[Bioc-devel] package building & checking

Dear mailing list,
I've setup everything in my local package derectory including Sweave
vignette and a PDF version of it.
The "Sweave" command runs fine, so does checking the package directly from
the source directory.
However, when I try to BUILD from the source directory (via R CMD BUILD
directory) it throws me an error that texi2dvi stopped with error.

What is wrong? How can I find out?

Thanks in advacne, Andreas

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You are right Vincent,
I get the very same error!

Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
   unable to run 'pdflatex' on 'XYZ'
Calls:<Anonymous>  ->  texi2pdf ->  texi2dvi
Execution halted

But I am quite confused about how to solve this problem. It sounds kind of
strange to me.
Why does the call fail? The pdf is generated fine!

Will my problems be solved just by installing Tex Live?

2011/9/15 Vincent Carey<stvjc at channing.harvard.edu>

As I have had various issues with latex lately I will comment a little.
For developers, I think it is fair to say that R-latex interaction has
become more important of late, owing to documentation capabiliites and
requirements.  Recently Herve added a comment to various vignettes

% With MikTeX 2.9, using pstricks also requires using auto-pst-pdf or
running
% pdflatex will fail. Note that using auto-pst-pdf requires to set
environment
% variable MIKTEX_ENABLEWRITE18=t on Windows, and to set shell_escape = t
in
% texmf.cnf for Tex Live on Unix/Linux/Mac.

which says a lot.  This mentions a few things I have not been directly
concerned with: write18 (?), pstricks, auto-pst-pdf and so on.

Witnessing build error messages like

Output written on parody.pdf (8 pages, 107975 bytes).
Transcript written on parody.log.
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :

   unable to run 'pdflatex' on 'parody.tex'
Calls:<Anonymous>  ->  texi2pdf ->  texi2dvi
Execution halted

is somewhat confusing and might need to go to R-devel, as "unable to run"
seems not quite right.  It ran, and pdf was generated, but untoward events
did occur, and demise of the build is probably rightly called for.

I bit the bullet and asked for installation of TexLive 2011.  I then had to
get rid of various .sty files in my TEXINPUTS that were no longer up to
date.  I followed the shell_escape setting noted by Herve, in a personal
texmf.cnf that can be identified through the TEXMFCNF environment variable
-- be sure to have : as a suffix to the value.

No more "Execution halted".  I am free to deal with my other problems now.



On Thu, Sep 15, 2011 at 10:12 AM, James W. MacDonald<
jmacdon at med.umich.edu>  wrote:

Hi Andreas,


On 9/15/2011 9:03 AM, Andreas Heider wrote:

Dear mailing list,
I've setup everything in my local package derectory including Sweave
vignette and a PDF version of it.
The "Sweave" command runs fine, so does checking the package directly
from
the source directory.
However, when I try to BUILD from the source directory (via R CMD BUILD
directory) it throws me an error that texi2dvi stopped with error.

What is wrong? How can I find out?

Without some output, nobody can tell what is wrong. And this is really an
R-help and possibly an R-devel question.

Best,

Jim

Thanks in advacne, Andreas

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--
James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826

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