleton help page, and in the ‘Read-and-delete-me’
file. Once those are done, step 3 should succeed.
Duncan Murdoch
> Thanks,
>
> PS: I am sorry I missplet 'Program Files'. Thanks Prof. Ripley for this pointer.
>
> On Wed, Jun 1, 2011 at 11:41 AM, Prof Brian Ripley
> <ripley at stats.ox.ac.uk> wrote:
> > On Wed, 1 Jun 2011, Nipesh Bajaj wrote:
> >
> >> I have been struggling for last one hour but not yet any through.
> >>
> >> However again I recreate the package.skeleton and run R CMD check trial3
> >>
> >> Here are the errors:
> >>
> >> warning in dir.create(pkgoutdir, mode = "0755"):
> >> cannot create dir 'c:\Program files\R\R-2.13.0\bin\trial3.Rcheck',
> >> reason .................
> >> Error in printLog(Log, "", text, "\n"): object 'Log' not found
> >> Execution haulted
> >>
> >> Why I am getting this error? what is that "Log". I will really
> >> appreciate if somebody please help me to figure out.
> >
> > R CMD check writes a (in your case) trial3.Rcheck directory, and in there in
> > file 00check.log a copy of the log. If it cannot create trial3.Rcheck it
> > cannot write the log.
> >
> > I would be surprised that even on Windows Vista the message was literally
> >
> >> reason .................
> >
> > but if it was, blame Microsoft for their error messages.
> > But
> >>
> >> cannot create dir 'c:\Program files\R\R-2.13.0\bin\trial3.Rcheck',
> >
> > is clear enough. You need to run 'R CMD check' in your user area.
> > In case you did this because that is where you though 'R' was, it is not the
> > correct R.exe. You may need to add
> >
> > c:\Program Files\R\R-2.13.0\bin\i386
> >
> > (assuming 32-bit R) to your path.
> >
> > However, your use of e.g. 'Program files' suggests you are not accurately
> > transmitting the messages you got.
> >
> >
> >>
> >> Thanks,
> >>
> >> On Wed, Jun 1, 2011 at 1:20 AM, Nipesh Bajaj<bajaj141003 at gmail.com>
> >> wrote:
> >>>
> >>> Actually partly I followed. Here is the more details what I have done so
> >>> far:
> >>>
> >>> 1. Edit the help file skeletons in 'man', possibly combining help
> >>> files for multiple functions.
> >>> I have modified with following:
> >>> \name{fn1}
> >>> \alias{fn1}
> >>>
> >>> \title{
> >>> A function.
> >>> }
> >>>
> >>> \description{
> >>> A function.
> >>> }
> >>>
> >>> \usage{
> >>> A function.
> >>> }
> >>>
> >>> \arguments{
> >>> A function.
> >>> }
> >>>
> >>> \value{
> >>> A function.
> >>> }
> >>>
> >>> \author{
> >>> \bold{Me}
> >>> \cr
> >>> \email{Me at me.com}
> >>> }
> >>>
> >>> 2. Edit the exports in 'NAMESPACE', and add necessary imports.
> >>> Actually I really do not know what I would do here. In the
> >>> corresponding file, only "exportPattern("^[[:alpha:]]+")" is there.
> >>> Therefore I put that unaltered.
> >>>
> >>> 3. Put any C/C++/Fortran code in 'src'.
> >>> I do not have any such code
> >>>
> >>> 4. If you have compiled code, add a useDynLib() directive to 'NAMESPACE'.
> >>> Again I do not know what to do, so ingored this step.
> >>>
> >>> 5. Run R CMD build to build the package tarball.
> >>> * Run R CMD check to check the package tarball.
> >>>
> >>> I did not follow this step exactly. What I done is, put 'trial3'
> >>> folder in R/R-2.13.0bin folder (after above modification), from the
> >>> R-working folder. Then just run R CMD INSTALL trial3. However
> >>> previously with this job, I could create package effectively. After
> >>> updating R to the current version my problem starts.
> >>>
> >>> Those are not sufficient?
> >>>
> >>> Thanks,
> >>>
> >>> On Wed, Jun 1, 2011 at 1:09 AM, Duncan Murdoch<murdoch.duncan at gmail.com>
> >>> wrote:
> >>>>
> >>>> On 11-05-31 3:36 PM, Nipesh Bajaj wrote:
> >>>>>
> >>>>> Dear all, I am having a strage problem while I was trying to build a
> >>>>> package. Here is my package skeleton:
> >>>>>
> >>>>> fn1<- Vectorize(function(x,y,z) {
> >>>>> return(x + y +z)
> >>>>> }, vectorize.args = c("x"), SIMPLIFY = TRUE)
> >>>>> package.skeleton("trial3",namespace = TRUE)
> >>>>
> >>>> Did you follow the instructions that package.skeleton printed?
> >>>>
> >>>> Duncan Murdoch
> >>>>
> >>>>>
> >>>>> However when I tun "R CMD INSTALL trial3" in CMD, the execution
> >>>>> stopped with following message:
> >>>>>
> >>>>> *** installing help indices
> >>>>> ** building package indices...
> >>>>> ** testing if install package can be loaded
> >>>>> Error: unexpected symbol in "tools:::test_load_package(.............."
> >>>>> Execution haulted
> >>>>> ERROR: loading failed.............
> >>>>>
> >>>>> I am using R 2.13.0 in Vista with latest Rtools installed. Can
> >>>>> somebody guide me where I have done wrong?
> >>>>>
> >>>>> Thanks,
> >>>>>
> >>>>> ______________________________________________
> >>>>> R-help at r-project.org mailing list
> >>>>> https://stat.ethz.ch/mailman/listinfo/r-help
> >>>>> PLEASE do read the posting guide
> >>>>> http://www.R-project.org/posting-guide.html
> >>>>> and provide commented, minimal, self-contained, reproducible code.
> >>>>
> >>>>
> >>>
> >>
> >> ______________________________________________
> >> R-help at r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/r-help
> >> PLEASE do read the posting guide
> >> http://www.R-project.org/posting-guide.html
> >> and provide commented, minimal, self-contained, reproducible code.
> >>
> >
> > --
> > Brian D. Ripley, ripley at stats.ox.ac.uk
> > Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> > University of Oxford, Tel: +44 1865 272861 (self)
> > 1 South Parks Road, +44 1865 272866 (PA)
> > Oxford OX1 3TG, UK Fax: +44 1865 272595
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