Re: [R] [SPAM] - Re: R package development in windows - BayesianFilter detected spam

From: Gabor Grothendieck <ggrothendieck_at_gmail.com>
Date: Thu, 03 May 2007 16:17:22 -0400

Suggest you try following the advice I already gave, viz. reading the relevant HowTo links on the batchfiles home page. One gives pointers to the authoritative sources (the manuals) and the other gives step by step instructions. These do answer both of the subsequent questions the poster had.

On 5/3/07, Ravi Varadhan <rvaradhan_at_jhmi.edu> wrote:
> Harold,
>
> I totally echo your sentiments on the difficulty of creating an R package in
> Windows. I really wish that this process could be made a bit less painful.
>
> Ravi.

>
> ----------------------------------------------------------------------------
> -------
>
> Ravi Varadhan, Ph.D.
>
> Assistant Professor, The Center on Aging and Health
>
> Division of Geriatric Medicine and Gerontology
>
> Johns Hopkins University
>
> Ph: (410) 502-2619
>
> Fax: (410) 614-9625
>
> Email: rvaradhan_at_jhmi.edu
>
> Webpage: http://www.jhsph.edu/agingandhealth/People/Faculty/Varadhan.html
>
>
>
> ----------------------------------------------------------------------------
> --------
>
> -----Original Message-----
> From: r-help-bounces_at_stat.math.ethz.ch
> [mailto:r-help-bounces_at_stat.math.ethz.ch] On Behalf Of Doran, Harold
> Sent: Thursday, May 03, 2007 3:33 PM
> To: Duncan Murdoch
> Cc: r-help_at_stat.math.ethz.ch
> Subject: Re: [R] [SPAM] - Re: R package development in windows -
> BayesianFilter detected spam
>
> Thanks, Duncan. I'll look into that. Is there an authoritative document
> that codifies the new package development procedures for 2.5.0
> (windows-specific), or is that Writing R Extensions? In this thread
> alone I've received multiple emails pointing to multiple web sites with
> instructions for windows. Inasmuch as its appreciated, I'm a bit
> confused as to which I should consider authoritative.
>
> I do hope I can resolve this and appreciate the help I've received.
> However, I feel a bit compelled to note how very difficult this process
> is.
>
> Harold
>
>
> > -----Original Message-----
> > From: Duncan Murdoch [mailto:murdoch_at_stats.uwo.ca]
> > Sent: Thursday, May 03, 2007 3:24 PM
> > To: Doran, Harold
> > Cc: Gabor Grothendieck; r-help_at_stat.math.ethz.ch
> > Subject: [SPAM] - Re: [R] R package development in windows -
> > Bayesian Filter detected spam
> >
> > On 5/3/2007 3:04 PM, Doran, Harold wrote:
> > > Thanks Gabor, Sundar, and Tony. Indeed, Rtools was missing from the
> > > path. With that resolved, and another 10 minute windows
> > restart, I get
> > > the following below. The log suggests that hhc is not installed. It
> > > is, and, according to the directions I am following, I have
> > placed it
> > > in the c:\cygwin directory.
> >
> > I think the problem is that you are following a real mix of
> > instructions, and they don't make sense.
> >
> > It would be nice if folks would submit patches to the R Admin
> > manual (or to the Rtools web site) rather than putting
> > together web sites with advice that is bad from day one, and
> > quickly gets worse when it is not updated.
> >
> > > BTW, package.skeleton() doesn't seem to create the correct
> > DESCRIPTION
> > > template. I had to add the DEPENDS line. Without this, I
> > get another
> > > error.
> > >
> > >
> > > C:\Program Files\R\R-2.4.1\bin>Rcmd build --force --binary g:\foo
> >
> > R 2.4.1 is no longer current; the package building
> > instructions in R 2.5.0 have been simplified a bit. You
> > might want to try those.
> >
> > Duncan Murdoch
> >
> > > * checking for file 'g:\foo/DESCRIPTION' ... OK
> > > * preparing 'g:\foo':
> > > * checking DESCRIPTION meta-information ... OK
> > > * removing junk files
> > > * checking for LF line-endings in source files
> > > * checking for empty or unneeded directories
> > > * building binary distribution
> > > WARNING
> > > * some HTML links may not be found
> > > installing R.css in c:/TEMP/Rinst40061099
> > >
> > > Using auto-selected zip options ''
> > > latex: not found
> > > latex: not found
> > > latex: not found
> > >
> > > ---------- Making package foo ------------
> > > latex: not found
> > > adding build stamp to DESCRIPTION
> > > latex: not found
> > > latex: not found
> > > latex: not found
> > > installing R files
> > > latex: not found
> > > installing data files
> > > latex: not found
> > > installing man source files
> > > installing indices
> > > latex: not found
> > > not zipping data
> > > installing help
> > > Warning: \alias{foo} already in foo-package.Rd -- skipping
> > the one in
> > > foo.Rd >>> Building/Updating help pages for package 'foo'
> > > Formats: text html latex example chm
> > > foo-package text html latex
> > example chm
> > > foo text html latex
> > example chm
> > > mydata text html latex
> > example chm
> > > hhc: not found
> > > cp: cannot stat `c:/TEMP/Rbuild40048815/foo/chm/foo.chm':
> > No such file
> > > or direct ory
> > > make[1]: *** [chm-foo] Error 1
> > > make: *** [pkg-foo] Error 2
> > > *** Installation of foo failed ***
> > >
> > > Removing 'c:/TEMP/Rinst40061099/foo'
> > > ERROR
> > > * installation failed
> > >
> > >
> > > C:\Program Files\R\R-2.4.1\bin>
> > >
> > >> -----Original Message-----
> > >> From: Gabor Grothendieck [mailto:ggrothendieck_at_gmail.com]
> > >> Sent: Thursday, May 03, 2007 2:50 PM
> > >> To: Doran, Harold
> > >> Cc: r-help_at_stat.math.ethz.ch
> > >> Subject: Re: [R] R package development in windows
> > >>
> > >> It can find sh.exe so you haven't installed Rtools.
> > >>
> > >> There are several HowTo's listed in the links section here that
> > >> include pointers to R manuals and other step by step
> > >> instructions:
> > >>
> > >> http://code.google.com/p/batchfiles/
> > >>
> > >> On 5/3/07, Doran, Harold <HDoran_at_air.org> wrote:
> > >> > I'm attempting to build an R package for distribution and
> > >> am working
> > >> > from the directions found at
> > >> >
> > >>
> > http://www.maths.bris.ac.uk/~maman/computerstuff/Rhelp/Rpackages.html
> > >> #
> > >> > Wi
> > >> > n-Win
> > >> >
> > >> > I've read through Writing R Extensions and various other
> > >> "helpful" web
> > >> > sites. I've installed all relevant software (perl,
> > cygwin, mingwin,
> > >> > hhc.exe). Here is what I have done so far:
> > >> >
> > >> > 1) Sourced data and functions into R
> > >> > 2) Used package.skeleton
> > >> > 3) Edited Description file
> > >> > 4) Edited my windows path to ensure the new programs (e.g.,
> > >> perl) are
> > >> > in the path
> > >> > 5) Then, I open DOS and do the following in the script below
> > >> >
> > >> > C:\Program Files\R\R-2.4.1\bin>Rcmd build --force
> > --binary g:\foo
> > >> > * checking for file 'g:\foo/DESCRIPTION' ... OK
> > >> > * preparing 'g:\foo':
> > >> > * checking DESCRIPTION meta-information ...'sh' is not
> > >> recognized as
> > >> > an internal or external command, operable program or batch file.
> > >> > OK
> > >> > * removing junk files
> > >> > 'sh' is not recognized as an internal or external
> > command, operable
> > >> > program or batch file.
> > >> > 'sh' is not recognized as an internal or external
> > command, operable
> > >> > program or batch file.
> > >> > 'sh' is not recognized as an internal or external
> > command, operable
> > >> > program or batch file.
> > >> > Error: cannot open file 'foo/DESCRIPTION' for reading
> > >> >
> > >> > I'ver read through about as much documentation as I can
> > >> find, and I'm
> > >> > just not sure what I should do from here. I admit that I
> > >> have reached
> > >> > a point of frustration and must apologize if the problem
> > would be
> > >> > evident if I read documentation further, but I'm about
> > tapped out
> > >> > after a few days of experimentation.
> > >> >
> > >> > Can anyone suggest how I could resolve this and what the
> > next steps
> > >> > would be?
> > >> >
> > >> > Thanks:
> > >> >
> > >> > I'm using Windows XP and R 2.4.1
> > >> >
> > >> > Harold
> > >> >
> > >> > [[alternative HTML version deleted]]
> > >> >
> > >> > ______________________________________________
> > >> > R-help_at_stat.math.ethz.ch 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_stat.math.ethz.ch 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_stat.math.ethz.ch 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_stat.math.ethz.ch 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.
>



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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. Received on Thu 03 May 2007 - 20:38:53 GMT

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