Hi All,
I am building a package on my MBP (latest R, latest OSX, TexLive 2010), and I am incurring in some annoying problems with R CMD check:
* 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 ... ERROR
Re-running with no redirection of stdout/stderr.
Hmm ... looks like a package
Error in texi2dvi("Rd2.tex", pdf = (out_ext == "pdf"), quiet = FALSE, :
pdflatex is not available
Error in running tools::texi2dvi
My comment is, pdflatex *is* availiable:
$ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex
lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
and
$ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex
lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
How do I get R CMD check to play nice with my latex installation? I could just ssh the lot to a Linux machine, but that's too much of a defeat...
Best,
Federico
--
Federico C. F. Calboli
Department of Epidemiology and Biostatistics
Imperial College, St. Mary's Campus
Norfolk Place, London W2 1PG
Tel +44 (0)20 75941602 Fax +44 (0)20 75943193
f.calboli [.a.t] imperial.ac.uk
f.calboli [.a.t] gmail.com
building a package on a Mac: pdflatex
19 messages · Simon Urbanek, Federico Calboli, David Winsemius +6 more
On 5 Jul 2011, at 10:44, Federico Calboli wrote:
<snip> My comment is, pdflatex *is* availiable: $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex and $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
Before anyone asks: $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls /usr/texbin/pdflatex /usr/texbin/pdflatex so that's not the issue. bw F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
Federico,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
Cheers,
Simon
On Jul 5, 2011, at 5:51 AM, Federico Calboli wrote:
On 5 Jul 2011, at 10:44, Federico Calboli wrote:
<snip> My comment is, pdflatex *is* availiable: $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex and $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
Before anyone asks: $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls /usr/texbin/pdflatex /usr/texbin/pdflatex so that's not the issue. bw F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
_______________________________________________ R-SIG-Mac mailing list R-SIG-Mac at r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I use the R gui (from the standard R 2.13.0 CRAN download) it still does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path for the R gui?
BW
Federico
--
Federico C. F. Calboli
Department of Epidemiology and Biostatistics
Imperial College, St. Mary's Campus
Norfolk Place, London W2 1PG
Tel +44 (0)20 75941602 Fax +44 (0)20 75943193
f.calboli [.a.t] imperial.ac.uk
f.calboli [.a.t] gmail.com
On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote:
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error,
then you don't have pdflatex on your PATH which would be the
problem. As a side note, you are showing two separate TeX packages
which may not help you to find out what breaks in your setup in
general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I
use the R gui (from the standard R 2.13.0 CRAN download) it still
does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path
for the R gui?
When the answer to this is posted, I am wondering if it could be put in the Mac R FAQ because it seems that I have read several questions of late that involve users puzzling where to set various paths for Finder, bash, and R that are stored in different places/environments. It would be good not to need to search for a r-sig-mac posting but rather refer to a "central document".
David Winsemius, MD West Hartford, CT
Hi Federico,
On Jul 5, 2011, at 18.51 , Federico Calboli wrote:
On 5 Jul 2011, at 10:44, Federico Calboli wrote:
<snip> My comment is, pdflatex *is* availiable: $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex and $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
Before anyone asks: $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls /usr/texbin/pdflatex /usr/texbin/pdflatex
My environment is different to yours, but these may help:
1. Add this line to (or create a new file) ~/.profile
test -d /usr/local/texlive/2010 && PATH=/usr/local/texlive/2010/bin/x86_64-darwin:$PATH &&
MANPATH=/usr/local/texlive/2010/texmf/doc/man:$MANPATH
2. Edit R
#!/bin/sh
# Shell wrapper for R executable.
export PATH=/usr/local/texlive/2010/bin/x86_64-darwin:$PATH # THIS IS THE ADDED LINE
R_HOME_DIR=/sw/Library/Frameworks/R.framework/Resources
if test "${R_HOME_DIR}" = "/sw/Library/Frameworks/lib/R"; then
--
BABA Yoshihiko
Urban Design Laboratory, Tokyo University
On 5 Jul 2011, at 14:48, David Winsemius wrote:
On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote:
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I use the R gui (from the standard R 2.13.0 CRAN download) it still does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path for the R gui?
When the answer to this is posted, I am wondering if it could be put in the Mac R FAQ because it seems that I have read several questions of late that involve users puzzling where to set various paths for Finder, bash, and R that are stored in different places/environments. It would be good not to need to search for a r-sig-mac posting but rather refer to a "central document".
As a matter of completeness, PATH=$PATH:/user/texbin did not alter my path 'globally', and immediately broke in a new terminal tab.
I solved the issue globally with
sudo sh -c 'echo "/usr/texbin">>/etc/paths.d/texbin' [the reader should be warned I use bash by default on my terminal]
which does work if I use R in a terminal and I call system('pdflatex --version'). This solution also allowed a perfectly clean R CMD check.
On the other hand, from the GUI [R.app GUI 1.40 (5751) x86_64-apple-darwin9.8.0],
system("pdflatex --version")
/bin/sh: pdflatex: command not found bw F Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
On 5 July 2011 15:00, Federico Calboli <f.calboli at imperial.ac.uk> wrote:
On 5 Jul 2011, at 14:48, David Winsemius wrote:
On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote:
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I use the R gui (from the standard R 2.13.0 CRAN download) it still does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path for the R gui?
When the answer to this is posted, I am wondering if it could be put in the Mac R FAQ because it seems that I have read several questions of late that involve users puzzling where to set various paths for Finder, ?bash, and R that are stored in different places/environments. It would be good not to need to search for a r-sig-mac posting but rather refer to a "central document".
As a matter of completeness, PATH=$PATH:/user/texbin did not alter my path 'globally', and immediately broke in a new terminal tab.
I solved the issue globally with
sudo sh -c 'echo "/usr/texbin">>/etc/paths.d/texbin' [the reader should be warned I use bash by default on my terminal]
which does work if I use R in a terminal and I call system('pdflatex --version'). This solution also allowed a perfectly clean R CMD check.
Another way to do this would be to change the PATH variable in your ~/.bashrc (or other shell-specific startup file).
On the other hand, from the GUI [R.app GUI 1.40 (5751) x86_64-apple-darwin9.8.0],
system("pdflatex --version")
/bin/sh: pdflatex: command not found
I think what you want here is Sys.setenv() in R, e.g.,: Sys.setenv(PATH="/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/texbin") You should be able to set this in your ~/.Rprofile Cheers, Martin
bw F Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 ? Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
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Hi, To alter the PATH variables that your GUI apps see, you need to play with your ~/.MacOSX/environment.plist file -- or apparently even messing with /etc/launchd.conf (if you launch with spotllight, I guess). See here: http://stackoverflow.com/questions/135688/setting-environment-variables-in-os-x Googling for "environment.plist os x" will also bring in a lot more info. HTH, -steve On Tue, Jul 5, 2011 at 10:00 AM, Federico Calboli
<f.calboli at imperial.ac.uk> wrote:
On 5 Jul 2011, at 14:48, David Winsemius wrote:
On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote:
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I use the R gui (from the standard R 2.13.0 CRAN download) it still does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path for the R gui?
When the answer to this is posted, I am wondering if it could be put in the Mac R FAQ because it seems that I have read several questions of late that involve users puzzling where to set various paths for Finder, ?bash, and R that are stored in different places/environments. It would be good not to need to search for a r-sig-mac posting but rather refer to a "central document".
As a matter of completeness, PATH=$PATH:/user/texbin did not alter my path 'globally', and immediately broke in a new terminal tab.
I solved the issue globally with
sudo sh -c 'echo "/usr/texbin">>/etc/paths.d/texbin' [the reader should be warned I use bash by default on my terminal]
which does work if I use R in a terminal and I call system('pdflatex --version'). This solution also allowed a perfectly clean R CMD check.
On the other hand, from the GUI [R.app GUI 1.40 (5751) x86_64-apple-darwin9.8.0],
system("pdflatex --version")
/bin/sh: pdflatex: command not found bw F Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 ? Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
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Steve Lianoglou Graduate Student: Computational Systems Biology ?| Memorial Sloan-Kettering Cancer Center ?| Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact
On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote:
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I use the R gui (from the standard R 2.13.0 CRAN download) it still does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path for the R gui?
Well, the R way regardless of where you are is to use .Renviron - that works anywhere including the shell and the GUI. What you set there is really up to you - you can set R_PDFLATEXCMD to be on the safe side or you can set PATH instead. Cheers, Simon
On Jul 5, 2011, at 9:48 AM, David Winsemius wrote:
On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote:
Simon,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
thanks for the hint. Unfortunately:
system("pdflatex --version")
/bin/sh: pdflatex: command not found
doing a simple
PATH=$PATH:/user/texbin
fixed it if I use R and package.skeleton() from the terminal. If I use the R gui (from the standard R 2.13.0 CRAN download) it still does not find pdflatex and does not build a usable package skeleton.
In any case, your hit solved my issue. Now, how do I set the path for the R gui?
When the answer to this is posted, I am wondering if it could be put in the Mac R FAQ because it seems that I have read several questions of late that involve users puzzling where to set various paths for Finder, bash, and R that are stored in different places/environments. It would be good not to need to search for a r-sig-mac posting but rather refer to a "central document".
But that is largely irrelevant to R. R has its own mechanisms that are well documented in the R documentation, so you can use environment.plist or .profile if you are so inclined, but I would not recommend it, mainly because it will still lead to discrepancies between the GUI and the shell. Moreover, it's not R specific so it will influence other apps that may not expect it. Also it's easy to forget about such things when you are upgrading the system. So, I'm saying just use .Renviron and/or .Rprofile and all is well :). Cheers, Simon
On 5 Jul 2011, at 15:19, Simon Urbanek wrote:
But that is largely irrelevant to R. R has its own mechanisms that are well documented in the R documentation, so you can use environment.plist or .profile if you are so inclined, but I would not recommend it, mainly because it will still lead to discrepancies between the GUI and the shell. Moreover, it's not R specific so it will influence other apps that may not expect it. Also it's easy to forget about such things when you are upgrading the system. So, I'm saying just use .Renviron and/or .Rprofile and all is well :).
I created a .Rprofie with Sys.setenv(PATH="/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/texbin") ## as suggested by Martin Ellis [thanks!] and all is well :) bw F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
And note too that this is looking first for a script texi2dvi. If you have that, *it* will look for pdflatex, possibly already knowing where to look. Also note that both the usual texi2dvi and tools::texi2dvi will consult environment variables such as PDFLATEX. If you have a standard Mac TeX installation such as MacTeX, it should contain texi2dvi. So this seems to be entirely a path problem.
On Tue, 5 Jul 2011, Simon Urbanek wrote:
Federico,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
Cheers,
Simon
On Jul 5, 2011, at 5:51 AM, Federico Calboli wrote:
On 5 Jul 2011, at 10:44, Federico Calboli wrote:
<snip> My comment is, pdflatex *is* availiable: $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex and $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
Before anyone asks: $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls /usr/texbin/pdflatex /usr/texbin/pdflatex so that's not the issue. bw F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
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Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595
On 5 Jul 2011, at 16:01, Prof Brian Ripley wrote:
And note too that this is looking first for a script texi2dvi. If you have that, *it* will look for pdflatex, possibly already knowing where to look. Also note that both the usual texi2dvi and tools::texi2dvi will consult environment variables such as PDFLATEX. If you have a standard Mac TeX installation such as MacTeX, it should contain texi2dvi. So this seems to be entirely a path problem.
while it was entirely a path problem, the latest (2010) MacTex does *not* contain texi2dvi: which texi2dvi /usr/bin/texi2dvi and $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* texindy but no texi2dvi. I did ask other mactex users and they also do not have texi2dvi F
On Tue, 5 Jul 2011, Simon Urbanek wrote:
Federico,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
Cheers,
Simon
On Jul 5, 2011, at 5:51 AM, Federico Calboli wrote:
On 5 Jul 2011, at 10:44, Federico Calboli wrote:
<snip> My comment is, pdflatex *is* availiable: $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex and $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex
Before anyone asks: $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls /usr/texbin/pdflatex /usr/texbin/pdflatex so that's not the issue. bw F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
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-- Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595
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-- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
On Tue, Jul 5, 2011 at 11:23 AM, Federico Calboli
<f.calboli at imperial.ac.uk> wrote:
On 5 Jul 2011, at 16:01, Prof Brian Ripley wrote:
And note too that this is looking first for a script texi2dvi. ?If you have that, *it* will look for pdflatex, possibly already knowing where to look. Also note that both the usual texi2dvi and tools::texi2dvi will consult environment variables such as PDFLATEX. If you have a standard Mac TeX installation such as MacTeX, it should contain texi2dvi. ?So this seems to be entirely a path problem.
while it was entirely a path problem, the latest (2010) MacTex does *not* contain texi2dvi: which texi2dvi /usr/bin/texi2dvi and $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* texindy but no texi2dvi. I did ask other mactex users and they also do not have texi2dvi
Well, I have texi2dvi and I use MacTex and I am on a fresh install (new laptop) of snow leopard + latest mactex. I am using the big 1.6GB "all of mactex" package you can download. Kasper
F
On Tue, 5 Jul 2011, Simon Urbanek wrote:
Federico,
both are entirely irrelevant - run
system("pdflatex --version")
in R - that is the only thing that counts. If it shows an error, then you don't have pdflatex on your PATH which would be the problem. As a side note, you are showing two separate TeX packages which may not help you to find out what breaks in your setup in general ...
Cheers,
Simon
On Jul 5, 2011, at 5:51 AM, Federico Calboli wrote:
On 5 Jul 2011, at 10:44, Federico Calboli wrote:
<snip> My comment is, pdflatex *is* availiable: $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex lrwxr-xr-x ?1 root ?wheel ?6 21 Oct ?2010 pdflatex -> pdftex and $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls -l pdflatex lrwxr-xr-x ?1 root ?wheel ?6 21 Oct ?2010 pdflatex -> pdftex
Before anyone asks: $ :/usr/local/texlive/2010/bin/x86_64-darwin$ ls /usr/texbin/pdflatex /usr/texbin/pdflatex so that's not the issue. bw F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 ? Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
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-- Brian D. Ripley, ? ? ? ? ? ? ? ? ?ripley at stats.ox.ac.uk Professor of Applied Statistics, ?http://www.stats.ox.ac.uk/~ripley/ University of Oxford, ? ? ? ? ? ? Tel: ?+44 1865 272861 (self) 1 South Parks Road, ? ? ? ? ? ? ? ? ? ? +44 1865 272866 (PA) Oxford OX1 3TG, UK ? ? ? ? ? ? ? ?Fax: ?+44 1865 272595
_______________________________________________ R-SIG-Mac mailing list R-SIG-Mac at r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
-- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 ? Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
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On 5 Jul 2011, at 16:26, Kasper Daniel Hansen wrote:
which texi2dvi /usr/bin/texi2dvi and $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* texindy but no texi2dvi. I did ask other mactex users and they also do not have texi2dvi
Well, I have texi2dvi and I use MacTex and I am on a fresh install (new laptop) of snow leopard + latest mactex. I am using the big 1.6GB "all of mactex" package you can download.
Me too. Have you tried which texi2dvi and find /usr/local/texlive/ -name texi2dvi I do not have a texi2dvi binary in the texlive directory. F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
On Tue, 5 Jul 2011, Federico Calboli wrote:
On 5 Jul 2011, at 16:26, Kasper Daniel Hansen wrote:
which texi2dvi /usr/bin/texi2dvi and $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* texindy but no texi2dvi. I did ask other mactex users and they also do not have texi2dvi
Well, I have texi2dvi and I use MacTex and I am on a fresh install (new laptop) of snow leopard + latest mactex. I am using the big 1.6GB "all of mactex" package you can download.
Me too. Have you tried which texi2dvi and find /usr/local/texlive/ -name texi2dvi I do not have a texi2dvi binary in the texlive directory.
Well, I did say it is a script, and on my Mac it is in /usr/bin/texi2dvi .
F -- Federico C. F. Calboli Department of Epidemiology and Biostatistics Imperial College, St. Mary's Campus Norfolk Place, London W2 1PG Tel +44 (0)20 75941602 Fax +44 (0)20 75943193 f.calboli [.a.t] imperial.ac.uk f.calboli [.a.t] gmail.com
Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595
On 05-07-2011, at 17:39, Prof Brian Ripley wrote:
On Tue, 5 Jul 2011, Federico Calboli wrote:
On 5 Jul 2011, at 16:26, Kasper Daniel Hansen wrote:
which texi2dvi /usr/bin/texi2dvi and $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* texindy but no texi2dvi. I did ask other mactex users and they also do not have texi2dvi
Well, I have texi2dvi and I use MacTex and I am on a fresh install (new laptop) of snow leopard + latest mactex. I am using the big 1.6GB "all of mactex" package you can download.
Me too. Have you tried which texi2dvi and find /usr/local/texlive/ -name texi2dvi I do not have a texi2dvi binary in the texlive directory.
Well, I did say it is a script, and on my Mac it is in /usr/bin/texi2dvi .
The texi2dvi issue has been discussed in the past: http://macosx-tex.576846.n2.nabble.com/Duplicate-texi-executables-on-Leopard-td623925.html I inspected the macTeX-2010.mkpg with Pacifist. It does not contain the texi2dvi script. MacTeX uses the latexmk perl script. /usr/texbin is on my PATH and running which -a texi2dvi gives: /usr/bin/texi2dvi AFAICT, texi2dvi is Apple provided. It is also quite old (at least if the 2004 refers to texi2dvi): Running texi2dvi --version in Terminal gives: texi2dvi (GNU Texinfo 4.8) 1.34 Copyright (C) 2004 Free Software Foundation, Inc. There is NO warranty. You may redistribute this software under the terms of the GNU General Public License. For more information about these matters, see the files named COPYING. Result of ls -l /usr/bin/texi* -rwxr-xr-x 1 root wheel 28218 12 Nov 2010 /usr/bin/texi2dvi -rwxr-xr-x 1 root wheel 28218 24 Sep 2007 /usr/bin/texi2dvi.old -rwxr-xr-x 1 root wheel 557096 12 Nov 2010 /usr/bin/texi2html -rwxr-xr-x 1 root wheel 557096 24 Sep 2007 /usr/bin/texi2html.old -rwxr-xr-x 1 root wheel 660 12 Nov 2010 /usr/bin/texi2pdf -rwxr-xr-x 1 root wheel 660 24 Sep 2007 /usr/bin/texi2pdf.old -rwxr-xr-x 1 root wheel 109520 12 Nov 2010 /usr/bin/texindex -rwxr-xr-x 1 root wheel 102048 24 Sep 2007 /usr/bin/texindex.old I don't know where the .old versions come from. Berend Running Mac OS X 10.6.8 and R version 2.13.0 Patched (2011-04-26 r55655)
Yes, most open-source software on Mac OS X is old. One issue is GPL-3: texinfo was an early adopter, and AFAIR texinfo 4.8 was the last GPL-2 release. My point was (and remains) that if you have your paths set up correctly, tools::texi2dvi will use the texi2dvi script and not pdflatex directly. And that this is all in the R-admin manual.
On Wed, 6 Jul 2011, Berend Hasselman wrote:
On 05-07-2011, at 17:39, Prof Brian Ripley wrote:
On Tue, 5 Jul 2011, Federico Calboli wrote:
On 5 Jul 2011, at 16:26, Kasper Daniel Hansen wrote:
which texi2dvi /usr/bin/texi2dvi and $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* texindy but no texi2dvi. I did ask other mactex users and they also do not have texi2dvi
Well, I have texi2dvi and I use MacTex and I am on a fresh install (new laptop) of snow leopard + latest mactex. I am using the big 1.6GB "all of mactex" package you can download.
Me too. Have you tried which texi2dvi and find /usr/local/texlive/ -name texi2dvi I do not have a texi2dvi binary in the texlive directory.
Well, I did say it is a script, and on my Mac it is in /usr/bin/texi2dvi .
The texi2dvi issue has been discussed in the past: http://macosx-tex.576846.n2.nabble.com/Duplicate-texi-executables-on-Leopard-td623925.html I inspected the macTeX-2010.mkpg with Pacifist. It does not contain the texi2dvi script. MacTeX uses the latexmk perl script. /usr/texbin is on my PATH and running which -a texi2dvi gives: /usr/bin/texi2dvi AFAICT, texi2dvi is Apple provided. It is also quite old (at least if the 2004 refers to texi2dvi): Running texi2dvi --version in Terminal gives: texi2dvi (GNU Texinfo 4.8) 1.34 Copyright (C) 2004 Free Software Foundation, Inc. There is NO warranty. You may redistribute this software under the terms of the GNU General Public License. For more information about these matters, see the files named COPYING. Result of ls -l /usr/bin/texi* -rwxr-xr-x 1 root wheel 28218 12 Nov 2010 /usr/bin/texi2dvi -rwxr-xr-x 1 root wheel 28218 24 Sep 2007 /usr/bin/texi2dvi.old -rwxr-xr-x 1 root wheel 557096 12 Nov 2010 /usr/bin/texi2html -rwxr-xr-x 1 root wheel 557096 24 Sep 2007 /usr/bin/texi2html.old -rwxr-xr-x 1 root wheel 660 12 Nov 2010 /usr/bin/texi2pdf -rwxr-xr-x 1 root wheel 660 24 Sep 2007 /usr/bin/texi2pdf.old -rwxr-xr-x 1 root wheel 109520 12 Nov 2010 /usr/bin/texindex -rwxr-xr-x 1 root wheel 102048 24 Sep 2007 /usr/bin/texindex.old I don't know where the .old versions come from. Berend Running Mac OS X 10.6.8 and R version 2.13.0 Patched (2011-04-26 r55655)
Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UK Fax: +44 1865 272595