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

Ravi Varadhan rvaradhan at jhmi.edu
Thu May 3 21:51:54 CEST 2007


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.  

----------------------------------------------------------------------------
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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

 

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-----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.
> 
>

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