I was running some sample code from a help page tonight and wished to
redirect the sample output to my Desktop under Linux (Mint-Debian 64 if it
makes a different). I was surprised to find that file name expansion using
the ubuquitious "~/" was not recognized, in fact it caused R to crash. Is
this
maintainers.
>
> Cheers,
> Simon
>
>
> On May 16, 2011, at 10:50 PM, Mark Kimpel wrote:
>
> > I was running some sample code from a help page tonight and wished to
> > redirect the sample output to my Desktop under Linux (Mint-Debian 64 if
> it
> > makes
This was my original post, with the code example only slightly modified by
Martin for clarity. Prior to R-2.9.0, this repeated downloading did not
occur, the code worked as intended. In fact, if memory serves me correctly,
it even worked at least during the first 3 months of R-2.0.0 in its
developm
I have been futzing around for days tying to get rJava to install on
my freshly build Debian Lenny installation. I have R-2.9.1 installed
from source in my R_HOME directory and R-2.7.1 installed via apt-get
install r-recommended. I was tried many different things, but by
accident started up R-2.7.1
debian-xps /usr/lib/jvm/java-6-sun/include: printenv PATH
/home/mkimpel/bin:/usr/local/bin:/usr/bin:/bin:/usr/games:/usr/lib/jvm/
mkimpel-debian-xps /usr/lib/jvm/java-6-sun/include:
On Wed, Jul 15, 2009 at 2:46 PM, Mark Kimpel wrote:
&g
PM, Joshua Ulrich wrote:
> Hi Mark,
>
> The first thing that jumps out to me is that 2.7.1 compiles JRI, while
> 2.9.1 does not (for some reason, autodetect decides not to compile).
>
> HTH,
> Josh
> --
> http://www.fosstrading.com
>
>
>
> On Wed, Jul 15, 200
I just downloaded R-devel and when loaded it immediately segfaults. I'm not
sure how much or what sort of diagnostic info and can provide, but below is
my build script, my console output, and the output of uname -r. I am
currently dependent on the development version of a package, so I'd like to
ge
415b29 in _start () at ../sysdeps/x86_64/elf/start.S:113
(gdb)
Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine
15032 Hunter Court, Westfield, IN 46074
(317) 490-5129 Work, & Mobile & VoiceMail
(317) 399-1219 Skype No Voicemail
# End file
Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine
15032 Hunter Court, Westfield, IN 46074
(317) 490-5129 Work, & Mobile & VoiceMail
(317) 399-1219 Skype No Voicem
Mark
Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine
15032 Hunter Court, Westfield, IN 46074
(317) 490-5129 Work, & Mobile & VoiceMail
(317) 399-1219 Skype No Voicemail please
On Wed, Sep 16, 2009 at 8:07 PM, Duncan Murdoch wrote:
> On 1
()), it might re-enter the parser. It
> needs to save and restore its state around that sort of call.
>
> This will be fairly easy to fix, but I won't be able to do it until
> tomorrow.
>
> Duncan Murdoch
>
>
>
> On 16/09/2009 3:51 PM, Mark Kimpel wrote:
>
>&
Just downloaded and installed "R version 2.10.0 Under development (unstable)
(2009-09-21 r49771)" and am happy to report that my .Rprofile loads
appropriately with no segfaults. Thanks Duncan! Mark
Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine
I ran into a problem today when using a conditional for sub-setting a
data.frame and tracked it down to a difference in behavior between the
treatment of NA when sub-setting matrices and data.frames. A self-contained
example is below followed by sessionInfo(). I'm not questioning the
documentation
I don't think this is off-topic, in the sense that it is the contribution of
the developers of the multitude of packages available that has led to the
success of R. How packages are maintained, forked, etc., is an important
issue. I should say that I am not a developer, only a user appreciative of
I'm going to suggest something that is probably not the coolest thing to do,
but it gets me by with almost all my debugging. I set options(error=recover)
and then in the function I want to debug I put some unassigned variable name
on the first line (example: ThisIsMyDebuggingVariable). Then I will
Just installed the latest R-patched and get the error seen at the end of the
output below. Don't know what to make of this but thought I should report
it. In general, when installing the latest version of R, should one use
R-latest or R-patched? R-latest is stable, but one would assume that
R-patch
e.
Anyway, that's the issue, R-patched doesn't like "(R)".
Mark
On Sat, May 3, 2008 at 4:20 PM, Prof Brian Ripley <[EMAIL PROTECTED]>
wrote:
> On Sat, 3 May 2008, Mark Kimpel wrote:
>
> Just installed the latest R-patched and get the error seen at the end of
>
quot;~/.R")
> Error in source("~/.R") :
> invalid multibyte character in mbcs_get_next at line 1
>
> whereas R-2.6.2 gives
>
> > source(".R")
> > .Last.value
> $value
> [1] "\xe6\xf8\xe5"
>
> $visible
> [1] TRUE
You're correct, bad form on my part. In reality, I did it in two steps as
you suggested, just condensed for purposes of a brief communication. mark
On Mon, May 5, 2008 at 1:52 AM, Peter Dalgaard <[EMAIL PROTECTED]>
wrote:
> Mark Kimpel wrote:
>
> > Thanks guys. Fo
I would like to build R and packages with the Intel 10.1 compilers in RHEL4.
Using the flags below, I can successfully build R using a vanilla
./configure, but when I install new packages they build with gcc. My
sysadmin suggested adding the flags to ./configure as illustrated below, but
then the R
ECTED]>
wrote:
> Mark Kimpel wrote:
>
>>
>> checking for gcc... gcc
>> checking for C compiler default output file name...
>> configure: error: C compiler cannot create executables
>> See `config.log' for more details.
>>
>
> Are you runnin
"
#define VERSION "2.7.0"
#define R_PLATFORM "x86_64-unknown-linux-gnu"
#define R_CPU "x86_64"
#define R_VENDOR "unknown"
#define R_OS "linux-gnu"
#define Unix 1
#define R_ARCH ""
configure: exit 77
On Thu, May 29, 2008 at 5:35 PM, Sim
I need
to know what flags to put with configure so that packages will be compiled
with Intel 10.1 when I do "install.packages" from within R.
Mark
On Thu, May 29, 2008 at 5:54 PM, Simon Urbanek <[EMAIL PROTECTED]>
wrote:
>
> On May 29, 2008, at 5:45 PM, Mark Kimpel
Recently I posted to this list with a question about using the Intel 10.1
compilers in building R and one response was basically, "why in the heck
would you want to do that?" The answer is that my sysadmin believes that
there will be a performance boost with the Intel vs. Gnu compilers on our
Linux
>From the help pages I see that there is a configure.args argument to
install.packages, and I am using that successfully. I do not see anything
similar for update.packages(). Does each package keep track of the
configure.args used to build in initially and pass this on to subsequent
updates or I am
l, I think you are
referring to the "with mpi", which I think he also slipped in not realizing
it should more properly go with the Rmpi install.
Mark
On Tue, Jun 3, 2008 at 12:18 AM, Dirk Eddelbuettel <[EMAIL PROTECTED]> wrote:
> On Mon, Jun 02, 2008 at 11:56:16PM -0400, Mark K
Dirk Eddelbuettel <[EMAIL PROTECTED]> wrote:
> On Tue, Jun 03, 2008 at 11:09:28AM -0400, Mark Kimpel wrote:
> > Dirk,
> >
> > At the moment, our emphasis is getting an installation that will run Rmpi
> in
> > batch mode. I imagine my sysadmin put that line in to minimiz
ound on http://search.r-project.org :
>http://finzi.psych.upenn.edu/R/Rhelp02a/archive/130270.html
> and the R script here
>
> https://stat.ethz.ch/pipermail/r-help/attachments/20080514/0ccea72b/attachment.pl
>
> SU> but I have an updated version that works. I have put
I just installed Rmpi on my 64-bit Ubuntu Hardy Heron OS and using the
following without errors:
"R CMD INSTALL Rmpi_0.5-5.tar.gz --configure-args=--with-mpi=/usr/lib64/openmpi"
Immediately at library(Rmpi) I get the segfault displayed in my
complete output below. My first thought is that perhaps
el <[EMAIL PROTECTED]> wrote:
>
> On 11 June 2008 at 00:46, Mark Kimpel wrote:
> | I just installed Rmpi on my 64-bit Ubuntu Hardy Heron OS and using the
> | following without errors:
> | "R CMD INSTALL Rmpi_0.5-5.tar.gz
> --configure-args=--with-mpi=/usr/lib64/openmpi
Dirk,
Did R CMD ldd $R_HOME/library/Rmpi/libs/Rmpi.so as suggested and
things looked okay. Not really wanting to mess with the debugger I
decided to use your prepackaged version. I completely uninstalled all
openmpi packages on my system using Synaptic and deleted my compiled
from source Rmpi from
I've just installed Debian Lenny and RBGL fails compilation with the
following errors (sessionInfo() follows).
* Installing *source* package 'RBGL' ...
untarring boost include tree...
** libs
g++ -I/home/mkimpel/R_HOME/R-patched/R-build/lib64/R/include
-I/usr/local/include -IboostIncl -fpic -g
Unless I am misreading something, I believe there is an error in the
help page of function interpSpline of package splines in R-devel.
The function prototype reads:
interpSpline(obj1, obj2, bSpline = FALSE, period = NULL, na.action = na.fail)
whereas in the Arguments section, under na.action, th
I'm having trouble building some packages while running Debian Lenny
(testing) and suspect that the issues are related to the default use
of gcc-4.3. With Lenny, build-essentials depends on 4.3, so I'd like
to leave it installed but have also installed 4.2.1. How do I tell
./configure the path to
38 PM, Prof Brian Ripley
<[EMAIL PROTECTED]> wrote:
> On Wed, 27 Aug 2008, Mark Kimpel wrote:
>
>> I'm having trouble building some packages while running Debian Lenny
>> (testing) and suspect that the issues are related to the default use
>> of gcc-4.3.
>
> Yo
I have a very long list of strings. Each string actually contains multiple
values separated by a semi-colon. I need to turn each string into a vector
of the values delimited by the semi-colons. I know I can do this very
laboriously by using loops, nchar, and substr, but it is terribly slow. Is
ther
7 PM, Erik Iverson <[EMAIL PROTECTED]>wrote:
> ?strsplit
>
> Mark Kimpel wrote:
>
>> I have a very long list of strings. Each string actually contains multiple
>> values separated by a semi-colon. I need to turn each string into a vector
>> of the values delimited by the s
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