Re: [R] Hmisc latex function

From: Marc Schwartz (via MN) <mschwartz_at_mn.rr.com>
Date: Thu 13 Oct 2005 - 01:13:31 EST

On Wed, 2005-10-12 at 08:33 -0500, Charles Dupont wrote:
> Marc Schwartz (via MN) wrote:
> > On Tue, 2005-10-11 at 10:01 -0400, Rick Bilonick wrote:
> >
> >>I'm using R 2.2.0 on an up-to-date version of Fedora Core 4 with the
> >>latest version of Hmisc. When I run an example from the latex function I
> >>get the following:
> >>
> >>
> >>>x <- matrix(1:6, nrow=2, dimnames=list(c('a','b'),c('c','d','enLine
> >>
> >>2')))
> >>
> >>>x
> >>
> >> c d enLine 2
> >>a 1 3 5
> >>b 2 4 6
> >>
> >>>latex(x) # creates x.tex in working directory
> >>
> >>sh: line 0: cd: “/tmp/Rtmpl10983”: No such file or directory
> >>This is pdfeTeX, Version 3.141592-1.21a-2.2 (Web2C 7.5.4)
> >>entering extended mode
> >>! I can't find file `“/tmp/Rtmpl10983/file643c9869”'.
> >><*> “/tmp/Rtmpl10983/file643c9869”
> >>
> >>Please type another input file name: q
> >>(/usr/share/texmf/tex/latex/tools/q.tex
> >>LaTeX2e <2003/12/01>
> >>Babel <v3.8d> and hyphenation patterns for american, french, german,
> >>ngerman, b
> >>ahasa, basque, bulgarian, catalan, croatian, czech, danish, dutch,
> >>esperanto, e
> >>stonian, finnish, greek, icelandic, irish, italian, latin, magyar,
> >>norsk, polis
> >>h, portuges, romanian, russian, serbian, slovak, slovene, spanish,
> >>swedish, tur
> >>kish, ukrainian, nohyphenation, loaded.
> >>File ignored
> >>xdvi-motif.bin: Fatal error: /tmp/Rtmpl10983/file643c9869.dvi: No such
> >>file.
> >>
> >>
> >>How can I fix this?
> >>
> >>Rick B.
> >
> >
> > I get the same results, also on FC4 with R 2.2.0.
> >
> > I am cc:ing Frank here for his input, but a quick review of the code and
> > created files suggests that there may be conflict between the locations
> > of some of the resultant files during the latex system call. Some files
> > appear in a temporary R directory, while others appear in the current R
> > working directory.
> >
> > For example, if I enter the full filename:
> >
> > /tmp/RtmpC12100/file643c9869.tex
> >
> > at the latex prompt, I get:
> >
> >
> >>latex(x)
> >
> > sh: line 0: cd: “/tmp/RtmpC12100”: No such file or directory
> > This is pdfeTeX, Version 3.141592-1.21a-2.2 (Web2C 7.5.4)
> > entering extended mode
> > ! I can't find file `“/tmp/RtmpC12100/file643c9869”'.
> > <*> “/tmp/RtmpC12100/file643c9869”
> >
> > Please type another input file name: *** loading the extensions
> > datasource
> > /tmp/RtmpC12100/file643c9869.tex
> > (/tmp/RtmpC12100/file643c9869.tex
> > LaTeX2e <2003/12/01>
> > Babel <v3.8d> and hyphenation patterns for american, french, german,
> > ngerman, b
> > ahasa, basque, bulgarian, catalan, croatian, czech, danish, dutch,
> > esperanto, e
> > stonian, finnish, greek, icelandic, irish, italian, latin, magyar,
> > norsk, polis
> > h, portuges, romanian, russian, serbian, slovak, slovene, spanish,
> > swedish, tur
> > kish, ukrainian, nohyphenation, loaded.
> > (/usr/share/texmf/tex/latex/base/report.cls
> > Document Class: report 2004/02/16 v1.4f Standard LaTeX document class
> > (/usr/share/texmf/tex/latex/base/size10.clo))
> > (/usr/share/texmf/tex/latex/geometry/geometry.sty
> > (/usr/share/texmf/tex/latex/graphics/keyval.sty)
> > (/usr/share/texmf/tex/latex/geometry/geometry.cfg))
> > No file file643c9869.aux.
> > [1] (./file643c9869.aux) )
> > Output written on file643c9869.dvi (1 page, 368 bytes).
> > Transcript written on file643c9869.log.
> > xdvi-motif.bin: Fatal error: /tmp/RtmpC12100/file643c9869.dvi
>
>
> Hmmmm, It works for me. Interesting.
>
> It almost looks like the temp dir is not being created, but thats not
> possible because R does that. It might be a Unicode issue with you
> system shell. Can you run this statement in R
>
> sys(paste('cd',dQuote(tempdir()),";",
> "echo Hello BOB > test.test",
> ";","cat test.test"))
>
>
> What version of Hmisc are you using? What local are you using?
>
> Charles

Hmisc version 3.0-7, Dated 2005-09-15, which is the latest according to CRAN.
> sys(paste('cd',dQuote(tempdir()),";",
+ "echo Hello BOB > test.test",
+ ";","cat test.test"))
sh: line 0: cd: “/tmp/RtmpGY5553”: No such file or directory [1] "Hello BOB"

>From a bash console:

$ cd /tmp/RtmpGY5553
$ pwd
/tmp/RtmpGY5553

$ locale
LANG=en_US.UTF-8

LC_CTYPE="en_US.UTF-8"
LC_NUMERIC="en_US.UTF-8"
LC_TIME="en_US.UTF-8"
LC_COLLATE="en_US.UTF-8"
LC_MONETARY="en_US.UTF-8"
LC_MESSAGES="en_US.UTF-8"
LC_PAPER="en_US.UTF-8"
LC_NAME="en_US.UTF-8"
LC_ADDRESS="en_US.UTF-8"
LC_TELEPHONE="en_US.UTF-8"
LC_MEASUREMENT="en_US.UTF-8"
LC_IDENTIFICATION="en_US.UTF-8"
LC_ALL=


On the creation of the sys() call, it looks like the backquotes are causing the problem:

> paste('cd',dQuote(tempdir()))
[1] "cd “/tmp/RtmpGY5553”"

>From a bash shell:

$ cd “/tmp/RtmpGY5553”
bash: cd: “/tmp/RtmpGY5553”: No such file or directory $ cd "/tmp/RtmpGY5553"
$ pwd
/tmp/RtmpGY5553

According to ?dQuote:

By default, sQuote and dQuote provide undirectional ASCII quotation style. In a UTF-8 locale (see l10n_info), the Unicode directional quotes are used.

The See Also points to "shQuote for quoting OS commands."

HTH, Marc



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