arnima writes:
The file_path_sans_ext() function in the 'tools' package does not handle
alphanumeric file extensions correctly:
require(tools)
file_path_sans_ext(song.txt) # song, correct
file_path_sans_ext(song.mp3) # song.mp3, wrong
The help page states that only purely
spencerg writes:
I will offer my opinion as a user and contributer to R packages
via R-Forge and CRAN:
1. How difficult would it be to split CRAN into two parts,
depending on whether the package carried an acceptable license allowing
free distribution? The second
Prof John C Nash writes:
The responses to my posting yesterday seem to indicate more consensus
than I expected:
1) CRAN should be restricted to GPL-equivalent licensed packages
2) r-forge could be left buyer beware using DESCRIPTION information
3) We may want a specific repository for
Hadley Wickham writes:
Currently, writing R extensions states: The ‘Package’ and ‘Version’
fields give the name and the version of the package, respectively. The
name should consist of letters, numbers, and the dot character and
start with a letter.
Now that _ is no longer an assignment
locate is [Rd] CRAN,
Bioconductor and ctv package dependency questions, Kurt Hornik, Sept
8, 2005;
https://stat.ethz.ch/pipermail/r-devel/2005-September/034547.html.
Does the comments in that thread still reflect how CRAN works?
Not quite. No more special casing of BioC or Ohat dependencies
. Bioconductor and Omegahat? Is this
documented somewhere?
The most recent note on this that I could locate is [Rd] CRAN,
Bioconductor and ctv package dependency questions, Kurt Hornik, Sept
8, 2005;
https://stat.ethz.ch/pipermail/r-devel/2005-September/034547.html.
Does the comments
Christophe Dutang writes:
Hi,
I have a problem when checking the package 'probdistr' (on probability
distributions).
I got this warning
* checking index information ... WARNING
Vignettes with missing or empty \VignetteIndexEntry:
[1] probdistr-chiprobdistr-contextra
Ben Goodrich writes:
Gabor Grothendieck wrote:
On Thu, Apr 23, 2009 at 4:59 PM, Ben Goodrich goodr...@fas.harvard.edu
wrote:
Dirk Eddelbuettel edd at debian.org writes:
As a non-exhautive list with possible misclassifications, cran2deb
currently
has these packasges as 'maybe not free'
Kjetil Halvorsen writes:
On Thu, Apr 23, 2009 at 4:59 PM, Ben Goodrich goodr...@fas.harvard.eduwrote:
Dirk Eddelbuettel edd at debian.org writes:
As a non-exhautive list with possible misclassifications, cran2deb
currently
has these packasges as 'maybe not free' and does not build them:
Emails to the maintainers of the CRAN packages listed below recently
bounced:
adbro...@stat.ncsu.edu: Rlab
adbro...@unity.ncsu.edu VIA atina.bro...@alumni.ncsu.edu: knnflex
adi...@hsph.harvard.edu: LoopAnalyst
ae...@hutchison-mrc.cam.ac.ac: mlica
alexandra.imb...@met.no: anm
Prof Brian Ripley writes:
On Thu, 18 Dec 2008, Bjørn-Helge Mevik wrote:
Dear developeRs,
As of icc 10, the -c99 option is deprecated, and generates a lot of
warnings when compiling R or R packages.
If you use CC=icc -std=c99 instead of just CC=icc, R's configure
will not add the -c99
Robert Gentleman writes:
Hi,
Two quick (late) comments:
Prof Brian Ripley wrote:
I've started to implement checks for package versions on dependencies in
install.packages(). However, this is revealing a number of
problems/misconceptions.
(A) We do not check versions when loading
spluque writes:
Hi,
A couple of missing parenthesis in R-devel's FAQ:
Thanks, fixed.
-k
--cut here---start-
Index: doc/manual/R-FAQ.texi
===
--- doc/manual/R-FAQ.texi
Michael Lawrence writes:
On Thu, Sep 18, 2008 at 7:04 AM, Simon Anders [EMAIL PROTECTED] wrote:
Hi Michael,
Michael Lawrence wrote:
For processing events, RGtk2 has moved away from using the old tcl_do
hack
and now synchronizes on the Windows event loop. In Rgui.exe this works
fine
McGehee, Robert writes:
Hello,
I wanted to suggest that the below method for split.Date be added to the
base library to significantly speed up splits with values of class Date.
In the below example I show a speed improvement of 175x for 1000 data
points. On a vector of size 1e6, the time
Dirk Eddelbuettel writes:
On 6 April 2008 at 08:37, Spencer Graves wrote:
| moved to R-devel
[...]
| However, the comment from Hans Borchers (below) raises a related
| question: What might be the best way to build a collaboration with
| existing optimization initiatives, possibly
hadley wickham writes:
I'm always forgetting to update the date in DESCRIPTION. Would it be
possible to add a warning to R CMD check if it's old?
I recently thought about this. I see several issues.
* How can we determine if it is old? Relative to the time when the
package was uploaded
hadley wickham writes:
I recently thought about this. I see several issues.
* How can we determine if it is old? Relative to the time when the
package was uploaded to a repository?
* Some developers might actually want a different date for a variety of
reasons ...
* What we
Andrew Finley writes:
Hello,
I've noticed that with g++ 4.3 I get the following warning: deprecated
conversion from string constant to ‘char*’ when I call e.g.,
Rprintf(Hello world); or when I try to define a const char e.g., char
lower = 'L';
I am wrapping the c++ code in extern C {}.
Vincent Goulet writes:
Dear developeRs,
Compilation of the latest version (0.9-5) of my actuar package fails
with r-release MacOS_X ix86 on CRAN; see
http://www.R-project.org/nosvn/R.check/r-release-macosx-ix86/actuar-00check.html
All errors come from accented letters in
Prof Brian Ripley writes:
The R front end sets (via etc/ldpath) R_LIBRARY_PATH, including
R_JAVA_LD_LIBRARY_PATH. Perhaps the later is too obliging, as I've just
be caught by it in a way that took me a while to track down.
One of my machines has a Sun jdk1.6.0* JDK installed, and as a
Johannes Graumann writes:
Hi,
Is there any way to trick R CMD check into not throwing this error after I
created a dedicated plot incarnation for my custom function?
* checking S3 generic/method consistency ... WARNING
plot:
function(x, ...)
plot.MQUSpecMatch:
function(x, mozlabel,
--- Start of forwarded message ---
Date: Tue, 13 Nov 2007 21:44:57 +0100
To: Steve Mongin [EMAIL PROTECTED]
Cc: [EMAIL PROTECTED]
Subject: Re: range( dates, na.rm = TRUE )
In-Reply-To: [EMAIL PROTECTED]
Reply-To: [EMAIL PROTECTED]
From: Kurt Hornik [EMAIL PROTECTED]
X-AntiVirus: checked
As part of the process for the upcoming release of 2.6.0, we recently
contacted all maintainers of CRAN packages which give R CMD check
warnings or errors for a current prerelease of R 2.6.0.
Emails to the following addresses bounced:
[EMAIL PROTECTED]
[EMAIL PROTECTED]
[EMAIL PROTECTED]
Michael Cassin writes:
I don't know of one.
Ideally, instead of a specifc function anyNA() function, any() could
be perhaps be extended to any(x, FUN) where FUN returns a logical for
an element of x, and implemented to find the 1st instance as you
suggest.
Patterned after Common Lisp's
Ferdinand Alimadhi writes:
R CMD check gives an error when a vignette entry %\VignetteDepends{} has any
extra space at the end.
Maybe this is by design, but I found it confusing.
Actually, this is by design, but I'll look into changing it.
Best
-k
Changing the function vignetteMetaRE in
Dear R developers,
With the release of R 2.5.0 on 2007-04-24 CRAN will remove its 'Devel'
subdirectory (originally intended to distribute development versions
of packages, but now apparently no longer needed and/or used).
Packages in the 'Devel' are which do not pass R CMD check without
warnings
Gregor Gorjanc writes:
Seth Falcon sfalcon at fhcrc.org writes:
The quick fix for you is, I believe,
if (interactive()) {
library(fortunes)
fortune()
detach(package:fortunes)
}
Whether something could be changed so that R's output doesn't confuse
itself and gcc when doing R CMD
Kurt Hornik writes:
Gregor Gorjanc writes:
Seth Falcon sfalcon at fhcrc.org writes:
The quick fix for you is, I believe,
if (interactive()) {
library(fortunes)
fortune()
detach(package:fortunes)
}
Whether something could be changed so that R's output doesn't confuse
itself and gcc
charlie writes:
I just saw the following using R version 2.4.1 (2006-12-18) in
output from R CMD check.
* checking Rd files ... WARNING
Error in as.vector(x, mode) : invalid argument 'mode'
Execution halted
See the chapter 'Writing R documentation files' in manual
Simon Urbanek writes:
On Jan 12, 2007, at 7:31 AM, Hin-Tak Leung wrote:
I do use Java, just not in relation to R - it has been a while
since I played with SJava. Sun's JDK (32-bit) has been working
consistently.
On FC5 x86_64 the default gcj-based JRE was a bit funny, but since
Duncan Temple Lang writes:
-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1
Prof Brian Ripley wrote:
I've added to R-devel the ability to use download.file() and url() to
https: URLs, *only* if --internet2 is used on Windows.
This uses the Internet Explorer internals, and only works if
Martin Maechler writes:
DeepS == Deepayan Sarkar [EMAIL PROTECTED]
on Thu, 21 Dec 2006 22:07:27 -0800 writes:
DeepS The old apropos started with: if
DeepS (!is.character(what)) what -
DeepS as.character(substitute(what))
DeepS The new one has:
DeepS if (character.only)
Seth Falcon writes:
Kurt Hornik [EMAIL PROTECTED] writes:
Robert Gentleman writes:
I would also, personally prefer some sort of approximate matching since
there are different ways to spell some words, and some folks abbreviate
parts of words.
The same design has been employed
Uwe Ligges writes:
Dirk Eddelbuettel wrote:
Running R CMD check on a local package, I get
* checking Rd files ... OK
* checking Rd cross-references ... WARNING
Error in .find.package(package, lib.loc) :
there is no package called 'boot'
Probably the boot installation in one of your
gml4410 writes:
Full_Name: Gordon Lack
Version: 2.4.0
OS: Redhat Linux AS2.1
Submission from: (NULL) (198.28.92.5)
Not sure whether this is a configure issue or an R one.
It's only a minor issue, so this is really just FYI.
The code in configure checks for the version of makeinfo by
Gabor Grothendieck writes:
What determines which fields appear in CRAN descriptions pages.
For example, for doBy there is no Date: but there is a vignette listed:
http://cran.r-project.org/src/contrib/Descriptions/doBy.html
whereas for gsubfn there is a Date: but there is no vignette
Dirk Eddelbuettel writes:
On 22 May 2006 at 23:24, Gabor Grothendieck wrote:
| This would certainly be nice.
|
| Note that the BioConductor package vignettes are online:
|http://www.bioconductor.org/docs/vignettes.html
| but there is nothing comparable for CRAN.
|
| In some cases
McGehee, Robert writes:
I was recently browsing through CRAN's Finance task view to remind
myself of the publicly available packages relevant to my work. As the
reference manuals are all online, I am able to flip through the
available functions to get an idea of the package's scope before
François Pinard writes:
Hi, people. The documentation of abline says:
Usage:
abline(a, b, untf = FALSE, ...)
abline(h=, untf = FALSE, ...)
abline(v=, untf = FALSE, ...)
abline(coef=, untf = FALSE, ...)
abline(reg=, untf = FALSE, ...)
so suggesting that h= and
Robert Gentleman writes:
Hi,
Over the past six months we have had a few problems with deprecation
and Seth Falcon and I want to propose a few additions to the mechanism
that will help deal with cases other than the deprecation of functions.
In the last release one of the arguments
Paul Roebuck writes:
I downloaded 2.3 version of R-FAQ.pdf from CRAN and noticed
the table of contents does not appear in the PDF version
as it does in the HTML version.
Where did you get this from? The version I just got from
http://cran.r-project.org/doc/FAQ/R-FAQ.pdf
has both
Hin-Tak Leung writes:
Kurt Hornik wrote:
Paul Roebuck writes:
I downloaded 2.3 version of R-FAQ.pdf from CRAN and noticed
the table of contents does not appear in the PDF version
as it does in the HTML version.
Where did you get this from? The version I just got from
http://cran.r
Jeff Enos writes:
R-devel,
There has been some confusion on the MatchIt package mailing list on
the meaning of [--install=no] in the comment column of CRAN's
automated package check.
It's my understanding that, at the very least, a package marked like
this will not have its test cases run
ernesto writes:
Hi,
I'm adjusting package FLCore to the new R version and I got an error
due to the change of the transform function argument x to
_data. Was this intentional ?
You mean that you get the error? :-)
See NEWS:
o The data frame argument to transform() is no longer
Email to Jeff Banfield, the creator of RWeb, seem to bounce with
- The following addresses had permanent fatal errors -
[EMAIL PROTECTED]
(reason: 550 5.1.1 [EMAIL PROTECTED]... User unknown)
Does anyone know how to reach Jeff?
Thanks
-k
Simon Urbanek writes:
On Apr 20, 2006, at 1:23 PM, Henrik Bengtsson (max 7Mb) wrote:
Is it a general consensus on R-devel that *.tar.gz distributions
should only be treated as a distribution for *building* packages
and not for developing them?
[Actually, distributing so that they can be
Emails to
Edgar Acuna [EMAIL PROTECTED],
Federico C. F. Calboli [EMAIL PROTECTED],
Hao Wu [EMAIL PROTECTED],
Lopaka Lee [EMAIL PROTECTED],
Maria Kocherginsky [EMAIL PROTECTED],
as maintainers of CRAN packages with QC problems that need addressing
for the upcoming 2.3.0 release
gael millot writes:
Full_Name: Gael Millot
Version: 2.2.0.
OS: XP
Submission from: (NULL) (195.220.102.20)
Hello.
I sent an Email in r-help without answer for the moment.
I am wondering if it could have a mistake
in the code of the ansari.test function. For me, it seems that the
Henrik Bengtsson writes:
Hi, I get
* excluding invalid files from 'R.oo'
Subdirectory 'R' contains invalid file names:
attachLocally.Object.Rex Exception.Rex extend.default.Rex
InternalErrorException.reportBug.Rex Package.Rex Person.Rex Rdoc.Rex
setMethodS3.Rex StaticFields.Rex
spector writes:
Due to the following lines in parse.format:
else if (nf == 3) {
sep -
fmt - substring(format, first = 1:3, last = 1:3)
}
If a format code has 3 characters, it will not use a separator:
library(chron)
mytime = times('7:15:00')
format(mytime,'h:m')
Hin-Tak Leung writes:
Ross Boylan wrote:
On Mon, 2005-11-21 at 10:27 +, Hin-Tak Leung wrote:
Kurt Hornik wrote:
snipped
Definitely a problem in Rdconv.
E.g.,
$ cat foo.Rd
\description{
\eqn{{A}}{B}
}
[EMAIL PROTECTED]:~/tmp$ R-d CMD Rdconv -t latex foo.Rd | grep eqn
\eqn
Ross Boylan writes:
Writing R Extensions mentions that a package developer can provide a
Makefile, but gives very little information about what should be in it.
It says there must be a clean target, and later on there's mention of
$(SHLIB): $(OBJECTS)
$(SHLIB_LINK) -o $@
Prof Brian Ripley writes:
I've some playing with the Intel compilers, currently only on ia32. As
far as I can see Intel provides compilers for only two OSes and on 50% of
those -fPIC is wrong so I do think this is really Linux-specific.
I have put in a Linux-specific change to set
Duncan Murdoch writes:
On 11/18/2005 12:40 PM, Hin-Tak Leung wrote:
Martin Maechler wrote:
Hin-Tak == Hin-Tak Leung [EMAIL PROTECTED]
on Fri, 18 Nov 2005 16:38:28 + writes:
Hin-Tak Your own fault. See below. It is basic LaTeX and any LaTeX person
Hin-Tak can tell you the
lgautier writes:
Full_Name: Laurent
Version: R-2.0.0-beta-from-a-week-ago
OS: linux
Submission from: (NULL) (202.156.6.77)
When running 'R CMD check' for a package that contains the symbol '%'
in the signature of a function (say the default parameter for a string
argument is like 10% -
Roger D Peng writes:
I think the reason is that the standard for 'R CMD check' is that
examples in help pages are guaranteed to be executable by the user (as
long as the requirements are met). There is no way to guarantee this
without having the packages installed. So strictly speaking,
Gabor Grothendieck writes:
I tried to contact the maintainer of RDCOMClient as per the
DESCRIPTION file to report a bug but my mail bounced. Is there more
recent contact information?
Yes. In case you want to have it .
Duncan Temple Lang [EMAIL PROTECTED]
-k
The original message
Gabor Grothendieck writes:
On 9/9/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
In R 2.2.0 I find that even if I use \dontshow in the examples section
of an .Rd file that the code still shows.
Has anyone else seen this?
Are there any packages that use this facility that I could
try
Thomas Lumley writes:
On Fri, 9 Sep 2005, Gabor Grothendieck wrote:
How about if there were just a standard location and name such as inst/NEWS,
inst/WISHLIST, inst/THANKS (which has the advantage that they are
automatically
made available in the built package under the current way
Kasper Daniel Hansen writes:
Hi
We are currently embedding a rather large C++ library in R (BioC),
and we want some comments on the portability of how we have approach
this.
First of, we are not really able to do much about the portability of
the basic library, which of course is
Henrik Bengtsson writes:
When batch processing analysis, I use tryCatch() for failure handling
and to prevent unwanted interrupts. I write detailed progress to log
file and conditions (warnings and errors) are written to the same log
file immediately by using withCallingHandlers(...,
Gabor Grothendieck writes:
1. Can CRAN packages depend on Bioconductor packages and still pass
R CMD check? That is can Suggests: and Depends: in the DESCRIPTION
file contain Bioconductor packages or only other CRAN packages?
Is there an example?
Yes, yes, yes. (E.g., LMGene, limma, ...)
Achim Zeileis writes:
On Thu, 8 Sep 2005 10:41:15 +0200 Kurt Hornik wrote:
Gabor Grothendieck writes:
1. Can CRAN packages depend on Bioconductor packages and still pass
R CMD check? That is can Suggests: and Depends: in the DESCRIPTION
file contain Bioconductor packages or only
Seth Falcon writes:
We're seeing many warnings like this:
Warning: S3 method 'print.check_code_usage_in_package' was declared in
NAMESPACE but not found
But the package's NAMESPACE does not contain such a declaration.
Seeing this in many Bioconductor packages when running R CMD check on
Tuszynski, Jaroslaw W writes:
Hi,
My package caMassClass depends on several other packages, one of them
PROcess residing on Bioconductor website. Bioconductor repository is
not, listed in default set of repositories in current version of R (Windows
R 2.1.1). As a result people installing my
Robin Hankin writes:
Professor Ripley
On Jul 1, 2005, at 02:58 pm, Prof Brian Ripley wrote:
Search for uses of Rcomplex in package source code. The only
packages on CRAN which use it are ifs and rimage.
Thank you for this: either is perfect for my purposes. How did you
search the
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