[R-SIG-Mac] latex errors, Rd problems
Adrian Dușa
dusa.adrian at unibuc.ro
Sat Mar 21 20:02:25 CET 2015
On Sat, Mar 21, 2015 at 3:09 PM, Prof Brian Ripley <ripley at stats.ox.ac.uk>
wrote:
> On 21/03/2015 12:38, Adrian Dușa wrote:
>
>> [...]
>
>
> 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.
Already tried that (in my first post), and I get:
###
Adrians-MBP:~ dusadrian$ R CMD Rd2pdf --no-clean DDIwR/
Hmm ... looks like a package
Converting Rd files to LaTeX
Creating pdf output from LaTeX ...
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
Output:
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
Output:
Error in running tools::texi2pdf()
You may want to clean up by 'rm -rf .Rd2pdf19534'
###
My search for this problem boiled down to texi2dvi which doesn't seem to be
found, despite a full reinstall of a fresh MacTeX-2014.
As far as I read, texi2dvi <should> be found, so my next guess was a path
issue, which gives:
Adrians-MBP:~ dusadrian$ $PATH
-bash:
/usr/local/mysql/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/usr/local/MacGPG2/bin:/usr/texbin:
No such file or directory
"No such file or directory" (probably for /usr/texbin)... and this is where
I got stuck.
Curiously, there <is> a .tex file in the DDIwR.Rcheck directory, and
running texi2dvi (although it previously complained it could not find it)
gives:
###
Adrians-MBP:~ dusadrian$ texi2dvi -D --pdf DDIwR.Rcheck/DDIwR-manual.tex
+ for command_line_filename in '${1+"$@"}'
+ false 'Processing DDIwR.Rcheck/DDIwR-manual.tex ...'
+ echo DDIwR.Rcheck/DDIwR-manual.tex
+ egrep '^(/|[A-z]:/)'
+ command_line_filename=./DDIwR.Rcheck/DDIwR-manual.tex
+ test '!' -r ./DDIwR.Rcheck/DDIwR-manual.tex
++ sed 's!/[^/]*$!!;s!^$!.!'
++ echo ./DDIwR.Rcheck/DDIwR-manual.tex
+ filename_dir=./DDIwR.Rcheck
++ cd ./DDIwR.Rcheck
++ pwd
+ filename_dir=/Users/dusadrian/DDIwR.Rcheck
++ basename ./DDIwR.Rcheck/DDIwR-manual.tex
+ filename_ext=DDIwR-manual.tex
++ echo DDIwR-manual.tex
++ sed 's/\.[^.]*$//'
+ filename_noext=DDIwR-manual
++ echo DDIwR-manual.tex
++ sed 's/^.*\.//'
+ ext=tex
+ tmpdir_src=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/src
+
filename_src=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/src/DDIwR-manual.tex
+ tmpdir_xtr=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/xtr
+
filename_xtr=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/xtr/DDIwR-manual.tex
+ tmpdir_rcd=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/rcd
+
filename_rcd=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/rcd/DDIwR-manual.tex
+ tmpdir_bak=/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/bak
+ mkdir /var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/src
/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/xtr
/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/rcd
/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/bak
+ common=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ for var in '$tex_envvars'
+ eval 'BIBINPUTS=$common$BIBINPUTS_orig'
++ BIBINPUTS=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ export BIBINPUTS
+ for var in '$tex_envvars'
+ eval 'BSTINPUTS=$common$BSTINPUTS_orig'
++ BSTINPUTS=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ export BSTINPUTS
+ for var in '$tex_envvars'
+ eval 'INDEXSTYLE=$common$INDEXSTYLE_orig'
++ INDEXSTYLE=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ export INDEXSTYLE
+ for var in '$tex_envvars'
+ eval 'TEXINPUTS=$common$TEXINPUTS_orig'
++ TEXINPUTS=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ export TEXINPUTS
+ replace_empty='-e '\''s/^:/EMPTY:/g'\'' -e
'\''s/:$/:EMPTY/g'\'' -e '\''s/::/:EMPTY:/g'\'''
++ echo /Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
++ eval sed -e ''\''s/^:/EMPTY:/g'\''' -e ''\''s/:$/:EMPTY/g'\''' -e
''\''s/::/:EMPTY:/g'\'''
+++ sed -e 's/^:/EMPTY:/g' -e 's/:$/:EMPTY/g' -e s/::/:EMPTY:/g
+ TEXINPUTS=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:EMPTY
++ echo /Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
++ eval sed -e ''\''s/^:/EMPTY:/g'\''' -e ''\''s/:$/:EMPTY/g'\''' -e
''\''s/::/:EMPTY:/g'\'''
+++ sed -e 's/^:/EMPTY:/g' -e 's/:$/:EMPTY/g' -e s/::/:EMPTY:/g
+ INDEXSTYLE=/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:EMPTY
+ save_IFS='
'
+ IFS=:
+ set x /Users/dusadrian /Users/dusadrian/DDIwR.Rcheck EMPTY
+ shift
+ TEXINPUTS=.
+ for dir in '"$@"'
+ case $dir in
+ TEXINPUTS=.:/Users/dusadrian
+ for dir in '"$@"'
+ case $dir in
+ TEXINPUTS=.:/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck
+ for dir in '"$@"'
+ case $dir in
+ TEXINPUTS=.:/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ set x /Users/dusadrian /Users/dusadrian/DDIwR.Rcheck EMPTY
+ shift
+ INDEXSTYLE=.
+ for dir in '"$@"'
+ case $dir in
+ INDEXSTYLE=.:/Users/dusadrian
+ for dir in '"$@"'
+ case $dir in
+ INDEXSTYLE=.:/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck
+ for dir in '"$@"'
+ case $dir in
+ INDEXSTYLE=.:/Users/dusadrian:/Users/dusadrian/DDIwR.Rcheck:
+ IFS='
'
+ test -n ''
+ sed 1q ./DDIwR.Rcheck/DDIwR-manual.tex
+ grep 'input texinfo'
+ language=
+ case ${language:-$filename_ext} in
+ language=latex
+ bibtex=bibtex
+ makeinfo=
+ texindex=makeindex
+ textra_cmd=1i
+ test pdf = dvi
+ tex=pdflatex
+ thumbpdf=thumbpdf
++ cd /var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553
++ pdflatex --help
+ tex_help='Usage: pdftex [OPTION]... [TEXNAME[.tex]] [COMMANDS]
or: pdftex [OPTION]... \FIRST-LINE
or: pdftex [OPTION]... &FMT ARGS
Run pdfTeX on TEXNAME, usually creating TEXNAME.pdf.
Any remaining COMMANDS are processed as pdfTeX input, after TEXNAME is
read.
If the first line of TEXNAME is %&FMT, and FMT is an existing .fmt file,
use it. Else use `NAME.fmt'\'', where NAME is the program invocation
name,
most commonly `pdftex'\''.
Alternatively, if the first non-option argument begins with a backslash,
interpret all non-option arguments as a line of pdfTeX input.
Alternatively, if the first non-option argument begins with a &, the
next word is taken as the FMT to read, overriding all else. Any
remaining arguments are processed as above.
If no arguments or options are specified, prompt for input.
-draftmode switch on draft mode (generates no output PDF)
-enc enable encTeX extensions such as \mubyte
-etex enable e-TeX extensions
[-no]-file-line-error disable/enable file:line:error style messages
-fmt=FMTNAME use FMTNAME instead of program name or a %& line
-halt-on-error stop processing at the first error
-ini be pdfinitex, for dumping formats; this is
implicitly
true if the program name is `pdfinitex'\''
-interaction=STRING set interaction mode (STRING=batchmode/nonstopmode/
scrollmode/errorstopmode)
-ipc send DVI output to a socket as well as the usual
output file
-ipc-start as -ipc, and also start the server at the other end
-jobname=STRING set the job name to STRING
-kpathsea-debug=NUMBER set path searching debugging flags according to
the bits of NUMBER
[-no]-mktex=FMT disable/enable mktexFMT generation (FMT=tex/tfm/pk)
-mltex enable MLTeX extensions such as \charsubdef
-output-comment=STRING use STRING for DVI file comment instead of date
(no effect for PDF)
-output-directory=DIR use existing DIR as the directory to write files in
-output-format=FORMAT use FORMAT for job output; FORMAT is `dvi'\'' or
`pdf'\''
[-no]-parse-first-line disable/enable parsing of first line of input file
-progname=STRING set program (and fmt) name to STRING
-recorder enable filename recorder
[-no]-shell-escape disable/enable \write18{SHELL COMMAND}
-shell-restricted enable restricted \write18
-src-specials insert source specials into the DVI file
-src-specials=WHERE insert source specials in certain places of
the DVI file. WHERE is a comma-separated value
list: cr display hbox math par parend vbox
-synctex=NUMBER generate SyncTeX data for previewers if nonzero
-translate-file=TCXNAME use the TCX file TCXNAME
-8bit make all characters printable by default
-help display this help and exit
-version output version information and exit
Email bug reports to pdftex at tug.org.'
+ tex_args=
+ case $tex_help in
+ tex_args=' --file-line-error'
+ false
+ test -n ''
+ test 0 -ne 0
+ test '!' -r
/var/folders/wl/xtd1693n1jsfff4c_zl06vgw0000gn/T//t2d19553/src/DDIwR-manual.tex
+ false 'Reverting to ./DDIwR.Rcheck/DDIwR-manual.tex ...'
+ filename_input=/Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex
+ test -n ''
+ test latex = texinfo
+ test '' = t
+ :
++ get_xref_files DDIwR-manual
++ for this_file in '"$1".?o?' '"$1".aux' '"$1".??' '"$1".idx'
++ test -s DDIwR-manual.log
+++ sed -n '1s/^\(.\).*$/\1/p;q' DDIwR-manual.log
++ first_character=T
++ test xT = 'x\'
++ test xT = 'x'\'''
++ test xT = x@
++ for this_file in '"$1".?o?' '"$1".aux' '"$1".??' '"$1".idx'
++ test -s DDIwR-manual.aux
++ continue
++ for this_file in '"$1".?o?' '"$1".aux' '"$1".??' '"$1".idx'
++ test -s 'DDIwR-manual.??'
++ continue
++ for this_file in '"$1".?o?' '"$1".aux' '"$1".??' '"$1".idx'
++ test -s DDIwR-manual.idx
++ continue
++ echo ''
+ orig_xref_files=
+ test -n ''
+ test -n bibtex
+ test -r DDIwR-manual.aux
++ echo ''
++ sed 's!.*\.aux!!g;
s!./DDIwR-manual\.[^ ]o[^ ]!!g;
s/^[ ]*//;s/[ ]*$//'
+ index_files=
+ test -n makeindex
+ test -n ''
+ cmd='pdflatex --file-line-error'
+ false 'Running pdflatex --file-line-error
/Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex ...'
+ pdflatex --file-line-error /Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex
This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (preloaded
format=pdflatex)
restricted \write18 enabled.
entering extended mode
(/Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex
LaTeX2e <2014/05/01>
Babel <3.9k> and hyphenation patterns for 78 languages loaded.
(/usr/local/texlive/2014/texmf-dist/tex/latex/base/book.cls
Document Class: book 2007/10/19 v1.4h Standard LaTeX document class
(/usr/local/texlive/2014/texmf-dist/tex/latex/base/bk10.clo))
! LaTeX Error: File `Rd.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
Enter file name:
/Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex:4: Emergency stop.
<read *>
l.4 \usepackage
{makeidx}^^M
/Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex:4: ==> Fatal error
occurred, no
output PDF file produced!
Transcript written on DDIwR-manual.log.
+ echo '/usr/bin/texi2dvi: pdflatex exited with bad status, quitting.'
/usr/bin/texi2dvi: pdflatex exited with bad status, quitting.
+ echo '/usr/bin/texi2dvi: see DDIwR-manual.log for errors.'
/usr/bin/texi2dvi: see DDIwR-manual.log for errors.
+ test '' = t
+ exit 1
###
This sends me to DDIwR-manual.log, which as far as I can see is related to
not being able to \read from terminal in nonstop modes:
###
/Users/dusadrian/DDIwR.Rcheck/DDIwR-manual.tex:4: Emergency stop.
<read *>
l.4 \usepackage
{makeidx}^^M
*** (cannot \read from terminal in nonstop modes)
###
Any further advice is welcome, thank you very much again,
Adrian
--
Adrian Dusa
University of Bucharest
Romanian Social Data Archive
Soseaua Panduri nr.90
050663 Bucharest sector 5
Romania
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