[R-SIG-Mac] latex errors, Rd problems

[boB Rudis]

Since I just encountered similar issues in a package I'm working to get
submitted, here's the output (just included the warning lines):

(/usr/local/texlive/2014basic/texmf-dist/tex/latex/latexconfig/hyperref.cfg))

Package hyperref Message: Driver (autodetected): hpdftex.

(/usr/local/texlive/2014basic/texmf-dist/tex/latex/hyperref/hpdftex.def
(/usr/local/texlive/2014basic/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)
)

Package hyperref Warning: Option `hyperindex' has already been used,
(hyperref)                setting the option has no effect on input line
366.


Package hyperref Warning: Option `pagebackref' has already been used,
(hyperref)                setting the option has no effect on input line
366.

)

...

(/usr/local/texlive/2014basic/texmf-dist/tex/latex/base/utf8.def) [2]
(./Rd2.ind [3]

LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined
(Font)              using `T1/zi4/m/n' instead on input line 8.

[4]) (./Rd2.aux)

LaTeX Font Warning: Some font shapes were not available, defaults
substituted.

 )

I can't speak to whether the issues are similar, but I'll be trying on
Ubuntu soon to see if the errors are there as well. I am doing
__**nothing**__ unusual or wrong in the Rd files.

On Sat, Mar 21, 2015 at 9:09 AM, Prof Brian Ripley <ripley at stats.ox.ac.uk>
wrote:

> On 21/03/2015 12:38, Adrian Dușa wrote:
>
>> On Sat, Mar 21, 2015 at 12:57 PM, Prof Brian Ripley
>> <ripley at stats.ox.ac.uk <mailto:ripley at stats.ox.ac.uk>> wrote:
>>
>>         [...]
>>
>>         I also tried R CMD Rd2pdf (in the command line), and I get this
>>         at the end:
>>
>>         Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet
>>         = quiet,  :
>>             Running 'texi2dvi' on 'Rd2.tex' failed.
>>         Messages:
>>         sh: /usr/local/bin/texi2dvi: No such file or directory
>>
>>         It might boil down to this missing texi2dvi, but I have the full
>>         MacTeX-2014 (fresh reinstall today) on my system and it should
>>         be there.
>>
>>
>>         Might also be a path issue: here's is the difference between
>>         R.gui and
>>         terminal:
>>
>>
>>     What does R.app (there is no R.gui to my knowledge) have to do with
>>     this?  See the comment above about 'exactly what you did'.
>>
>>
>> Oh, that's right.
>> I used R.app as well because I have also tried the devtools package
>> which has a check() function... same result (just to test if it was a
>> path issue).
>>
>> Indeed, this error comes from the R CMD check command in terminal (sorry
>> to confuse "building" with the command R CMD build), with the complete
>> messages below:
>>
>> Adrians-MBP:~ dusadrian$ R CMD check --as-cran DDIwR_0.2-5.tar.gz
>> * using log directory ‘/Users/dusadrian/DDIwR.Rcheck’
>> * using R version 3.1.3 (2015-03-09)
>> * using platform: x86_64-apple-darwin13.4.0 (64-bit)
>> * using session charset: UTF-8
>> * using option ‘--as-cran’
>> * checking for file ‘DDIwR/DESCRIPTION’ ... OK
>> * this is package ‘DDIwR’ version ‘0.2-5’
>> * checking CRAN incoming feasibility ... Note_to_CRAN_maintainers
>> Maintainer: ‘Adrian Dusa <dusa.adrian at unibuc.ro
>> <mailto:dusa.adrian at unibuc.ro>>’
>>
>> * checking package namespace information ... OK
>> * checking package dependencies ... OK
>> * checking if this is a source package ... OK
>> * checking if there is a namespace ... OK
>> * checking for executable files ... OK
>> * checking for hidden files and directories ... OK
>> * checking for portable file names ... OK
>> * checking for sufficient/correct file permissions ... OK
>> * checking whether package ‘DDIwR’ can be installed ... OK
>> * checking installed package size ... OK
>> * checking package directory ... OK
>> * checking DESCRIPTION meta-information ... OK
>> * checking top-level files ... OK
>> * checking for left-over files ... OK
>> * checking index information ... OK
>> * checking package subdirectories ... OK
>> * checking R files for non-ASCII characters ... OK
>> * checking R files for syntax errors ... OK
>> * checking whether the package can be loaded ... OK
>> * checking whether the package can be loaded with stated dependencies ...
>> OK
>> * checking whether the package can be unloaded cleanly ... OK
>> * checking whether the namespace can be loaded with stated dependencies
>> ... OK
>> * checking whether the namespace can be unloaded cleanly ... OK
>> * checking loading without being on the library search path ... OK
>> * checking dependencies in R code ... OK
>> * checking S3 generic/method consistency ... OK
>> * checking replacement functions ... OK
>> * checking foreign function calls ... OK
>> * checking R code for possible problems ... OK
>> * checking Rd files ... OK
>> * checking Rd metadata ... OK
>> * checking Rd line widths ... OK
>> * checking Rd cross-references ... OK
>> * checking for missing documentation entries ... OK
>> * checking for code/documentation mismatches ... OK
>> * checking Rd \usage sections ... OK
>> * checking Rd contents ... OK
>> * checking for unstated dependencies in examples ... OK
>> * checking contents of ‘data’ directory ... OK
>> * checking data for non-ASCII characters ... OK
>> * checking data for ASCII and uncompressed saves ... OK
>> * checking examples ... OK
>> * checking PDF version of manual ... WARNING
>> LaTeX errors when creating PDF version.
>> This typically indicates Rd problems.
>> * checking PDF version of manual without hyperrefs or index ... OK
>> * DONE
>>
>> WARNING: There was 1 warning.
>> See
>>    ‘/Users/dusadrian/DDIwR.Rcheck/00check.log’
>> for details.
>>
>>
>> There is nothing more in the 00check.log file, just indicating Rd
>> problems.
>>
>
> There usually is, and the absence indicates no latex log was found.
>
> So the next step is to run R CMD Rd2pdf --no-clean on the unpacked package
> sources and look at the logs in its check directory.  You may need to run
> texi2dvi -D --pdf on the .tex file produced there.
>
>
>> Thank you,
>> Adrian
>>
>> --
>> Adrian Dusa
>> University of Bucharest
>> Romanian Social Data Archive
>> Soseaua Panduri nr.90
>> 050663 Bucharest sector 5
>> Romania
>>
>
>
> --
> Brian D. Ripley,                  ripley at stats.ox.ac.uk
> Emeritus Professor of Applied Statistics, University of Oxford
> 1 South Parks Road, Oxford OX1 3TG, UK
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac at r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>

	[[alternative HTML version deleted]]