[R-SIG-Mac] Error creating Reference Manual for R-packages with MacTeX

[cstrato]

Since David Winsemius was so kind to send me a private mail showing his 
output of "locate pcrr8t" for TeXworks I was finally able to solve the 
problem.

For the records and others who have installed only BasicTeX:

The problem is that BasicTeX installs only the Adobe 'times' font but 
not 'courier'. For this reason I had to install package 'courier' (and 
'helvetic') using 'TeX Live Utility.app'

Christian


On 5/7/10 7:34 PM, cstrato wrote:
> Dear all,
>
> After a fresh installation of Snow Leopard I have installed the smaller
> distribution of MacTeX (BasicTeX.dmg and MacTeX-Additions-2009.mpkg)
> from: http://www.tug.org/mactex/2009/morepackages.html
>
> While this version of MacTeX is able to create pdf-files for the
> vignettes R CMD check fails to create pdf-files for the Reference
> Manuals. To make sure that this is not a problem of my package only I
> have tested this with the following packages:
> DynDoc_1.26.0.tar.gz
> externalVector_1.14.0.tar.gz
> gpls_1.20.0.tar.gz
> Icens_1.20.0.tar.gz
> preprocessCore_1.10.0.tar.gz
> xps_1.9.0.tar.gz
>
> As the different Rdlatex.log reveal, the problem is always the same:
> kpathsea: Running mktexmf pcrr8t
> ! I can't find file `pcrr8t'.
>
> For example the relevant output of "R CMD check DynDoc_1.26.0.tar.gz" is:
>
> * checking PDF version of manual ... WARNING
> LaTeX errors when creating PDF version.
> This typically indicates Rd problems.
> LaTeX errors found:
> ! Font T1/pcr/m/n/10=pcrr8t at 10.0pt not loadable: Metric (TFM) file
> not found
> .
> <to be read again>
> relax
> l.23 \email{bioconductor at stat.math.ethz.ch}}
> ! Font T1/phv/m/n/14.4=phvr8t at 14.4pt not loadable: Metric (TFM) file
> not fou
> nd.
> <to be read again>
> relax
> l.30 \Rdcontents{\R{} topics documented:}
> ! Font T1/pcr/m/n/9=pcrr8t at 9.0pt not loadable: Metric (TFM) file not
> found.
> <to be read again>
> relax
> l.109 \begin{ExampleCode}
>
> * checking PDF version of manual without index ... ERROR
>
>
> Below I attach the complete output of Rdlatex.log for R CMD check DynDoc.
>
> Since doing a Google search did not reveal any helpful information my
> question is:
>
> Is there any file missing from BasicTeX which I need to install?
> (According to the web-site "BasicTeX contains all of the standard tools
> needed to write TeX documents...")
>
> Thank you in advance.
> Best regards
> Christian
> _._._._._._._._._._._._._._._._._._
> C.h.r.i.s.t.i.a.n S.t.r.a.t.o.w.a
> V.i.e.n.n.a A.u.s.t.r.i.a
> e.m.a.i.l: cstrato at aon.at
> _._._._._._._._._._._._._._._._._._
>
>
> Here is the complete output of Rdlatex.log for R CMD check DynDoc:
>
> Hmm ... looks like a package
> Creating pdf output from LaTeX ...
> This is pdfTeX, Version 3.1415926-1.40.10 (TeX Live 2009)
> entering extended mode
> (./Rd2.tex
> LaTeX2e <2009/09/24>
> Babel <v3.8l> and hyphenation patterns for english, usenglishmax,
> dumylang, noh
> yphenation, basque, danish, dutch, finnish, french, german, ngerman,
> hungarian,
> italian, bokmal, nynorsk, polish, portuguese, spanish, swedish,
> ukenglish, loa
> ded.
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/book.cls
> Document Class: book 2007/10/19 v1.4h Standard LaTeX document class
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/bk10.clo))
> (/Library/Frameworks/R.framework/Resources/share/texmf/Rd.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/ifthen.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/tools/longtable.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/tools/bm.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/alltt.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/tools/verbatim.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/ltxmisc/url.sty)
> (/Library/Frameworks/R.framework/Resources/share/texmf/upquote.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/textcomp.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/ts1enc.def)))
> NOT loading ae
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/fontenc.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/t1enc.def))
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/psnfss/times.sty)
> NOT loading lmodern
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/graphics/color.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/latexconfig/color.cfg)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/pdftex-def/pdftex.def))
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/hyperref/hyperref.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/graphics/keyval.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/kvsetkeys.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/infwarerr.sty)
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/etexcmds.sty))
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/pdfescape.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/pdftexcmds.sty
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/ifluatex.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/ltxcmds.sty)))
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/ifpdf.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/ifvtex.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/ifxetex/ifxetex.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/oberdiek/hycolor.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/oberdiek/xcolor-patch.sty))
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/hyperref/pd1enc.def)
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/intcalc.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/latexconfig/hyperref.cfg)
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/oberdiek/kvoptions.sty)
> Implicit mode ON; LaTeX internals redefined
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/bitset.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/bigintcalc.sty))
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/atbegshi.sty))
>
> *hyperref using default driver hpdftex*
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/hyperref/hpdftex.def
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/atveryend.sty)
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/rerunfilecheck.st
>
> y
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/uniquecounter.sty
>
> )))
>
> Package hyperref Warning: Option `hyperindex' has already been used,
> (hyperref) setting the option has no effect on input line 327.
>
>
> Package hyperref Warning: Option `pagebackref' has already been used,
> (hyperref) setting the option has no effect on input line 327.
>
> ) (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/makeidx.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/inputenc.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/t1enc.dfu)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/ot1enc.dfu)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/omsenc.dfu)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/ts1enc.dfu))
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/latin1.def))
> Writing index file Rd2.idx
> No file Rd2.aux.
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/ts1cmr.fd)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/psnfss/t1ptm.fd)
> (/usr/local/texlive/2009basic/texmf-dist/tex/context/base/supp-pdf.mkii
> [Loading MPS to PDF converter (version 2006.09.02).]
> ) (/usr/local/texlive/2009basic/texmf-dist/tex/latex/hyperref/nameref.sty
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/oberdiek/refcount.sty)
> (/usr/local/texlive/2009basic/texmf-dist/tex/generic/oberdiek/gettitlestring.st
>
> y)) (/usr/local/texlive/2009basic/texmf-dist/tex/latex/psnfss/t1pcr.fd)
> kpathsea: Running mktextfm pcrr8t
> mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1;
> nonstopmode; input pcrr8t
> This is METAFONT, Version 2.718281 (TeX Live 2009)
>
> kpathsea: Running mktexmf pcrr8t
>
> ! I can't find file `pcrr8t'.
> <*> ...:=ljfour; mag:=1; nonstopmode; input pcrr8t
>
> Please type another input file name
> ! Emergency stop.
> <*> ...:=ljfour; mag:=1; nonstopmode; input pcrr8t
>
> Transcript written on mfput.log.
> grep: pcrr8t.log: No such file or directory
> mktextfm: `mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode;
> input pcrr8t' failed to make pcrr8t.tfm.
> kpathsea: Appending font creation commands to missfont.log.
>
> ! Font T1/pcr/m/n/10=pcrr8t at 10.0pt not loadable: Metric (TFM) file
> not found
> .
> <to be read again>
> relax
> l.23 \email{bioconductor at stat.math.ethz.ch}}
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/psnfss/t1phv.fd)
> kpathsea: Running mktextfm phvr8t
> mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1;
> nonstopmode; input phvr8t
> This is METAFONT, Version 2.718281 (TeX Live 2009)
>
> kpathsea: Running mktexmf phvr8t
>
> ! I can't find file `phvr8t'.
> <*> ...:=ljfour; mag:=1; nonstopmode; input phvr8t
>
> Please type another input file name
> ! Emergency stop.
> <*> ...:=ljfour; mag:=1; nonstopmode; input phvr8t
>
> Transcript written on mfput.log.
> grep: phvr8t.log: No such file or directory
> mktextfm: `mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode;
> input phvr8t' failed to make phvr8t.tfm.
>
> ! Font T1/phv/m/n/14.4=phvr8t at 14.4pt not loadable: Metric (TFM) file
> not fou
> nd.
> <to be read again>
> relax
> l.30 \Rdcontents{\R{} topics documented:}
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def)
> [1{/usr/local
> /texlive/2009basic/texmf-var/fonts/map/pdftex/updmap/pdftex.map}]
> kpathsea: Running mktextfm pcrr8t
> mktextfm: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1;
> nonstopmode; input pcrr8t
> This is METAFONT, Version 2.718281 (TeX Live 2009)
>
> kpathsea: Running mktexmf pcrr8t
>
> ! I can't find file `pcrr8t'.
> <*> ...:=ljfour; mag:=1; nonstopmode; input pcrr8t
>
> Please type another input file name
> ! Emergency stop.
> <*> ...:=ljfour; mag:=1; nonstopmode; input pcrr8t
>
> Transcript written on mfput.log.
> grep: pcrr8t.log: No such file or directory
> mktextfm: `mf-nowin -progname=mf \mode:=ljfour; mag:=1; nonstopmode;
> input pcrr8t' failed to make pcrr8t.tfm.
>
> ! Font T1/pcr/m/n/9=pcrr8t at 9.0pt not loadable: Metric (TFM) file not
> found.
> <to be read again>
> relax
> l.109 \begin{ExampleCode}
>
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [2]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [3]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [4]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [5]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [6]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def)
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [7]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [8]
> (/usr/local/texlive/2009basic/texmf-dist/tex/latex/base/utf8.def) [9]
> No file Rd2.ind.
> [10] (./Rd2.aux)
>
> Package rerunfilecheck Warning: File `Rd2.out' has changed.
> (rerunfilecheck) Rerun to get outlines right
> (rerunfilecheck) or use package `bookmark'.
>
> )
> (see the transcript file for additional information)pdfTeX warning
> (dest): name
> {Rfn.Stangle} has been referenced but does not exist, replaced by a
> fixed one
>
> pdfTeX warning (dest): name{Rfn.vignette} has been referenced but does
> not exis
> t, replaced by a fixed one
>
> pdfTeX warning (dest): name{Rfn.Sweave} has been referenced but does not
> exist,
> replaced by a fixed one
>
> {/usr/local/texlive/2009basic/texmf-dist/fonts/enc/dvips/base/8r.enc}</usr/loca
>
> l/texlive/2009basic/texmf-dist/fonts/type1/urw/times/utmb8a.pfb></usr/local/tex
>
> live/2009basic/texmf-dist/fonts/type1/urw/times/utmr8a.pfb></usr/local/texlive/
>
> 2009basic/texmf-dist/fonts/type1/urw/times/utmr8a.pfb></usr/local/texlive/2009b
>
> asic/texmf-dist/fonts/type1/urw/times/utmri8a.pfb>
> Output written on Rd2.pdf (10 pages, 103652 bytes).
> Transcript written on Rd2.log.
> Error in running pdflatex command ('pdflatex')
> You may want to clean up by 'rm -rf /Users/rabbitus/temp/Rd2dvi245641692'