texi2dvi instead of pdflatex in R2.7.0? and related bioc 2.2 builds

[Oleg Sklyar]

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 * [phone]

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[Prof Brian Ripley]

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 * [phone]
>
> ______________________________________________
> R-devel@... mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>

--
Brian D. Ripley,                  ripley@...
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  [phone] (self)
1 South Parks Road,                     [phone] (PA)
Oxford OX1 3TG, UK                Fax:  [phone]

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