Peter Dunn
2009-Apr-24 00:24 UTC
[R] Error building package: LaTeX error when creating PDF version
Hi all I am trying to build an R package, which I have successfully done many times before, but have an error I cannot trace. I hope someone can help me. Here's is some edited output (full output below if it is useful): pdunn2 at PDunnUbuntu:~/DSdata$ R CMD build GLMsData * checking for file 'GLMsData/DESCRIPTION' ... OK * preparing 'GLMsData': * checking DESCRIPTION meta-information ... OK * removing junk files * checking for LF line-endings in source and make files * checking for empty or unneeded directories * building 'GLMsData_0.7.tar.gz' pdunn2 at PDunnUbuntu:~/DSdata$ R CMD check GLMsData * checking for working pdflatex ... OK * using log directory '/home/pdunn2/DSdata/GLMsData.Rcheck' * using R version 2.9.0 (2009-04-17) <SNIP: No errors or warnings in sniped bit; everything is OK> * checking data for non-ASCII characters ... 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 index ... ERROR So there is an error making the PDf version of the package manual. That's fine; I am happy to fix it. But first I need to find it. So I enter the directory GLMsData.Rcheck and find the corresponding tex file for the manual, and run pdflatex on this tex file: pdunn2 at PDunnUbuntu:~/DSdata$ cd GLMsData.Rcheck/ pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ pdflatex GLMsData-manual.tex <SNIP again; no errors> Output written on GLMsData-manual.pdf (79 pages, 405091 bytes). Transcript written on GLMsData-manual.log. pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ So from what I gather: * R CMD check finds an error when using pdflatex to make the PDF version of the manual * But when I manually run pdflatex on the tex file, it works OK. Obviously, I am missing something. Can someone tell me what it is? I can't find enlightenment on the archives or the manuals. Thanks everyone. P.> sessionInfo()R version 2.9.0 (2009-04-17) i486-pc-linux-gnu locale: LC_CTYPE=en_AU.UTF-8;LC_NUMERIC=C;LC_TIME=en_AU.UTF-8;LC_COLLATE=en_AU.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_AU.UTF-8;LC_PAPER=en_AU.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_AU.UTF-8;LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base FULL OUTPUT: pdunn2 at PDunnUbuntu:~/DSdata$ R CMD build GLMsData * checking for file 'GLMsData/DESCRIPTION' ... OK * preparing 'GLMsData': * checking DESCRIPTION meta-information ... OK * removing junk files * checking for LF line-endings in source and make files * checking for empty or unneeded directories * building 'GLMsData_0.7.tar.gz' pdunn2 at PDunnUbuntu:~/DSdata$ R CMD check GLMsData * checking for working pdflatex ... OK * using log directory '/home/pdunn2/DSdata/GLMsData.Rcheck' * using R version 2.9.0 (2009-04-17) * using session charset: UTF-8 * checking for file 'GLMsData/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'GLMsData' version '0.7' * checking package dependencies ... OK * checking if this is a source package ... OK * checking for executable files ... OK * checking whether package 'GLMsData' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking Rd files ... OK * checking Rd files against version 2 parser ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking data for non-ASCII characters ... 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 index ... ERROR pdunn2 at PDunnUbuntu:~/DSdata$ cd GLMsData.Rcheck/ pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ pdflatex GLMsData-manual.tex This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) %&-line parsing enabled. entering extended mode (./GLMsData-manual.tex LaTeX2e <2005/12/01> Babel <v3.8h> and hyphenation patterns for english, usenglishmax, dumylang, noh yphenation, ukenglish, loaded. (/usr/share/texmf-texlive/tex/latex/base/book.cls Document Class: book 2005/09/16 v1.4f Standard LaTeX document class (/usr/share/texmf-texlive/tex/latex/base/bk10.clo)) (/usr/share/texmf/tex/latex/R/Rd.sty (/usr/share/texmf-texlive/tex/latex/base/ifthen.sty) (/usr/share/texmf-texlive/tex/latex/tools/longtable.sty) (/usr/share/texmf-texlive/tex/latex/tools/bm.sty) (/usr/share/texmf-texlive/tex/latex/base/alltt.sty) (/usr/share/texmf-texlive/tex/latex/tools/verbatim.sty) (/usr/share/texmf-texlive/tex/latex/ltxmisc/url.sty) (/usr/share/texmf/tex/latex/R/upquote.sty (/usr/share/texmf-texlive/tex/latex/base/textcomp.sty (/usr/share/texmf-texlive/tex/latex/base/ts1enc.def))) NOT loading ae (/usr/share/texmf-texlive/tex/latex/base/fontenc.sty (/usr/share/texmf-texlive/tex/latex/base/t1enc.def)) (/usr/share/texmf-texlive/tex/latex/psnfss/times.sty) NOT loading lmodern (/usr/share/texmf-texlive/tex/latex/graphics/color.sty (/etc/texmf/tex/latex/config/color.cfg) (/usr/share/texmf-texlive/tex/latex/pdftex-def/pdftex.def)) (/usr/share/texmf-texlive/tex/latex/hyperref/hyperref.sty (/usr/share/texmf-texlive/tex/latex/graphics/keyval.sty) (/usr/share/texmf-texlive/tex/latex/hyperref/pd1enc.def) (/etc/texmf/tex/latex/config/hyperref.cfg) (/usr/share/texmf-texlive/tex/latex/oberdiek/kvoptions.sty) Implicit mode ON; LaTeX internals redefined ) *hyperref using default driver hpdftex* (/usr/share/texmf-texlive/tex/latex/hyperref/hpdftex.def) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 315. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 315. ) (/usr/share/texmf-texlive/tex/latex/base/makeidx.sty) Writing index file GLMsData-manual.idx (./GLMsData-manual.aux) (/usr/share/texmf-texlive/tex/latex/base/ts1cmr.fd) (/usr/share/texmf-texlive/tex/latex/psnfss/t1ptm.fd) (/usr/share/texmf-texlive/tex/latex/hyperref/nameref.sty (/usr/share/texmf-texlive/tex/latex/oberdiek/refcount.sty)) (./GLMsData-manual.out) (./GLMsData-manual.out) (/usr/share/texmf-texlive/tex/latex/psnfss/t1phv.fd) (./GLMsData-manual.toc [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2]) (/usr/share/texmf-texlive/tex/latex/psnfss/t1pcr.fd) Underfull \vbox (badness 1014) has occurred while \output is active [3] [4] [5] [6] Overfull \hbox (51.62097pt too wide) in paragraph at lines 190--190 \T1/pcr/m/n/10 NorthWest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Scotland\T1/ptm/m/n/10 , \T1/pcr/m/n/10 SouthEast\T1/ptm/m/n/10 , \T1/pcr/m/n/10 SouthWest\T1/ptm/m/n/ 10 , \T1/pcr/m/n/10 Wales\T1/ptm/m/n/10 , \T1/pcr/m/n/10 WestMidlands \T1/ptm/m /n/10 and \T1/pcr/m/n/10 YorksHumbers [7] [8] Overfull \hbox (34.07922pt too wide) in paragraph at lines 270--270 []\T1/ptm/m/n/10 the cat-tle breed; a fac-tor with lev-els \T1/pcr/m/n/10 Ayrsh ire\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Canadian\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Guer nsey\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Holstein-Fresian [9] [10] [11] [12] [13] Overfull \hbox (10.57906pt too wide) in paragraph at lines 512--512 []\T1/ptm/m/n/10 the lo-ca-tion of the plot; a fac-tor with lev-els \T1/pcr/m/n /10 Bencubbin BindiBindi Gnowangerup [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Overfull \vbox (38.56093pt too high) has occurred while \output is active [28] Overfull \hbox (0.30684pt too wide) in paragraph at lines 1201--1208 []\T1/ptm/m/n/10 Brofeldt, Pekka: Bidrag till kaennedom on fiskbe-ston-det i va ara sjoear. Laen-gel-maevesi. T.H.Jaervi: [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Overfull \hbox (3.58647pt too wide) in paragraph at lines 1644--1644 []\T1/ptm/m/n/10 the treat-ment method; a fac-tor with lev-els \T1/pcr/m/n/10 A \T1/ptm/m/n/10 (open surgery) or \T1/pcr/m/n/10 B \T1/ptm/m/n/10 (per-cu-ta-ne ous nephrolitho- [39] [40] Overfull \hbox (2.34769pt too wide) in paragraph at lines 1725--1729 []\T1/ptm/m/n/10 The av-er-age in-comes on Long Is-land com-mu-ni-ties in 1979 and 1989, in 1989 US dol-lars. Poospatuck [41] [42] [43] [44] [45] Overfull \hbox (10.14717pt too wide) in paragraph at lines 1927--1931 []\T1/ptm/m/n/10 The orig-i-nal source is: \T1/ptm/m/it/10 Pro-ce-dures and Ana l-y-ses for Staffing Stan-dards De-vel-op-ment: Data/Regression [46] [47] [48] Overfull \hbox (23.06664pt too wide) in paragraph at lines 2090--2093 []\T1/ptm/m/n/10 Margolin, B. H., Ka-plan, N. and Zeiger, E. (1981). Sta-tis-ti -cal anal-y-sis of the Ames Salmonella/microsome [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] Overfull \hbox (46.54933pt too wide) in paragraph at lines 2514--2514 []\T1/ptm/m/n/10 the type of ser-vice; al-ways \T1/pcr/m/n/10 Fixed \T1/ptm/m/n /10 for \T1/pcr/m/n/10 ptransitfixed \T1/ptm/m/n/10 and al-ways \T1/pcr/m/n/10 Demand \T1/ptm/m/n/10 for \T1/pcr/m/n/10 ptransitdemand [59] [60] [61] [62] Underfull \vbox (badness 10000) has occurred while \output is active [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] Overfull \hbox (14.48874pt too wide) in paragraph at lines 3230--3233 []\T1/ptm/m/n/10 Cancer es-ti-mates from [][]$\T1/pcr/m/n/10 www . amazoncastle . com . feminism / action . htm$[][] \T1/ptm/m/n/10 (vis-ited 19 Septem- Overfull \hbox (0.6288pt too wide) in paragraph at lines 3263--3267 \T1/ptm/m/n/10 mortality and sur-vival. Pub-lished on the in-ter-net [][]$\T1/p cr/m/n/10 www . health . wa . gov . au / Publications / [75] Overfull \hbox (1.66795pt too wide) in paragraph at lines 3290--3290 []\T1/ptm/m/n/10 the smok-ing sta-tus of the women in the \T1/ptm/m/it/10 orig- i-nal \T1/ptm/m/n/10 sur-vey; a fac-tor with lev-els \T1/pcr/m/n/10 NonSmoker [76] [77] [78] No file GLMsData-manual.ind. [79] (./GLMsData-manual.aux) ) (see the transcript file for additional information){/usr/share/texmf-texlive/f onts/enc/dvips/base/8r.enc}</usr/share/texmf-texlive/fonts/type1/bluesky/cm/cmm i10.pfb></usr/share/texmf-texlive/fonts/type1/bluesky/cm/cmr10.pfb></usr/share/ texmf-texlive/fonts/type1/bluesky/cm/cmr7.pfb></usr/share/texmf-texlive/fonts/t ype1/bluesky/cm/cmsy10.pfb></usr/share/texmf-texlive/fonts/type1/bluesky/cm/cms y7.pfb></usr/share/texmf-texlive/fonts/type1/urw/courier/ucrb8a.pfb></usr/share /texmf-texlive/fonts/type1/urw/courier/ucrr8a.pfb></usr/share/texmf-texlive/fon ts/type1/urw/helvetic/uhvr8a.pfb></usr/share/texmf-texlive/fonts/type1/urw/time s/utmb8a.pfb></usr/share/texmf-texlive/fonts/type1/urw/times/utmr8a.pfb></usr/s hare/texmf-texlive/fonts/type1/urw/times/utmr8a.pfb></usr/share/texmf-texlive/f onts/type1/urw/times/utmri8a.pfb> Output written on GLMsData-manual.pdf (79 pages, 405091 bytes). Transcript written on GLMsData-manual.log. pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ -- Peter Dunn: Biostatistician School of Health and Sport Science Faculty of Science, Health and Education ML-34 University of the Sunshine Coast, Locked Bag 4 Maroochydore DC Qld 4558 Tel: +61 7 5456 5085 Fax: +61 7 5430 2896 Email: pdunn2 at usc.edu.au www.usc.edu.au CRICOS Provider Number: 01595D This communication is intended for the recipient only and should not be forwarded, distributed or otherwise read by others without express permission. The views expressed in this email are not necessarily those of the University of the Sunshine Coast. -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean.
Duncan Murdoch
2009-Apr-24 00:40 UTC
[R] Error building package: LaTeX error when creating PDF version
On 23/04/2009 8:24 PM, Peter Dunn wrote:> Hi all > > I am trying to build an R package, which I have successfully done many times before, but have an error I cannot trace. I hope someone can help me. > > Here's is some edited output (full output below if it is useful): > > pdunn2 at PDunnUbuntu:~/DSdata$ R CMD build GLMsData > * checking for file 'GLMsData/DESCRIPTION' ... OK > * preparing 'GLMsData': > * checking DESCRIPTION meta-information ... OK > * removing junk files > * checking for LF line-endings in source and make files > * checking for empty or unneeded directories > * building 'GLMsData_0.7.tar.gz' > > pdunn2 at PDunnUbuntu:~/DSdata$ R CMD check GLMsData > * checking for working pdflatex ... OK > * using log directory '/home/pdunn2/DSdata/GLMsData.Rcheck' > * using R version 2.9.0 (2009-04-17) > > <SNIP: No errors or warnings in sniped bit; everything is OK> > > * checking data for non-ASCII characters ... 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 index ... ERROR > > > So there is an error making the PDf version of the package manual. That's fine; I am happy to fix it. But first I need to find it. > > So I enter the directory GLMsData.Rcheck and find the corresponding tex file for the manual, and run pdflatex on this tex file: > > pdunn2 at PDunnUbuntu:~/DSdata$ cd GLMsData.Rcheck/ > pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ pdflatex GLMsData-manual.tex > > <SNIP again; no errors> > > Output written on GLMsData-manual.pdf (79 pages, 405091 bytes). > Transcript written on GLMsData-manual.log. > pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ > > > So from what I gather: > * R CMD check finds an error when using pdflatex to make the PDF version of the manual > * But when I manually run pdflatex on the tex file, it works OK. > > Obviously, I am missing something. Can someone tell me what it is? I can't find enlightenment on the archives or the manuals.You should also have a .log file in the same directory as the .tex file. You probably have a new one now that pdflatex works; please move that one aside and run R CMD check again. If you get a .log file, it should list whatever the error was; you could compare it to the .log that worked if you can't spot it. If you don't get a new log, that means R CMD check couldn't run pdflatex. Duncan Murdoch> > Thanks everyone. > > P. > > > >> sessionInfo() > R version 2.9.0 (2009-04-17) > i486-pc-linux-gnu > > locale: > LC_CTYPE=en_AU.UTF-8;LC_NUMERIC=C;LC_TIME=en_AU.UTF-8;LC_COLLATE=en_AU.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_AU.UTF-8;LC_PAPER=en_AU.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_AU.UTF-8;LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > > > > > FULL OUTPUT: > > pdunn2 at PDunnUbuntu:~/DSdata$ R CMD build GLMsData > * checking for file 'GLMsData/DESCRIPTION' ... OK > * preparing 'GLMsData': > * checking DESCRIPTION meta-information ... OK > * removing junk files > * checking for LF line-endings in source and make files > * checking for empty or unneeded directories > * building 'GLMsData_0.7.tar.gz' > > pdunn2 at PDunnUbuntu:~/DSdata$ R CMD check GLMsData > * checking for working pdflatex ... OK > * using log directory '/home/pdunn2/DSdata/GLMsData.Rcheck' > * using R version 2.9.0 (2009-04-17) > * using session charset: UTF-8 > * checking for file 'GLMsData/DESCRIPTION' ... OK > * checking extension type ... Package > * this is package 'GLMsData' version '0.7' > * checking package dependencies ... OK > * checking if this is a source package ... OK > * checking for executable files ... OK > * checking whether package 'GLMsData' can be installed ... OK > * checking package directory ... OK > * checking for portable file names ... OK > * checking for sufficient/correct file permissions ... OK > * checking DESCRIPTION meta-information ... OK > * checking top-level files ... OK > * checking index information ... OK > * checking package subdirectories ... OK > * checking whether the package can be loaded ... OK > * checking whether the package can be loaded with stated dependencies ... OK > * checking Rd files ... OK > * checking Rd files against version 2 parser ... OK > * checking Rd cross-references ... OK > * checking for missing documentation entries ... OK > * checking for code/documentation mismatches ... OK > * checking Rd \usage sections ... OK > * checking data for non-ASCII characters ... 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 index ... ERROR > pdunn2 at PDunnUbuntu:~/DSdata$ cd GLMsData.Rcheck/ > pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ pdflatex GLMsData-manual.tex > This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) > %&-line parsing enabled. > entering extended mode > (./GLMsData-manual.tex > LaTeX2e <2005/12/01> > Babel <v3.8h> and hyphenation patterns for english, usenglishmax, dumylang, noh > yphenation, ukenglish, loaded. > > (/usr/share/texmf-texlive/tex/latex/base/book.cls > Document Class: book 2005/09/16 v1.4f Standard LaTeX document class > (/usr/share/texmf-texlive/tex/latex/base/bk10.clo)) > (/usr/share/texmf/tex/latex/R/Rd.sty > (/usr/share/texmf-texlive/tex/latex/base/ifthen.sty) > (/usr/share/texmf-texlive/tex/latex/tools/longtable.sty) > (/usr/share/texmf-texlive/tex/latex/tools/bm.sty) > (/usr/share/texmf-texlive/tex/latex/base/alltt.sty) > (/usr/share/texmf-texlive/tex/latex/tools/verbatim.sty) > (/usr/share/texmf-texlive/tex/latex/ltxmisc/url.sty) > (/usr/share/texmf/tex/latex/R/upquote.sty > (/usr/share/texmf-texlive/tex/latex/base/textcomp.sty > (/usr/share/texmf-texlive/tex/latex/base/ts1enc.def))) NOT loading ae > (/usr/share/texmf-texlive/tex/latex/base/fontenc.sty > (/usr/share/texmf-texlive/tex/latex/base/t1enc.def)) > (/usr/share/texmf-texlive/tex/latex/psnfss/times.sty) NOT loading lmodern > (/usr/share/texmf-texlive/tex/latex/graphics/color.sty > (/etc/texmf/tex/latex/config/color.cfg) > (/usr/share/texmf-texlive/tex/latex/pdftex-def/pdftex.def)) > (/usr/share/texmf-texlive/tex/latex/hyperref/hyperref.sty > (/usr/share/texmf-texlive/tex/latex/graphics/keyval.sty) > (/usr/share/texmf-texlive/tex/latex/hyperref/pd1enc.def) > (/etc/texmf/tex/latex/config/hyperref.cfg) > (/usr/share/texmf-texlive/tex/latex/oberdiek/kvoptions.sty) > Implicit mode ON; LaTeX internals redefined > ) > *hyperref using default driver hpdftex* > (/usr/share/texmf-texlive/tex/latex/hyperref/hpdftex.def) > > Package hyperref Warning: Option `hyperindex' has already been used, > (hyperref) setting the option has no effect on input line 315. > > > Package hyperref Warning: Option `pagebackref' has already been used, > (hyperref) setting the option has no effect on input line 315. > > ) (/usr/share/texmf-texlive/tex/latex/base/makeidx.sty) > Writing index file GLMsData-manual.idx > (./GLMsData-manual.aux) (/usr/share/texmf-texlive/tex/latex/base/ts1cmr.fd) > (/usr/share/texmf-texlive/tex/latex/psnfss/t1ptm.fd) > (/usr/share/texmf-texlive/tex/latex/hyperref/nameref.sty > (/usr/share/texmf-texlive/tex/latex/oberdiek/refcount.sty)) > (./GLMsData-manual.out) (./GLMsData-manual.out) > (/usr/share/texmf-texlive/tex/latex/psnfss/t1phv.fd) (./GLMsData-manual.toc > [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2]) > (/usr/share/texmf-texlive/tex/latex/psnfss/t1pcr.fd) > Underfull \vbox (badness 1014) has occurred while \output is active [3] > [4] [5] [6] > Overfull \hbox (51.62097pt too wide) in paragraph at lines 190--190 > \T1/pcr/m/n/10 NorthWest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Scotland\T1/ptm/m/n/10 > , \T1/pcr/m/n/10 SouthEast\T1/ptm/m/n/10 , \T1/pcr/m/n/10 SouthWest\T1/ptm/m/n/ > 10 , \T1/pcr/m/n/10 Wales\T1/ptm/m/n/10 , \T1/pcr/m/n/10 WestMidlands \T1/ptm/m > /n/10 and \T1/pcr/m/n/10 YorksHumbers > [7] [8] > Overfull \hbox (34.07922pt too wide) in paragraph at lines 270--270 > []\T1/ptm/m/n/10 the cat-tle breed; a fac-tor with lev-els \T1/pcr/m/n/10 Ayrsh > ire\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Canadian\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Guer > nsey\T1/ptm/m/n/10 , \T1/pcr/m/n/10 Holstein-Fresian > [9] [10] [11] [12] [13] > Overfull \hbox (10.57906pt too wide) in paragraph at lines 512--512 > []\T1/ptm/m/n/10 the lo-ca-tion of the plot; a fac-tor with lev-els \T1/pcr/m/n > /10 Bencubbin BindiBindi Gnowangerup > [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] > Overfull \vbox (38.56093pt too high) has occurred while \output is active > [28] > Overfull \hbox (0.30684pt too wide) in paragraph at lines 1201--1208 > []\T1/ptm/m/n/10 Brofeldt, Pekka: Bidrag till kaennedom on fiskbe-ston-det i va > ara sjoear. Laen-gel-maevesi. T.H.Jaervi: > [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] > Overfull \hbox (3.58647pt too wide) in paragraph at lines 1644--1644 > []\T1/ptm/m/n/10 the treat-ment method; a fac-tor with lev-els \T1/pcr/m/n/10 A > \T1/ptm/m/n/10 (open surgery) or \T1/pcr/m/n/10 B \T1/ptm/m/n/10 (per-cu-ta-ne > ous nephrolitho- > [39] [40] > Overfull \hbox (2.34769pt too wide) in paragraph at lines 1725--1729 > []\T1/ptm/m/n/10 The av-er-age in-comes on Long Is-land com-mu-ni-ties in 1979 > and 1989, in 1989 US dol-lars. Poospatuck > [41] [42] [43] [44] [45] > Overfull \hbox (10.14717pt too wide) in paragraph at lines 1927--1931 > []\T1/ptm/m/n/10 The orig-i-nal source is: \T1/ptm/m/it/10 Pro-ce-dures and Ana > l-y-ses for Staffing Stan-dards De-vel-op-ment: Data/Regression > [46] [47] [48] > Overfull \hbox (23.06664pt too wide) in paragraph at lines 2090--2093 > []\T1/ptm/m/n/10 Margolin, B. H., Ka-plan, N. and Zeiger, E. (1981). Sta-tis-ti > -cal anal-y-sis of the Ames Salmonella/microsome > [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] > Overfull \hbox (46.54933pt too wide) in paragraph at lines 2514--2514 > []\T1/ptm/m/n/10 the type of ser-vice; al-ways \T1/pcr/m/n/10 Fixed \T1/ptm/m/n > /10 for \T1/pcr/m/n/10 ptransitfixed \T1/ptm/m/n/10 and al-ways \T1/pcr/m/n/10 > Demand \T1/ptm/m/n/10 for \T1/pcr/m/n/10 ptransitdemand > [59] [60] [61] [62] > Underfull \vbox (badness 10000) has occurred while \output is active [63] > [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] > Overfull \hbox (14.48874pt too wide) in paragraph at lines 3230--3233 > []\T1/ptm/m/n/10 Cancer es-ti-mates from [][]$\T1/pcr/m/n/10 www . amazoncastle > . com . feminism / action . htm$[][] \T1/ptm/m/n/10 (vis-ited 19 Septem- > > Overfull \hbox (0.6288pt too wide) in paragraph at lines 3263--3267 > \T1/ptm/m/n/10 mortality and sur-vival. Pub-lished on the in-ter-net [][]$\T1/p > cr/m/n/10 www . health . wa . gov . au / Publications / > [75] > Overfull \hbox (1.66795pt too wide) in paragraph at lines 3290--3290 > []\T1/ptm/m/n/10 the smok-ing sta-tus of the women in the \T1/ptm/m/it/10 orig- > i-nal \T1/ptm/m/n/10 sur-vey; a fac-tor with lev-els \T1/pcr/m/n/10 NonSmoker > [76] [77] [78] > No file GLMsData-manual.ind. > [79] (./GLMsData-manual.aux) ) > (see the transcript file for additional information){/usr/share/texmf-texlive/f > onts/enc/dvips/base/8r.enc}</usr/share/texmf-texlive/fonts/type1/bluesky/cm/cmm > i10.pfb></usr/share/texmf-texlive/fonts/type1/bluesky/cm/cmr10.pfb></usr/share/ > texmf-texlive/fonts/type1/bluesky/cm/cmr7.pfb></usr/share/texmf-texlive/fonts/t > ype1/bluesky/cm/cmsy10.pfb></usr/share/texmf-texlive/fonts/type1/bluesky/cm/cms > y7.pfb></usr/share/texmf-texlive/fonts/type1/urw/courier/ucrb8a.pfb></usr/share > /texmf-texlive/fonts/type1/urw/courier/ucrr8a.pfb></usr/share/texmf-texlive/fon > ts/type1/urw/helvetic/uhvr8a.pfb></usr/share/texmf-texlive/fonts/type1/urw/time > s/utmb8a.pfb></usr/share/texmf-texlive/fonts/type1/urw/times/utmr8a.pfb></usr/s > hare/texmf-texlive/fonts/type1/urw/times/utmr8a.pfb></usr/share/texmf-texlive/f > onts/type1/urw/times/utmri8a.pfb> > Output written on GLMsData-manual.pdf (79 pages, 405091 bytes). > Transcript written on GLMsData-manual.log. > pdunn2 at PDunnUbuntu:~/DSdata/GLMsData.Rcheck$ > > > > >
Patrick Perry
2009-May-05 18:13 UTC
[R] Error building package: LaTeX error when creating PDF version
I recently came across the same problem reported here:
http://tolstoy.newcastle.edu.au/R/e6/help/09/04/12383.html
The fix was to edit "$R_HOME/etc/Renviron" and change
R_PDFLATEXCMD=${R_PDFLATEXCMD-${PDFLATEX-'/usr/texbin/pdflatex'}}
to
R_PDFLATEXCMD=${R_PDFLATEXCMD-${PDFLATEX-'pdflatex'}}
with similar modifications to the other TeX-related commands.
Patrick