Hi Renaud,
On Tue, Dec 18, 2012 at 8:44 AM, Renaud Gaujoux ren...@cbio.uct.ac.za wrote:
Hi Henrik (and list),
I am interested in a similar feature, and would be happy to see the
suggestions you got off-line :)
Have you come up with a robust solution, which would work in a variety of
Hi,
in my package, I've got a 'configure' file in the root, e.g.
aroma.affymetrix/configure. (I've also got a configure.win, which
works just fine on Windows). This file must be executable (has a
proper file mode) for 'R CMD INSTALL'/install.packages() to work,
otherwise one gets:
* installing
In the spirit of this, but AFAIK not due to lazy evaluation, here's
another illustration why it's easy to mistakes when doing inline
assignments:
x - 0
TRUE (x - 1)
[1] TRUE
x
[1] 1
FALSE (x - 2)
[1] FALSE
x
[1] 1
(x - 3) FALSE
[1] FALSE
x
[1] 3
FALSE (x - 4)
[1] FALSE
x
[1] 4
On Fri, Jan 11, 2013 at 10:40 PM, Prof Brian Ripley
rip...@stats.ox.ac.uk wrote:
On 11/01/2013 20:22, Henrik Bengtsson wrote:
Below is a patch for setwd() to show path in error message. Current
it just gives error messages such as:
Error in setwd(libdir) : cannot change working directory
On Wed, Jan 16, 2013 at 7:25 AM, Gavin Simpson gavin.simp...@ucl.ac.uk wrote:
As a follow-up, shortly after I clicked send I decided to do something
silly and rename my ~/.Renviron (which set R_LIBS too). Silly because
the Writing R Extensions (WRE) manual says that these startup files are
not
On Wed, Jan 16, 2013 at 8:59 AM, Henrik Bengtsson h...@biostat.ucsf.edu wrote:
On Wed, Jan 16, 2013 at 7:25 AM, Gavin Simpson gavin.simp...@ucl.ac.uk
wrote:
As a follow-up, shortly after I clicked send I decided to do something
silly and rename my ~/.Renviron (which set R_LIBS too). Silly
Just an observation/FYI on the new DESCRIPTION field 'VignetteBuilder'
available in R devel:
Unlike other package fields (Depends, Imports and Suggests),
VignetteBuilder does not support version specifiers, e.g.
VignetteBuilder: R.rsp (= 0.8.2)
but only
VignetteBuilder: R.rsp
If adding a
Hi,
as far as I understand it, the new R devel feature of processing
non-Sweave vignettes will (a) locate any [.][RrSs](nw|tex)$ or
.Rmd files, (b) check for a registered vignette engine, (c) process
the file using the registered weave function, (d) and possibly post
process the generated weave
-Sweave vignettes (without using custom Makefiles), but I find that
the supported filename extensions has not been brought along in this
move.
Thanks again,
Henrik
Duncan Murdoch
On 13-02-14 10:29 PM, Henrik Bengtsson wrote:
Hi,
as far as I understand it, the new R devel feature
Hi,
as said at the end, all comments are now in the light of R 3.x.0 (x 0).
On Fri, Feb 15, 2013 at 11:30 AM, Duncan Murdoch
murdoch.dun...@gmail.com wrote:
On 13-02-15 1:53 PM, Henrik Bengtsson wrote:
Hi Duncan,
thanks you for your prompt reply.
On Fri, Feb 15, 2013 at 1:15 AM, Duncan
On Sat, Mar 9, 2013 at 12:25 PM, Kevin Hendricks
kevin.hendri...@sympatico.ca wrote:
Hi,
Who should I ask about my package Rigroup_0.83 being moved to Archive status
on CRAN and no longer available via install.package? I have no problems with
the move if this was simply because of low
Hi,
I contributed code to R r62130 which may be responsible for that (not
sure). I'll investigate as soon as got the time.
/Henrik
On Wed, Mar 13, 2013 at 10:17 AM, Dan Tenenbaum dtene...@fhcrc.org wrote:
Hello,
I'm seeing three different vignette-related errors with recent
versions of
, 2013 at 1:16 PM, Henrik Bengtsson h...@biostat.ucsf.edu wrote:
Hi,
I contributed code to R r62130 which may be responsible for that (not
sure). I'll investigate as soon as got the time.
/Henrik
On Wed, Mar 13, 2013 at 10:17 AM, Dan Tenenbaum dtene...@fhcrc.org wrote:
Hello,
I'm seeing
Hi,
things have indeed changed on how non-Sweave vignettes are built (this
happened around R devel 2013-03-05 r62130). However, it's not clear
to me what changes would be behind your problems, if any.
Build your vignette with the following buildVignette(), which emulates
what R does when it
I can reproduce this (same setup):
require(tools);
checkMD5sums(dir=R.home());
It's a '\n' - '\r\n' issue:
filename - etc/Rconsole;
md5 - readLines(file.path(R.home(), MD5));
md5 - grep(filename, md5, value=TRUE);
md5 - gsub( .*, , md5);
print(md5);
[1] 35d6d6cf7957492f78f50c435e36f08e
On Thu, Apr 4, 2013 at 12:10 PM, Duncan Murdoch
murdoch.dun...@gmail.com wrote:
On 04/04/2013 2:38 PM, Tal Galili wrote:
Hello dear R-devel,
When installing R 3.0.0 on Windows 7, and then running:
require(tools)
checkMD5sums(dir=R.home())
I get the following massage:
files
Hi,
I'm trying to figure out how to safely make sure that I close the same
graphics device that I opened earlier in a thread (and not one opened
by a parallel thread). In a *single-thread* environment, one can do
the following to open and close a device:
makePlot - function(i) {
filename -
] Error in x11() : a forked child should not open a graphics device\n
## [[2]]
## [1] Error in x11() : a forked child should not open a graphics device\n
Thanks for your help Simon,
Henrik
Cheers,
Simon
On Apr 5, 2013, at 12:23 PM, Henrik Bengtsson h...@biostat.ucsf.edu wrote:
Hi,
I'm
If you're not aware of it, you should know of:
http://cran.r-project.org/web/packages/policies.html
/Henrik
On Sat, Apr 20, 2013 at 8:42 AM, Uwe Ligges
lig...@statistik.tu-dortmund.de wrote:
On 19.04.2013 06:38, liuyipei wrote:
Hi,
I have a simple package with two functions. It
I (as well) keep a specific Rsetup.bat file for launching Windows
cmd.exe with the proper PATH etc setup for build R packages etc. It's
only after this thread I gave it a second thought; you can indeed
temporarily set the PATH via ~/.Rprofile or ~/.Renviron, which *are*
processed at the very
It's certainly not obvious, but you should use 'gswin32c.exe' instead
of 'gswin32.exe'. From
http://ghostscript.com/doc/current/Install.htm#Install_Windows
GSWIN32C.EXE Ghostscript as a 32-bit Windows command line program.
This is usually the preferred executable.
GSWIN32.EXE 32-bit Ghostscript
Hi,
I make heavy use of verbose statements in my code, verbose output that
can be enabled/disabled via an argument. Here is a dummy example:
foo - function(n=10, verbose=FALSE) {
res - 0;
for (k in 1:n) {
if (verbose) cat(Iteration , k, ...\n, sep=);
res - res + k;
if
Hi,
in my packages/functions/code I tend to remove large temporary
variables as soon as possible, e.g. large intermediate vectors used in
iterations. I sometimes also have the habit of doing this to make it
explicit in the source code when a temporary object is no longer
needed. However, I did
On Sat, May 25, 2013 at 4:38 PM, Simon Urbanek
simon.urba...@r-project.org wrote:
On May 25, 2013, at 3:48 PM, Henrik Bengtsson wrote:
Hi,
in my packages/functions/code I tend to remove large temporary
variables as soon as possible, e.g. large intermediate vectors used in
iterations. I
On CRAN servers or R CMD check --as-cran? I assume you mean the
former. The way I do it is the other way around, i.e. to condition
on running locally or not such that the default is not to run or to
run a smaller test case:
if (Sys.getenv(_R_CHECK_FULL_) == ) {
# Default/no test
} else {
#
Works for me (Win 7 64bit) using R.exe:
setwd(tempdir())
getwd()
[1] C:/Users/hb/AppData/Local/Temp/RtmpSqjCDt
res - system2(whoami, stdout=out.txt, stderr=err.txt)
res
[1] 0
file.info(c(out.txt, err.txt))
size isdir mode mtime ctime
out.txt 12 FALSE
On Windows, the following crashes R for Windows terminal front-end:
R -e
whereas
Rterm -e or R -e (a space in the expression) doesn't.
I observe this on:
- R Under development (unstable) (2013-07-26 r63419) [Platform:
x86_64-w64-mingw32/x64 (64-bit)]
- R version 3.0.1 Patched (2013-07-25
Trying to launch R with a *non-existing* encoding core dumps/crashes,
e.g. R --encoding=foo -e 1.
EXAMPLES:
R --encoding=foo -e 1
R version 3.0.1 (2013-05-16) -- Good Sport
Copyright (C) 2013 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin10.8.0 (64-bit)
[...]
***
On Sun, Jul 28, 2013 at 10:39 AM, Duncan Murdoch
murdoch.dun...@gmail.com wrote:
On 13-07-28 1:31 PM, Henrik Bengtsson wrote:
Trying to launch R with a *non-existing* encoding core dumps/crashes,
e.g. R --encoding=foo -e 1.
EXAMPLES:
R --encoding=foo -e 1
R version 3.0.1 (2013-05-16
On Sun, Jul 28, 2013 at 10:22 AM, Henrik Bengtsson h...@biostat.ucsf.edu
wrote:
On Windows, the following crashes R for Windows terminal front-end:
R -e
whereas
Rterm -e or R -e (a space in the expression) doesn't.
I observe this on:
- R Under development (unstable) (2013-07-26
Hi,
several image file format supports textual/meta data comments in one
way or the other. For me an obvious usage would be to add
sessionInfo() information to PNG and PDF image files, ideally from
within R although external tools would work as well(*). Has anyone
looked into this or have any
...@ucdavis.edu wrote:
Hi Henrik
I have some extensions of Simon U's png package
to read and write metadata elements for PNG.
They are at
https://github.com/duncantl/png.git
When I have time to completely test them, maybe Simon
may incorporate them.
D.
On 7/30/13 7:59 PM, Henrik
Thank you both. It works like a charm (tried it on Windows).
/Henrik
On Wed, Jul 31, 2013 at 7:17 AM, Simon Urbanek
simon.urba...@r-project.org wrote:
On Jul 31, 2013, at 12:12 AM, Henrik Bengtsson wrote:
Hi Duncan,
this is perfect timing. Your
https://github.com/duncantl/png/blob/master
My solution the original post is to always set 'con - NULL' after closing a
connection, and then test for NULL. This is how I do to make sure to make
sure that opened connections are closed and as soon as possible.
foo - function(...) {
con - file(foo.R, open=r):
on.exit({
if
On Nov 10, 2007 1:27 PM, Simon Urbanek [EMAIL PROTECTED] wrote:
On Nov 10, 2007, at 1:05 PM, Duncan Murdoch wrote:
On 10/11/2007 1:00 PM, Duncan Temple Lang wrote:
-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1
Duncan Murdoch wrote:
Prof Brian Ripley wrote:
Please don't use
On 04/12/2007, Duncan Murdoch [EMAIL PROTECTED] wrote:
On 12/4/2007 7:10 AM, [EMAIL PROTECTED] wrote:
Full_Name: Rico Ihle
Version: 2.6.1
OS: Windows XP Professional Version 2002 Pentium(R) 4 CPU 3.2 GHz
Submission from: (NULL) (134.76.183.24)
This is not a bug. See FAQ 7.31, Why
On 06/12/2007, Marc Schwartz [EMAIL PROTECTED] wrote:
On Thu, 2007-12-06 at 00:32 -0800, Deepayan Sarkar wrote:
On 12/6/07, Prof Brian Ripley [EMAIL PROTECTED] wrote:
The defaults for postscript()
paper = default
onefile = TRUE
horizontal = TRUE
(it seems) date from the
Also make sure the problem is not due to downloading a gzip file in
text mode, because to the best of my understanding that is platform
dependent. That is, use download.file(..., mode=wb) instead of the
default, which is mode=w. (This is such a common error that I would
like to suggest mode=wb
On 01/01/2008, Henrik Bengtsson [EMAIL PROTECTED] wrote:
Also make sure the problem is not due to downloading a gzip file in
text mode, because to the best of my understanding that is platform
dependent. That is, use download.file(..., mode=wb) instead of the
default, which is mode=w
On 04/01/2008, hadley wickham [EMAIL PROTECTED] wrote:
On 1/4/08, Prof Brian Ripley [EMAIL PROTECTED] wrote:
What it is trying is
% env R_DEFAULT_PACKAGES=NULL R
loadNamespace(ggplot2)
The test is not new, so it would seem to be a change in ggplot2 since the
version on CRAN. My
Hi,
I just have drop a note to say that the 'codetools' (and the part of R
CMD check that use it) is a pleasure to use and saves me from hours of
troubleshooting. Each time it finds something I am amazed how
accurate it is. Thanks to Luke T. and everyone else involved in
creating it.
Cheers,
Nothing serious, but I just noticed that if you pass a function as the
'length' argument of vector(), you get the following misinformative
error message:
vector(list, length=function() {})
Error in vector(list, length = function() { :
negative length vectors are not allowed
whereas if you for
On Jan 30, 2008 7:20 AM, Jay Emerson [EMAIL PROTECTED] wrote:
I was surprised to observe the following difference between 2.4.1 and
2.6.0 after a long overdue upgrade a few months ago of our
departmental server. It wasn't a bug fix, but a subtle improvement.
Here's the simplest example I
On Feb 5, 2008 8:01 AM, Iago Mosqueira [EMAIL PROTECTED] wrote:
Hello,
After experiencing some difficulties with large arrays, I was surprised
to see the apparent need for class to gc() after creating fairly large
arrays. For example, calling
a-array(2, dim=c(10,10,10,10,10,100))
makes
On Feb 5, 2008 10:12 AM, Henrik Bengtsson [EMAIL PROTECTED] wrote:
On Feb 5, 2008 8:01 AM, Iago Mosqueira [EMAIL PROTECTED] wrote:
Hello,
After experiencing some difficulties with large arrays, I was surprised
to see the apparent need for class to gc() after creating fairly large
arrays
This is a beautiful example on how an added feature matures into a bug
over time :)
I let the Windows developers argue with the pro's and con's of your
suggestion. I just wanna add a related suggestion that when you have
multiple installations and you run Unistall R 2.6.0 the first dialog
('R
Hi,
this is related to a question just raised on Bioconductor where one
function sets the random seed internally but never resets it, which
results in enforced down streams random samples being deterministic.
What is the best way to reset the random seed when you use set.seed()
within a
On Feb 13, 2008 9:32 AM, Prof Brian Ripley [EMAIL PROTECTED] wrote:
On Wed, 13 Feb 2008, Henrik Bengtsson wrote:
Hi,
this is related to a question just raised on Bioconductor where one
function sets the random seed internally but never resets it, which
results in enforced down streams
the seed, if you
are going to try to reproduce results.)
Thanks for this note. This seems much more natural to work with than
'.Random.seed'.
/Henrik
Paul
Henrik Bengtsson wrote:
Hi,
this is related to a question just raised on Bioconductor where one
function sets the random seed
On Thu, Feb 14, 2008 at 8:18 AM, Duncan Murdoch [EMAIL PROTECTED] wrote:
On 2/14/2008 10:54 AM, Henrik Bengtsson wrote:
On Thu, Feb 14, 2008 at 7:23 AM, Jeffrey Horner
[EMAIL PROTECTED] wrote:
Paul Gilbert wrote on 02/14/2008 09:14 AM:
_ wrote:
Hi all,
Using big
I'm working on colClasses() function that generates colClasses
vectors for read.table() using a compact format string (see below).
The below is what I got right now. Before adding it to R.utils, I
would like to check with you if I'm missing something obvious such as
certain column classes, if
Hi,
is it possible to update the modification time stamp of a file using R
(on file systems supporting it)? It is sufficient to update the
modification time to the current time. The best I can do for now is:
touchFile - function(pathname, ...) {
if (!file.exists(pathname))
stop(No such
x - rnorm(1e6);
y - log(x); # or logb(x) or log1p(x)
w - warnings();
print(object.size(w));
## [1] 480
str(w);
$ NaNs produced: language log(x)
- attr(*, dots)= list()
- attr(*, class)= chr warnings
y - log2(x); # or log10(x)
w - warnings();
print(object.size(w));
## [1] 8000536
str(w);
##
On Wed, Feb 27, 2008 at 12:56 AM, Prof Brian Ripley
[EMAIL PROTECTED] wrote:
On Wed, 27 Feb 2008, Martin Maechler wrote:
Thank you Henrik,
HenrikB == Henrik Bengtsson [EMAIL PROTECTED]
on Tue, 26 Feb 2008 22:03:24 -0800 writes:
{with many superfluous empty statements ( i.e
.
Henrik
On Wed, Feb 27, 2008 at 11:12 AM, Earl F. Glynn
[EMAIL PROTECTED] wrote:
Henrik Bengtsson [EMAIL PROTECTED] wrote in message
news:[EMAIL PROTECTED]...
is it possible to update the modification time stamp of a file using R
(on file systems supporting
On Wed, Mar 5, 2008 at 6:40 PM, Henrik Bengtsson [EMAIL PROTECTED] wrote:
On Wed, Mar 5, 2008 at 6:18 PM, Duncan Murdoch [EMAIL PROTECTED] wrote:
On 05/03/2008 8:56 PM, Henrik Bengtsson wrote:
Hi,
just curious, but does anyone know the source/reason of observing
On Wed, Mar 5, 2008 at 11:09 PM, Prof Brian Ripley
[EMAIL PROTECTED] wrote:
On Wed, 5 Mar 2008, Henrik Bengtsson wrote:
On Wed, Mar 5, 2008 at 6:18 PM, Duncan Murdoch [EMAIL PROTECTED] wrote:
On 05/03/2008 8:56 PM, Henrik Bengtsson wrote:
Hi,
just curious, but does anyone know
When I run R CMD check R.oo on R v2.7.0 devel (2008-03-04 r44677) on
WinXP I get the following error while testing examples:
Error in match(x, table, nomatch = 0) :
formal argument nomatch matched by multiple actual arguments
Calls: setMethodS3 - setMethodS3.default - %in% - match
Execution
Before submitting a bug report, it is probably wise to bring it up on
r-devel first. Remember, someone has to clean out all those false bug
reports manually.
There are so many potential reasons for your problem, which indicates
fragmented memory allocations. One obvious one is that one of the
, table)
match(x, table, nomatch = 0) 0
environment: namespace:base
except that the 'nomatch' argument is not named in is.element().
Also, none of calls used variable names 'x', 'table', 'el', 'set', or
'nomatch'.
/Henrik
On Thu, Mar 6, 2008 at 2:27 AM, Henrik Bengtsson [EMAIL PROTECTED] wrote
Hi,
I've got data stored in multiple files on a shared file system. I
wish to have multiple processes/hosts read and write to these files
simultaneously. When a process wish to write to a file no other
processes may write to nor read from the file. If no process is
writing to the file, any
A quick comment on design:
On Tue, May 20, 2008 at 1:41 AM, Iago Mosqueira
[EMAIL PROTECTED] wrote:
Hi,
A lowess method is defined in our package for one of our S4 classes. To
explicitely define the generic this is being used
if (!isGeneric(lowess))
setGeneric(lowess, useAsDefault =
On Tue, May 20, 2008 at 5:05 PM, [EMAIL PROTECTED] wrote:
Full_Name: Joseph Scandura
Version: 2.7.0
OS: Mac 10.5
Submission from: (NULL) (140.251.50.94)
Since updating to 2.7.0 all plots that use image() (heatmap, etc...) now draw
visible boxes around each rectangle in the plot. When
Hi,
right now we have (on R v2.7.0 patched (2008-04-23 r45466)) that:
rawToChar(raw(0))
[1]
rawToChar(raw(0), multiple=TRUE)
character(0)
Is this intended or should both return character(0)? Personally, I
would prefer that an empty input vector returns an empty output
vector. Same should
I had a look at the source code and the coercion to double is only
done one the sum of each row/column, so the overhead (e.g. memory)
is only on the summed result. The integer matrix is *not*coerced to
double before summing, which could be case if done before calling the
native code. The latter
Hi,
there is one more thing to consider: the risk of getting integer
overflow. Should that be ignored? How is this handled by sum()?
I think it is good if {col|row}Sums() would return the same data type
as the input object.
Cheers
Henrik
On Thu, Jul 17, 2008 at 6:32 PM, Herve Pages [EMAIL
Hi,
on Windows XP Pro with R version 2.7.1 Patched (2008-06-27 r46012) the
'Cairo' and the 'EBImage' packages does not play well together.
Loading EBImage before Cairo cause the following to happen:
# Rterm --vanilla
library(EBImage);
library(Cairo)
Error in inDL(x, as.logical(local),
Hi,
is there a way to have R CMD check test the example():s twice, once
with all Suggest package hidden or once, if $R_check_force_suggests=1,
with all Suggest available?
BACKGROUND: I just had a case where my R.matlab package passed all R
CMD checks on my local machine, but when I uploaded it
Hi,
FYI, I just notice that on Windows (but not Linux) it is orders of
magnitude (below it's 50x) faster to serialize() and object to a
temporary file and then read it back, than to serialize to an object
directly. This has for instance impact on how fast digest::digest()
can provide a checksum.
Hi,
On Thu, Jul 31, 2008 at 6:35 AM, Roger D. Peng [EMAIL PROTECTED] wrote:
Are the functions 'R_Unserialize' and 'R_InitFileInPStream' allowed to
be used in R packages? I guess I'm just not clear on the implications
of this comment in 'Rinternals.h':
/* The connection interface is not yet
context information, e.g. -C 3?
/Henrik
On Fri, Jul 11, 2008 at 8:57 AM, Charles C. Berry [EMAIL PROTECTED] wrote:
On Thu, 10 Jul 2008, Henrik Bengtsson wrote:
Hi,
by replacing 'll' with 'wh' in the source code for base::which() one
gets ~20% speed up for *named logical vectors*.
The amount
Hi,
thanks for this. I'll use unified diff next time, i.e.
diff -u current.R new.R
/Henrik
On Tue, Aug 5, 2008 at 5:54 AM, Martin Maechler
[EMAIL PROTECTED] wrote:
HenrikB == Henrik Bengtsson [EMAIL PROTECTED]
on Mon, 4 Aug 2008 21:14:12 -0700 writes:
HenrikB Hi,
HenrikB I
This thread is going to be a lot about matter of tastes, but at least
I would think of blah() as a constructor function and as.blah() as a
coerce function. There should always be one constructor function,
but providing coerce functions is optional.
Furthermore, the constructor function should
Hi (Roger),
I saw the announcement of filehash v2.0 and the sentence This
development has lead to better file locking for concurrent access and
faster reading and writing of data in general caught my attention.
What kind of file locking do you refer to here?
I am looking for a mechanism that can
I just want to re-post this thread in case it slipped through the
summer sieve of someone that might be interested and/or has a real
solution beyond my serialize2() patch.
Cheers
Henrik
On Thu, Jul 24, 2008 at 8:10 PM, Henrik Bengtsson [EMAIL PROTECTED] wrote:
Hi,
FYI, I just notice
Not a bug. There is a statement in base::mean.default() before this
if (na.rm)
x - x[!is.na(x)]
that removes any missing values. Thus, it is known that there are no
missing values beyond this statement.
/Henrik
On Tue, Sep 23, 2008 at 8:25 AM, [EMAIL PROTECTED] wrote:
In the
For strsplit(), note that fixed=TRUE is much faster. /HB
On Wed, Sep 24, 2008 at 9:20 AM, Mark Kimpel [EMAIL PROTECTED] wrote:
I knew there HAD to be a basic function, but 'help.search(split string)'
and 'help(string) did not find it. Thanks for the help on this elementary
question.
Mark
Hi, a quick comment. I just notice that as.list() deals with
function:s the old way inside the default function, cf.
as.list.default
function (x, ...)
{
if (typeof(x) == list)
return(x)
if (is.function(x))
return(c(formals(x), list(body(x
.Internal(as.vector(x,
Hi,
I have a writable and readable file on a small network file system
(Cisco NSLU2 Unslung; non-NTFS) that I access via a mounted drive on
Windows Vista. My problem could be due to a funny file
system/server, but here it goes:
pathname - Q:/foo.txt
cat(file=pathname, Hello world!\n)
OS with multiple filesystems potentially has problems like
this: we saw them with Unix (Solaris) file systems mounted on MacOS X via
Samba, even when the same thing works correctly on Linux.)
On Wed, 26 Nov 2008, Henrik Bengtsson wrote:
Hi,
I have a writable and readable file on a small
Using parse() is better for syntax errors;
pathnames - list.files(path=pkg/R, pattern=[.](r|R|s|S)$, full.names=TRUE);
for (pathname in pathnames) parse(pathname)
/Henrik
On Thu, Dec 11, 2008 at 4:00 PM, Duncan Murdoch murd...@stats.uwo.ca wrote:
On 11/12/2008 6:04 PM, Terry Therneau wrote:
Ran into the follow intermediate case in an external package (w/
recent R v2.8.1 patched and R v2.9.0 devel):
x - 1:2
dim(x) - 2
dim(x)
[1] 2
x
[1] 1 2
str(x)
int [, 1:2] 1 2
nrow(x)
[1] 2
ncol(x)
[1] NA
is.vector(x)
[1] FALSE
is.matrix(x)
[1] FALSE
is.array(x)
[1] TRUE
x[1]
[1] 1
then argue that [1:10,] is
somewhat better than [,1:10], but that is just polish.
/Henrik
I think these days we have enough internal glue in place that an end user
would not notice the difference (but those working at C level with R objects
may need to know).
On Mon, 12 Jan 2009, Henrik Bengtsson
On Tue, Jan 13, 2009 at 4:30 PM, robert.e.cranf...@boeing.com wrote:
Hey, this guy builds engines for aircraft *and* uses freeware! I was
on such a jet just few days ago and I can confirm that I did not
notice anything strange (except the food).
Full_Name: Rob Cranfill
Version: 2.8.1
OS:
Hi,
this sounds all good. One comment below:
On Fri, Jan 9, 2009 at 1:25 AM, Prof Brian Ripley rip...@stats.ox.ac.uk wrote:
We have been working on handling Rd (R help) files with R rather than Perl
scripts. As part of that work, Duncan has written a parser which has
revealed many problems
[CC:ing package maintainer of 'impute' package and crossposting to
r-devel and bioc-devel because this affects both audiences]
Hi,
the 'impute' package is published both on CRAN and Bioconductor;
http://cran.r-project.org/web/packages/impute/
Hi,
in R v2.8.1 patched (2008-12-22 r47296) the following works:
sprintf(%#x, 1)
[1] 0x1
whereas in R v2.9.0 devel (2009-01-08 r47515) it gives:
sprintf(%#x, 1);
Error in sprintf(%#x, 1) :
use format %f, %e, %g or %a for numeric objects
Not sure if this was an intended move or not.
to me what you get and what is your version of R?
Thanks a lot!
Note that this is most likely *not* due to R.oo (no native code) - my
wild guess is that it has to do with a memory leak in the code for
environments or regular expressions.
Thanks
Henrik Bengtsson
to replace the f771.exe?
Uwe
-thomas
On Fri, 26 Aug 2005, Henrik Bengtsson wrote:
Hi,
I've spotted a possible memory leakage/violation in the latest R v2.1.1
patched and R v2.2.0dev on Windows XP Pro SP2 Eng.
I first caught it deep down in a nested svd algorithm when
the
error today after a fresh reboot (and letting the computer rest for 12
hours).
Best
Henrik
Uwe
-thomas
On Fri, 26 Aug 2005, Henrik Bengtsson wrote:
Hi,
I've spotted a possible memory leakage/violation in the latest R v2.1.1
patched and R v2.2.0dev on Windows XP Pro SP2
Brian for making me aware of this by mentioning
a possible broken DLL.
Thanks you all for taking the time on this one
Henrik
Henrik Bengtsson wrote:
Prof Brian Ripley wrote:
On Sat, 27 Aug 2005, Uwe Ligges wrote:
Thomas Lumley wrote:
I can't reproduce this on R2.2.0dev on Windows XP
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(..., condition=function(c)
cat(c,
Hi,
would it be possible to add an argument 'flush' to read.table(), which
is passed as internal scan(..., 'flush=flush') calls?
BACKGROUND:
The microarray image analysis software QuantArray, sometimes generates
tab-delimited files that contain data rows with trailing and obsolete
TAB's (for
Hi,
is there a function in R already doing what I try to do below:
# Let 'x' be an array with *any* number of dimensions (=1).
x - array(1:24, dim=c(2,2,3,2))
...
x - array(1:24, dim=c(4,3,2))
i - 2:3
ndim - length(dim(x))
if (ndim == 1)
y - x[i]
else if (ndim == 2)
y - x[i,]
else if
Hi, trying the same on WinXP I get
:R 2.1.1 Patched (2005-09-19)
myf(1)
Error: protect(): protection stack overflow
R 2.2.0 Patched (2005-11-21 r36410):
myf(1)
Error: evaluation nested too deeply: infinite recursion /
options(expressions=)?
options(expressions=5)
myf(1)
Error:
Hi, thanks everyone.
Some comments below:
Peter Dalgaard wrote:
Henrik Bengtsson [EMAIL PROTECTED] writes:
Hi,
is there a function in R already doing what I try to do below:
# Let 'x' be an array with *any* number of dimensions (=1).
x - array(1:24, dim=c(2,2,3,2))
...
x - array(1:24, dim
Hi,
the R.utils package has a function listDirectory() that returns the
directory names too. (I've made some changes to the function recently,
which is not in the CRAN version, so get it from http://www.braju.com/R/
instead.)
The package also has isFile() and isDirectory() to test if a
Thanks for the new updates in v2.2.1.
I just noticed a few problems on
http://cran.r-project.org/bin/windows/base/.
1) The CHANGES and NEWS files for v2.2.1 does not include info on v2.2.1
but only details up until v2.2.0, cf.
http://cran.r-project.org/src/base/NEWS
2) The patched version is
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
when running R CMD build in R v2.3.0
Hi,
On 2/10/06, Kurt Hornik [EMAIL PROTECTED] wrote:
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
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