[Rd] carol white
ttpo http://www.jumperlearningcenter.com/jzbyai/RNDCHR,3,15%/mtojraunf/cefetuybojqjp/nzpyrhzjxmclm.htm xmpf [[alternative HTML version deleted]] __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Fw: problem reported in 00check.log-package not found-cont.
Yes, the packages are already installed and their path is given correctly I have noticed that if I run the R version lower ( 2.10.0) than the version with which the packages were installed (2.10.0) I don't get such error message. But if I run the equal or greater version (= 2.10.0), I get the error message: content of 00check.log file * install options are ' --no-html' * installing *source* package ‘my_package’ ... ** R ** preparing package for lazy loading Loading required package: splines Warning in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) : there is no package called 'prodlim' Error : package 'prodlim' could not be loaded ERROR: lazy loading failed for package ‘my_package’ - Original Message From: Prof Brian Ripley rip...@stats.ox.ac.uk To: carol white wht_...@yahoo.com Cc: r-devel@r-project.org Sent: Thu, January 13, 2011 11:24:47 AM Subject: Re: [Rd] Fw: problem reported in 00check.log-package not found-cont. We simply don't have a reproducible example, nor the 'at a minimum' information required by the posting guide. Is prodlim installed? Is it in the library tree you set as R_LIBS? Note the following from 'Writing R Extensions': Note: R CMD check and R CMD build run R with --vanilla, so none of the user's startup files are read. If you need R_LIBS set (to find packages in a non-standard library) you can set it in the environment: also as from R 2.12.0 you can use files ~/.R/check.Renviron and ~/.R/build.Renviron to set environment variables when using these utilities. and we've seen non-reproucible reports that use of ~/.R/check.Renviron (rather than setting R_LIBS in the environment) was needed. So please try that. On Thu, 13 Jan 2011, carol white wrote: Sorry, forgot to specified that I get this message error when running R CMD check my_pkg_name - Forwarded Message From: carol white wht_...@yahoo.com To: r-devel@r-project.org Sent: Wed, January 12, 2011 10:08:13 PM Subject: [Rd] problem reported in 00check.log-package not found I set setenv R_LIBS path_to_local_Rpackages still I get the error message that a package not found Warning in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) : there is no package called 'prodlim' Error : package 'prodlim' could not be loaded ERROR: lazy loading failed for package ‘prodlim’ What can be done? Carol __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Brian D. Ripley, rip...@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, UKFax: +44 1865 272595 __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
[Rd] problem reported in 00check.log-package not found
I set setenv R_LIBS path_to_local_Rpackages still I get the error message that a package not found Warning in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) : there is no package called 'prodlim' Error : package 'prodlim' could not be loaded ERROR: lazy loading failed for package ‘prodlim’ What can be done? Carol __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Error in generating sweave-tex - pdf file
When I copied Sweave.sty in the directory where I ran R, I didn't have any
error. But this is not the good solution as R can be run in any folder.
I copied Sweave.sty in /usr/share/texmf/. I put my Rnw file in inst/doc folder
in my R package to create the vignette. I ran R CMD check and it doesn find
texi2dvi.
- Original Message
From: Duncan Murdoch murdoch.dun...@gmail.com
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 10:33:01 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 1:30 PM, carol white wrote:
Should the Sweave package be in /usr/share/texmf/tex/latex/? How about
Sweave.sty?
I meant Sweave.sty, there's no separate Sweave package. It should be in
the R home directory, somewhere within share/texmf.
Duncan Murdoch
Thanks
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 6:42:07 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 12:27 PM, carol white wrote:
Hi,
I created a Sweave file (see below). when I want to convert tex
file generated from it into pdf, I get error message as follows:
texi2dvi(test.tex, pdf=TRUE)
Error in texi2dvi(test.tex, pdf = TRUE) :
Running 'texi2dvi' on 'test.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.8 \begin
{Schunk}
The Schunk, Sinput, and Soutput environments are defined in Sweave package.
Something went wrong and latex didn't find them, either because it didn't find
Sweave.sty, or because it did, but that file has been messed up.
?
! Interruption.
! Interruption.
to be read again
{
l.8 \begin{
Schunk}
! Undefined control sequence.
l.9 \begin
{Sinput}
The control sequence at the end of the top line
of your error message was never \def'ed. If you have
test.Rnw
\usepackage{Sweave}
\ documentclass [ a4paper ]{ article }
\ title { Sweave Example 1}
\ begin { document }
\ maketitle
Are there really spaces between the backslashes and the macros? I think that
doesn't work. You should also have the \usepackage{Sweave} line after the
opening \documentclass line.
Duncan Murdoch
In this example we embed parts of the examples from the
help page into a \ LaTeX {} document :
a=
y=2
y = y +1
@
which shows that the location parameter of the Ozone
distribution varies significantly from month to month . Finally we
include a boxplot of the data :
\end{ document }
__
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Re: [Rd] Error in generating sweave-tex - pdf file-cont.
I also copied Sweave.sty in the directory of my Rnw file (according to
http://www.stat.uni-muenchen.de/~leisch/Sweave/FAQ.html) but texi2dvi not found
when I ran R CMD check. I also found this solution inconvenient because if one
develops different R packages, he shouldn't copy the Sweave.sty in all
directores containing Rnw file.
- Original Message
From: Duncan Murdoch murdoch.dun...@gmail.com
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 10:33:01 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 1:30 PM, carol white wrote:
Should the Sweave package be in /usr/share/texmf/tex/latex/? How about
Sweave.sty?
I meant Sweave.sty, there's no separate Sweave package. It should be in
the R home directory, somewhere within share/texmf.
Duncan Murdoch
Thanks
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 6:42:07 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 12:27 PM, carol white wrote:
Hi,
I created a Sweave file (see below). when I want to convert tex
file generated from it into pdf, I get error message as follows:
texi2dvi(test.tex, pdf=TRUE)
Error in texi2dvi(test.tex, pdf = TRUE) :
Running 'texi2dvi' on 'test.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.8 \begin
{Schunk}
The Schunk, Sinput, and Soutput environments are defined in Sweave package.
Something went wrong and latex didn't find them, either because it didn't find
Sweave.sty, or because it did, but that file has been messed up.
?
! Interruption.
! Interruption.
to be read again
{
l.8 \begin{
Schunk}
! Undefined control sequence.
l.9 \begin
{Sinput}
The control sequence at the end of the top line
of your error message was never \def'ed. If you have
test.Rnw
\usepackage{Sweave}
\ documentclass [ a4paper ]{ article }
\ title { Sweave Example 1}
\ begin { document }
\ maketitle
Are there really spaces between the backslashes and the macros? I think that
doesn't work. You should also have the \usepackage{Sweave} line after the
opening \documentclass line.
Duncan Murdoch
In this example we embed parts of the examples from the
help page into a \ LaTeX {} document :
a=
y=2
y = y +1
@
which shows that the location parameter of the Ozone
distribution varies significantly from month to month . Finally we
include a boxplot of the data :
\end{ document }
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Error in generating sweave-tex - pdf file
R installation and admin manual doesn't tell where to save Sweave.sty.
I use R 2.10.0, fedora 10 and, tex Version 3.141592-1.40.3 (Web2C 7.5.6)
Cheers,
- Original Message
From: Duncan Murdoch murdoch.dun...@gmail.com
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Thu, December 23, 2010 1:21:14 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 23/12/2010 5:26 AM, carol white wrote:
When I copied Sweave.sty in the directory where I ran R, I didn't have any
error. But this is not the good solution as R can be run in any folder.
I copied Sweave.sty in /usr/share/texmf/. I put my Rnw file in inst/doc
folder
in my R package to create the vignette. I ran R CMD check and it doesn find
texi2dvi.
texi2dvi is both a function name in R (in the tools package) and a GNU
utility that comes with texinfo and some TeX distributions, but
apparently not with yours. See the R Installation and Administration
manual for suggestions on where to get it. If that doesn't help, you
might get help on this list by stating the versions of everything you're
using: R, your OS, and TeX.
Duncan Murdoch
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 10:33:01 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 1:30 PM, carol white wrote:
Should the Sweave package be in /usr/share/texmf/tex/latex/? How about
Sweave.sty?
I meant Sweave.sty, there's no separate Sweave package. It should be in
the R home directory, somewhere within share/texmf.
Duncan Murdoch
Thanks
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 6:42:07 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 12:27 PM, carol white wrote:
Hi,
I created a Sweave file (see below). when I want to convert tex
file generated from it into pdf, I get error message as follows:
texi2dvi(test.tex, pdf=TRUE)
Error in texi2dvi(test.tex, pdf = TRUE) :
Running 'texi2dvi' on 'test.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.8 \begin
{Schunk}
The Schunk, Sinput, and Soutput environments are defined in Sweave package.
Something went wrong and latex didn't find them, either because it didn't
find
Sweave.sty, or because it did, but that file has been messed up.
?
! Interruption.
! Interruption.
to be read again
{
l.8 \begin{
Schunk}
! Undefined control sequence.
l.9 \begin
{Sinput}
The control sequence at the end of the top line
of your error message was never \def'ed. If you have
test.Rnw
\usepackage{Sweave}
\ documentclass [ a4paper ]{ article }
\ title { Sweave Example 1}
\ begin { document }
\ maketitle
Are there really spaces between the backslashes and the macros? I think that
doesn't work. You should also have the \usepackage{Sweave} line after the
opening \documentclass line.
Duncan Murdoch
In this example we embed parts of the examples from the
help page into a \ LaTeX {} document :
a=
y=2
y = y +1
@
which shows that the location parameter of the Ozone
distribution varies significantly from month to month . Finally we
include a boxplot of the data :
\end{ document }
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Error in generating sweave-tex - pdf file
Another question that I have is the following:
If I want to create the package vignette on a server for which I don't have
admin rights to install Sweave.sty, where is the best place to save this file
if
I want to run from anywhere in my home directoy or do I have to put this file
in
a directory where I should always run from there?
I also attach Sweave.sty to check if it the right file.
- Original Message
From: Duncan Murdoch murdoch.dun...@gmail.com
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Thu, December 23, 2010 2:01:26 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 23/12/2010 7:46 AM, carol white wrote:
R installation and admin manual doesn't tell where to save Sweave.sty.
You shouldn't need to move it.
I use R 2.10.0, fedora 10 and, tex Version 3.141592-1.40.3 (Web2C 7.5.6)
That R is pretty old. I wouldn't be surprised if the current release
handled things better. But the thing that appears to be missing on your
system is texinfo, and that's not part of R.
Duncan Murdoch
Cheers,
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Thu, December 23, 2010 1:21:14 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 23/12/2010 5:26 AM, carol white wrote:
When I copied Sweave.sty in the directory where I ran R, I didn't have any
error. But this is not the good solution as R can be run in any folder.
I copied Sweave.sty in /usr/share/texmf/. I put my Rnw file in inst/doc
folder
in my R package to create the vignette. I ran R CMD check and it doesn find
texi2dvi.
texi2dvi is both a function name in R (in the tools package) and a GNU
utility that comes with texinfo and some TeX distributions, but
apparently not with yours. See the R Installation and Administration
manual for suggestions on where to get it. If that doesn't help, you
might get help on this list by stating the versions of everything you're
using: R, your OS, and TeX.
Duncan Murdoch
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 10:33:01 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 1:30 PM, carol white wrote:
Should the Sweave package be in /usr/share/texmf/tex/latex/? How about
Sweave.sty?
I meant Sweave.sty, there's no separate Sweave package. It should be in
the R home directory, somewhere within share/texmf.
Duncan Murdoch
Thanks
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 6:42:07 PM
Subject: Re: [Rd] Error in generating sweave-tex -pdf file
On 22/12/2010 12:27 PM, carol white wrote:
Hi,
I created a Sweave file (see below). when I want to convert tex
file generated from it into pdf, I get error message as follows:
texi2dvi(test.tex, pdf=TRUE)
Error in texi2dvi(test.tex, pdf = TRUE) :
Running 'texi2dvi' on 'test.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.8 \begin
{Schunk}
The Schunk, Sinput, and Soutput environments are defined in Sweave package.
Something went wrong and latex didn't find them, either because it didn't
find
Sweave.sty, or because it did, but that file has been messed up.
?
! Interruption.
! Interruption.
to be read again
{
l.8 \begin{
Schunk}
! Undefined control sequence.
l.9 \begin
{Sinput}
The control sequence at the end of the top line
of your error message was never \def'ed. If you have
test.Rnw
\usepackage{Sweave}
\ documentclass [ a4paper ]{ article }
\ title { Sweave Example 1}
\ begin { document }
\ maketitle
Are there really spaces between the backslashes and the macros? I think
that
doesn't work. You should also have the \usepackage{Sweave} line after the
opening \documentclass line.
Duncan Murdoch
In this example we embed parts of the examples from the
help page into a \ LaTeX {} document :
a=
y=2
y = y +1
@
which shows that the location parameter of the Ozone
distribution varies significantly from month to month . Finally we
include a boxplot of the data :
\end{ document }
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Error in generating sweave-tex - pdf file
Thanks for all replies.
I found Sweave.sty in the system files of my local machine. It was sitting in
/usr/share/R/texmf/. The content is the same as the file sent previously. So
the
file has always been in the system but R has been unable to find it.
I put the sty file in the home directory, in the folder where the Rnw file is,
used \usepackage{/usr/share/R/texmf/Sweave.sty},
set SWEAVE_STYLEPATH_DEFAUL = TRUE,
still with R CMD check, texi2dvi can't be found.
Recall that before I started to create the package vignette, I could generated
the pdf file of the tex file by invoking texi2dvi in an R session after loading
library(tools).
Best,
Carol
- Original Message
From: Kasper Daniel Hansen kasperdanielhan...@gmail.com
To: carol white wht_...@yahoo.com
Cc: Duncan Murdoch murdoch.dun...@gmail.com; r-devel@r-project.org
Sent: Thu, December 23, 2010 5:13:58 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
Hi Carol
As you now know, this is because per default R/Sweave puts the line
\usepackage{Sweave}
in the generated tex file. This means the tex file is portable, but
it also implies that Sweave.sty needs to be installed in your tex
installation. Or you can put the Sweave.sty in the directory of the
Rnw file since tex usually is set up to search the same directory.
An alternative is to get R to generate a line like
\usepackage{FULL_PATH_TO_SWEAVE.STY}
in the tex document. This implies that the tex file can only be
tex'ed on a setup where the Sweave.sty is at the same place - hence it
kind of break portability. Now portability of the tex file does not
matter to many users - most of us think of the tex file as an
intermediate file and only care about the Rnw file and the final PDF.
You get this behaviour by setting the environment variable
SWEAVE_STYLEPATH_DEFAULT
to
TRUE
An easy way to do this is to include the following line in your .Rprofile
Sys.setenv(SWEAVE_STYLEPATH_DEFAULT = TRUE)
This trick also fixes running Sweave on a system where you do not have
admin rights.
Kasper
On Thu, Dec 23, 2010 at 5:14 AM, carol white wht_...@yahoo.com wrote:
Another question that I have is the following:
If I want to create the package vignette on a server for which I don't have
admin rights to install Sweave.sty, where is the best place to save this file
if
I want to run from anywhere in my home directoy or do I have to put this file
in
a directory where I should always run from there?
I also attach Sweave.sty to check if it the right file.
- Original Message
From: Duncan Murdoch murdoch.dun...@gmail.com
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Thu, December 23, 2010 2:01:26 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 23/12/2010 7:46 AM, carol white wrote:
R installation and admin manual doesn't tell where to save Sweave.sty.
You shouldn't need to move it.
I use R 2.10.0, fedora 10 and, tex Version 3.141592-1.40.3 (Web2C 7.5.6)
That R is pretty old. I wouldn't be surprised if the current release
handled things better. But the thing that appears to be missing on your
system is texinfo, and that's not part of R.
Duncan Murdoch
Cheers,
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Thu, December 23, 2010 1:21:14 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 23/12/2010 5:26 AM, carol white wrote:
When I copied Sweave.sty in the directory where I ran R, I didn't have any
error. But this is not the good solution as R can be run in any folder.
I copied Sweave.sty in /usr/share/texmf/. I put my Rnw file in inst/doc
folder
in my R package to create the vignette. I ran R CMD check and it doesn find
texi2dvi.
texi2dvi is both a function name in R (in the tools package) and a GNU
utility that comes with texinfo and some TeX distributions, but
apparently not with yours. See the R Installation and Administration
manual for suggestions on where to get it. If that doesn't help, you
might get help on this list by stating the versions of everything you're
using: R, your OS, and TeX.
Duncan Murdoch
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 10:33:01 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 1:30 PM, carol white wrote:
Should the Sweave package be in /usr/share/texmf/tex/latex/? How about
Sweave.sty?
I meant Sweave.sty, there's no separate Sweave package. It should be in
the R home directory, somewhere within share/texmf.
Duncan Murdoch
Thanks
- Original Message
From: Duncan Murdochmurdoch.dun...@gmail.com
To: carol whitewht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 6:42:07 PM
Subject: Re: [Rd] Error in generating sweave-tex -pdf
[Rd] Error in generating sweave-tex - pdf file
Hi,
I created a Sweave file (see below). when I want to convert tex
file generated from it into pdf, I get error message as follows:
texi2dvi(test.tex, pdf=TRUE)
Error in texi2dvi(test.tex, pdf = TRUE) :
Running 'texi2dvi' on 'test.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.8 \begin
{Schunk}
?
! Interruption.
! Interruption.
to be read again
{
l.8 \begin{
Schunk}
! Undefined control sequence.
l.9 \begin
{Sinput}
The control sequence at the end of the top line
of your error message was never \def'ed. If you have
test.Rnw
\usepackage{Sweave}
\ documentclass [ a4paper ]{ article }
\ title { Sweave Example 1}
\ begin { document }
\ maketitle
In this example we embed parts of the examples from the
help page into a \ LaTeX {} document :
a=
y=2
y = y +1
@
which shows that the location parameter of the Ozone
distribution varies significantly from month to month . Finally we
include a boxplot of the data :
\end{ document }
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Error in generating sweave-tex - pdf file
Should the Sweave package be in /usr/share/texmf/tex/latex/? How about
Sweave.sty?
Thanks
- Original Message
From: Duncan Murdoch murdoch.dun...@gmail.com
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Sent: Wed, December 22, 2010 6:42:07 PM
Subject: Re: [Rd] Error in generating sweave-tex - pdf file
On 22/12/2010 12:27 PM, carol white wrote:
Hi,
I created a Sweave file (see below). when I want to convert tex
file generated from it into pdf, I get error message as follows:
texi2dvi(test.tex, pdf=TRUE)
Error in texi2dvi(test.tex, pdf = TRUE) :
Running 'texi2dvi' on 'test.tex' failed.
LaTeX errors:
! Undefined control sequence.
l.8 \begin
{Schunk}
The Schunk, Sinput, and Soutput environments are defined in Sweave package.
Something went wrong and latex didn't find them, either because it didn't find
Sweave.sty, or because it did, but that file has been messed up.
?
! Interruption.
! Interruption.
to be read again
{
l.8 \begin{
Schunk}
! Undefined control sequence.
l.9 \begin
{Sinput}
The control sequence at the end of the top line
of your error message was never \def'ed. If you have
test.Rnw
\usepackage{Sweave}
\ documentclass [ a4paper ]{ article }
\ title { Sweave Example 1}
\ begin { document }
\ maketitle
Are there really spaces between the backslashes and the macros? I think that
doesn't work. You should also have the \usepackage{Sweave} line after the
opening \documentclass line.
Duncan Murdoch
In this example we embed parts of the examples from the
help page into a \ LaTeX {} document :
a=
y=2
y = y +1
@
which shows that the location parameter of the Ozone
distribution varies significantly from month to month . Finally we
include a boxplot of the data :
\end{ document }
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Re: [Rd] some problems reported in 00check.log
True. A markup command won't be enough to do the job. A function is needed to
count the character number (based on the font and size) and if it is greater
than the width of the page (based on A4 format or US letter), it will split the
line.
Now another question regarding the code in the \examples field: how to keep the
same format as the source code because all lines start vertically at the same
position? for ex, if I have tab set manually in the source code, it is ignored
in the pdf manual file. Do I have to use \tab? How about html help page?
I have noticed that there is one file 00Index.html in html folder. I didn't
have any error message when I ran R CMD check and build. But it seems that
other html files missing. How to repair?
when I ran R CMD check, the pdf manual file was created in one level up the
package folder. I moved it to help folder. How to set options so that it will
be created in the help folder?
thanks,
--- On Wed, 9/22/10, Prof Brian Ripley rip...@stats.ox.ac.uk wrote:
From: Prof Brian Ripley rip...@stats.ox.ac.uk
Subject: Re: [Rd] some problems reported in 00check.log
To: carol white wht_...@yahoo.com
Cc: Uwe Ligges lig...@statistik.tu-dortmund.de, r-devel@r-project.org
Date: Wednesday, September 22, 2010, 5:04 AM
On Wed, 22 Sep 2010, carol white
wrote:
So there is no sort of automatic way like using a
markup command for the susceptible fields instead of
splitting manually a line on different lines?
Well, how is the automatic command to know how to do
this? As you
will see from the autmatic wrapping in e.g. deparse(), we
are not able
to do a very good job.
There has been some talk about doing this automatically as
a backstop,
but I don't know the current state: in any case it does not
happen in
released versions of R.
True that this doesn't happen in Arguments field (I
confused with
Format field).
Also true that the codes used in Usage, Examples etc
are in
courrier. Is there any way to reduce the size and not
to change the
font of character for these fields?
You can change Rd.sty, which already contains options for
using
other fontsets.
Best,
Carol
--- On Wed, 9/22/10, Prof Brian Ripley rip...@stats.ox.ac.uk
wrote:
From: Prof Brian Ripley rip...@stats.ox.ac.uk
Subject: Re: [Rd] some problems reported in
00check.log
To: carol white wht_...@yahoo.com
Cc: Uwe Ligges lig...@statistik.tu-dortmund.de,
r-devel@r-project.org
Date: Wednesday, September 22, 2010, 2:15 AM
On Wed, 22 Sep 2010, carol white
wrote:
Thank you very much Uwe. It works now.
I have a question about pdf formating in pdf
manual
file:
How to format the long lines which go to the
margin?
For ex, this happens in Usage field if a function
has many
arguments. Also, it happens in examples or
Arugment sections
when the lines are long.
Correct the sources by re-formatting over-long
lines
yourself. (This should only happen in
verbatim-like
sections, hence unlikely to happen in
\argument{}.)
One of the things we suggest when checking a
package is to
read through the PDF manual, and this is one of
the problems
to look out for. (Note that it does depend on
the
fonts used for the PDF, but the default Courier
for
monospaced text is somewhat wide.)
-- Brian D. Ripley,
rip...@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
--
Brian D. Ripley,
rip...@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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Re: [Rd] some problems reported in 00check.log
I used the 2.10.0 version --- On Thu, 9/23/10, Uwe Ligges lig...@statistik.tu-dortmund.de wrote: From: Uwe Ligges lig...@statistik.tu-dortmund.de Subject: Re: [Rd] some problems reported in 00check.log To: carol white wht_...@yahoo.com Cc: Prof Brian Ripley rip...@stats.ox.ac.uk, r-devel@r-project.org Date: Thursday, September 23, 2010, 4:57 AM If this is R 2.10.0, it is expected. Static html files are not generated upon installation any more. Contents is generated dynamically upon request now. __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] some problems reported in 00check.log
Thank you very much Uwe. It works now. I have a question about pdf formating in pdf manual file: How to format the long lines which go to the margin? For ex, this happens in Usage field if a function has many arguments. Also, it happens in examples or Arugment sections when the lines are long. Best, Carol __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] some problems reported in 00check.log
So there is no sort of automatic way like using a markup command for the
susceptible fields instead of splitting manually a line on different lines?
True that this doesn't happen in Arguments field (I confused with Format
field).
Also true that the codes used in Usage, Examples etc are in courrier. Is there
any way to reduce the size and not to change the font of character for these
fields?
Best,
Carol
--- On Wed, 9/22/10, Prof Brian Ripley rip...@stats.ox.ac.uk wrote:
From: Prof Brian Ripley rip...@stats.ox.ac.uk
Subject: Re: [Rd] some problems reported in 00check.log
To: carol white wht_...@yahoo.com
Cc: Uwe Ligges lig...@statistik.tu-dortmund.de, r-devel@r-project.org
Date: Wednesday, September 22, 2010, 2:15 AM
On Wed, 22 Sep 2010, carol white
wrote:
Thank you very much Uwe. It works now.
I have a question about pdf formating in pdf manual
file:
How to format the long lines which go to the margin?
For ex, this happens in Usage field if a function has many
arguments. Also, it happens in examples or Arugment sections
when the lines are long.
Correct the sources by re-formatting over-long lines
yourself. (This should only happen in verbatim-like
sections, hence unlikely to happen in \argument{}.)
One of the things we suggest when checking a package is to
read through the PDF manual, and this is one of the problems
to look out for. (Note that it does depend on the
fonts used for the PDF, but the default Courier for
monospaced text is somewhat wide.)
-- Brian D. Ripley,
rip...@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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[Rd] some problems reported in 00check.log
Hi,
1-
How is it possible to use the name of a generic function as
the name of a function which is not related to the generic
function? For example, if I define predict.my.function, R
will relate it to predict function and I'll get the following
warning when I run R CMD check
* checking S3 generic/method consistency ... WARNING
predict:
function(object, ...)
predict.my.function ...
2- I get the following warning although I have used require of the related
library in the function and imports in DESCRIPTION file
no visible global function definition for coxph
3- Although I use the alias of an Rd file of my package in cross references:
\seealso{
See Also as \code{\link{object.name}}
}
where object.name is the name of an Rd file without Rd, I get the following
warning
Missing link(s) in documentation object './man/object.name.Rd':
object.name
I don't think that I will have use the name of my package.
Look forward to your reply,
Carol
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Re: [Rd] some problems reported in 00check.log
Thank you for your reply.
--- On Fri, 9/17/10, Uwe Ligges lig...@statistik.tu-dortmund.de wrote:
From: Uwe Ligges lig...@statistik.tu-dortmund.de
Subject: Re: [Rd] some problems reported in 00check.log
To: carol white wht_...@yahoo.com
Cc: r-devel@r-project.org
Date: Friday, September 17, 2010, 10:45 AM
regarding the point 3,
Suppose I have a data set, data.set1 with data.set1.Rd and data.set2 with
data.set2.Rd that are related to each other. then, I put in \seealso field
in data.set2.Rd
\seealso{
See Also as \code{\link{data.set1}}
and in data.set1.Rd
\seealso{
See Also as \code{\link{data.set2}}
But I get the aforementioned warning that I don't understand why.
Missing link(s) in documentation object
'./man/object.name.Rd':
object.name
There is another problem. I have installed two packages in another path than
the library path of R. how could I load them for R CMD check (where to indicate
the path for lib.loc) as I get error message due to require of these two
packages in different functions?
3- Although I use the alias of an Rd file of my
package in cross references:
\seealso{
See Also as \code{\link{object.name}}
}
where object.name is the name of an Rd file without
Rd
What is an Rd file without Rd?
, I get the following warning
Missing link(s) in documentation object
'./man/object.name.Rd':
object.name
This means you cited the help page itself?
I think you need to tell us the alias(es) you used as well
as the
purpose of this one.
I don't think that I will have use
the name of my package.
Why is this related?
Best wishes,
Uwe Ligges
Look forward to your reply,
Carol
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