From maechler at stat.math.ethz.ch  Fri Jan  9 11:46:40 2015
From: maechler at stat.math.ethz.ch (Martin Maechler)
Date: Fri, 9 Jan 2015 11:46:40 +0100
Subject: [Rd] latex warning
In-Reply-To: <CABtg=KmoDFv87r+drDsPwvXW+=p+Ern6QpqD7iG8ommHNm9HKg@mail.gmail.com>
References: <CABtg=KmoDFv87r+drDsPwvXW+=p+Ern6QpqD7iG8ommHNm9HKg@mail.gmail.com>
Message-ID: <21679.45456.375544.317066@stat.math.ethz.ch>

>>>>> G?bor Cs?rdi <csardi.gabor at gmail.com>
>>>>>     on Thu, 8 Jan 2015 17:18:27 -0500 writes:

    > Dear all,

    > I am getting an R CMD check warning about the PDF manual. I am having a
    > hard time finding out what is wrong, here is the log of the Rd2pdf call.

    > The full check (and other) log is at
    >   https://api.travis-ci.org/jobs/46373922/log.txt?deansi=true if anybody is
    > interested, and the package itself is here:
    >   https://github.com/metacran/r-builder/tree/bintex/rbuildertest

    > Thanks, Best,
    > Gabor

I don't see any warning or error in your Rdlatex.log (below).

Could it be that the problem happens with the Travis "batch mode" checks,
not with regular  'R CMD check ..'  for your own installed
version of R and LaTeX ?

(I've seen .. but not investigated other cases where Travis
 would barf about things that were fine for me).

Martin

    > +cat ./rbuildertest.Rcheck/Rdlatex.log
    > Hmm ... looks like a package
    > This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (preloaded
    > format=pdflatex)
    > restricted \write18 enabled.

    > kpathsea: Running mktexfmt pdflatex.fmt
    > fmtutil: running `pdftex -ini   -jobname=pdflatex -progname=pdflatex
    > -translate-file=cp227.tcx *pdflatex.ini' ...
    > This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (INITEX)
    > restricted \write18 enabled.
    > (/home/travis/R-bin/texlive/texmf-dist/web2c/cp227.tcx)
    > entering extended mode
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/latexconfig/pdflatex.ini
    > (/home/travis/R-bin/texlive/texmf-config/tex/generic/config/pdftexconfig.tex)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/latex.ltx
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/texsys.cfg)
    > ./texsys.aux found


    > \@currdir set to: ./.


    > Assuming \openin and \input
    > have the same search path.


    > Defining UNIX/DOS style filename parser.

    > catcodes, registers, compatibility for TeX 2,  parameters,
    > LaTeX2e <2014/05/01>
    > hacks, control, par, spacing, files, font encodings, lengths,
    > ====================================

    > Local config file fonttext.cfg used

    > ====================================
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/fonttext.cfg
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/fonttext.ltx
    > === Don't modify this file, use a .cfg file instead ===

    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omlenc.def)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/t1enc.def)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ot1enc.def)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omsenc.def)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/t1cmr.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ot1cmr.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ot1cmss.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ot1cmtt.fd)))
    > ====================================

    > Local config file fontmath.cfg used

    > ====================================
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/fontmath.cfg
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/fontmath.ltx
    > === Don't modify this file, use a .cfg file instead ===

    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omlcmm.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omscmsy.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omxcmex.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ucmr.fd)))
    > ====================================

    > Local config file preload.cfg used

    > =====================================
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/preload.cfg
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/preload.ltx)) page
    > nos.,
    > x-ref, environments, center, verbatim, math definitions, boxes, title,
    > sectioning, contents, floats, footnotes, index, bibliography, output,
    > ===========================================
    > Local configuration file hyphen.cfg used
    > ===========================================
    > (/home/travis/R-bin/texlive/texmf-dist/tex/generic/babel/hyphen.cfg
    > (/home/travis/R-bin/texlive/texmf-dist/tex/generic/babel/switch.def)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/generic/hyphen/hyphen.tex)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/generic/hyphen/dumyhyph.tex)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/generic/hyphen/zerohyph.tex))
    > =================================
    > Applying patch file ltpatch.ltx
    > =================================
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ltpatch.ltx)
    > ) )
    > Beginning to dump on file pdflatex.fmt
    > (preloaded format=pdflatex 2015.1.8)
    > 4976 strings of total length 68991
    > 45099 memory locations dumped; current usage is 144&43215
    > 3320 multiletter control sequences
    > \font\nullfont=nullfont
    > \font\OMX/cmex/m/n/10=cmex10
    > \font\tenln=line10
    > \font\tenlnw=linew10
    > \font\tencirc=lcircle10
    > \font\tencircw=lcirclew10
    > \font\OT1/cmr/m/n/5=cmr5
    > \font\OT1/cmr/m/n/7=cmr7
    > \font\OT1/cmr/m/n/10=cmr10
    > \font\OML/cmm/m/it/5=cmmi5
    > \font\OML/cmm/m/it/7=cmmi7
    > \font\OML/cmm/m/it/10=cmmi10
    > \font\OMS/cmsy/m/n/5=cmsy5
    > \font\OMS/cmsy/m/n/7=cmsy7
    > \font\OMS/cmsy/m/n/10=cmsy10
    > 3633 words of font info for 14 preloaded fonts
    > 14 hyphenation exceptions
    > Hyphenation trie of length 6081 has 183 ops out of 35111
    > 2 for language 1
    > 181 for language 0
    > 0 words of pdfTeX memory
    > 0 indirect objects
    > No pages of output.
    > Transcript written on pdflatex.log.
    > fmtutil: /home/travis/.texlive2014/texmf-var/web2c/pdftex/pdflatex.fmt
    > installed.
    > fmtutil: No errors, exiting successfully.
    > entering extended mode
    > (./Rd2.tex
    > LaTeX2e <2014/05/01>
    > Babel <3.9l> and hyphenation patterns for 2 languages loaded.

    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/book.cls
    > Document Class: book 2014/09/29 v1.4h Standard LaTeX document class
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/bk10.clo))
    > (/home/travis/R-bin/R-3.0.3/lib/R/share/texmf/tex/latex/Rd.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ifthen.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/tools/longtable.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/tools/bm.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/alltt.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/tools/verbatim.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/url/url.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/textcomp.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ts1enc.def))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/fontenc.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/t1enc.def))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/times.sty))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/inputenc.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/utf8.def
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/t1enc.dfu)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ot1enc.dfu)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omsenc.dfu)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/latin1.def))
    > No file Rd2.aux.
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ts1cmr.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd)
    > No file Rd2.toc.
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/utf8.def)
    > [1{/home/travis
    > /R-bin/texlive/texmf-var/fonts/map/pdftex/updmap/pdftex.map}] (./Rd2.aux)
    > ){/ho
    > me/travis/R-bin/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}</home/travis/R-
    > bin/texlive/texmf-dist/fonts/type1/urw/courier/ucrr8a.pfb></home/travis/R-bin/t
    > exlive/texmf-dist/fonts/type1/urw/helvetic/uhvr8a.pfb></home/travis/R-bin/texli
    > ve/texmf-dist/fonts/type1/urw/times/utmb8a.pfb></home/travis/R-bin/texlive/texm
    > f-dist/fonts/type1/urw/times/utmr8a.pfb></home/travis/R-bin/texlive/texmf-dist/
    > fonts/type1/urw/times/utmri8a.pfb>
    > Output written on Rd2.pdf (1 page, 46322 bytes).
    > Transcript written on Rd2.log.
    > This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (preloaded
    > format=pdflatex)
    > restricted \write18 enabled.
    > entering extended mode
    > (./Rd2.tex
    > LaTeX2e <2014/05/01>
    > Babel <3.9l> and hyphenation patterns for 2 languages loaded.

    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/book.cls
    > Document Class: book 2014/09/29 v1.4h Standard LaTeX document class
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/bk10.clo))
    > (/home/travis/R-bin/R-3.0.3/lib/R/share/texmf/tex/latex/Rd.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ifthen.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/tools/longtable.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/tools/bm.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/alltt.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/tools/verbatim.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/url/url.sty)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/textcomp.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ts1enc.def))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/fontenc.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/t1enc.def))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/times.sty))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/inputenc.sty
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/utf8.def
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/t1enc.dfu)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ot1enc.dfu)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/omsenc.dfu)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/latin1.def))
    > (./Rd2.aux)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/ts1cmr.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd)
    > (./Rd2.toc)
    > (/home/travis/R-bin/texlive/texmf-dist/tex/latex/base/utf8.def)
    > [1{/home/travis
    > /R-bin/texlive/texmf-var/fonts/map/pdftex/updmap/pdftex.map}] [2]
    > (./Rd2.aux) )
    > {/home/travis/R-bin/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}</home/travi
    > s/R-bin/texlive/texmf-dist/fonts/type1/urw/courier/ucrr8a.pfb></home/travis/R-b
    > in/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvr8a.pfb></home/travis/R-bin/t
    > exlive/texmf-dist/fonts/type1/urw/times/utmb8a.pfb></home/travis/R-bin/texlive/
    > texmf-dist/fonts/type1/urw/times/utmr8a.pfb></home/travis/R-bin/texlive/texmf-d
    > ist/fonts/type1/urw/times/utmr8a.pfb></home/travis/R-bin/texlive/texmf-dist/fon
    > ts/type1/urw/times/utmri8a.pfb>
    > Output written on Rd2.pdf (2 pages, 54276 bytes).
    > Transcript written on Rd2.log.
    > Saving output to 'rbuildertest-manual.pdf' ...
    > Done
    > You may want to clean up by 'rm -rf /tmp/RtmppU5OjJ/Rd2pdf10671bb8dd18'

    > [[alternative HTML version deleted]]

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[Rd] latex warning
Martin Maechler