R devel - May 2008 - texi2dvi instead of pdflatex in R2.7.0? and related bioc 2.2 builds

Dear lists:

I am somewhat puzzled by the use of texi2dvi/pdflatex in R2.7.0. When 
building EBImage (bioconductor) with 2.7.0 I get the same error both in 
Windows and Linux, which reads the following:

** building package indices ...
* DONE (EBImage)
* creating vignettes ... ERROR
/usr/bin/texi2dvi: pdflatex exited with bad status, quitting.
Error in texi2dvi(file = bft, pdf = TRUE, clean = FALSE, quiet = quiet) :
   running 'texi2dvi' on 'AnalysisWithEBImage.tex' failed
Calls: buildVignettes -> texi2dvi
Execution halted


The tex file includes links to png graphics and this might be the 
reason. Running pdflatex on the generated tex file directly produces a 
nice pdf in both Linux and Windows. And this seems have been the default 
in previous version of R.

Now the puzzles are:

1) the bioc build system also uses 2.7.0 and builds vignettes just fine 
on both Windows and Linux:

* DONE (EBImage)
* creating vignettes ... OK
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'EBImage_2.4.0.tar.gz'

2) have the tex settings been changed from 2.6.0 into 2.7.0 as changes 
to vignette have not been significant and the compilation goes through 
fine with 2.6.0.

Or I am missing something and doing something wrong?

Best,
Oleg

-- 
Dr Oleg Sklyar * EBI-EMBL, Cambridge CB10 1SD, UK * +44-1223-494466

It is also working for me, so it is almost certainly local to you.

Sometimes you can get more information by running 'R CMD check', which 
also builds the vignettes but leaves logs in pkg.Rcheck/inst/doc .

On Sun, 4 May 2008, Oleg Sklyar wrote:
> Dear lists:
>
> I am somewhat puzzled by the use of texi2dvi/pdflatex in R2.7.0. When 
> building EBImage (bioconductor) with 2.7.0 I get the same error both in 
> Windows and Linux, which reads the following:
>
> ** building package indices ...
> * DONE (EBImage)
> * creating vignettes ... ERROR
> /usr/bin/texi2dvi: pdflatex exited with bad status, quitting.
> Error in texi2dvi(file = bft, pdf = TRUE, clean = FALSE, quiet = quiet) :
>  running 'texi2dvi' on 'AnalysisWithEBImage.tex' failed
> Calls: buildVignettes -> texi2dvi
> Execution halted
>
>
> The tex file includes links to png graphics and this might be the reason. 
> Running pdflatex on the generated tex file directly produces a nice pdf in 
> both Linux and Windows. And this seems have been the default in previous 
> version of R.
>
> Now the puzzles are:
>
> 1) the bioc build system also uses 2.7.0 and builds vignettes just fine on 
> both Windows and Linux:
>
> * DONE (EBImage)
> * creating vignettes ... OK
> * removing junk files
> * checking for LF line-endings in source and make files
> * checking for empty or unneeded directories
> * building 'EBImage_2.4.0.tar.gz'
>
> 2) have the tex settings been changed from 2.6.0 into 2.7.0 as changes to 
> vignette have not been significant and the compilation goes through fine
with
> 2.6.0.
Not that I am aware of.
> Or I am missing something and doing something wrong?
>
> Best,
> Oleg
>
> -- 
> Dr Oleg Sklyar * EBI-EMBL, Cambridge CB10 1SD, UK * +44-1223-494466
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>
-- 
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