Displaying 20 results from an estimated 3000 matches similar to: "R CMD check: unknown option ?--outdir==RCHECK?"
2013 Apr 04
1
R CMD check --outdir=path gives unknown option '--outdir'
For 'R CMD check', it appears that option '--outdir' is not recognized
and generates warning "unknown option '--outdir'". R CMD check --help
says:
Usage: R CMD check [options] pkgs
[...]
Options:
[...]
-o, --outdir=DIR directory used for logfiles, R output, etc.
(default is 'pkg.Rcheck' in current directory,
2013 May 20
1
R CMD check: unknown option ‘--outdir==RCHECK’
Dear R devel
I am experiencing a problem using R CMD check. I tried to specify the
argument outdir, but get every time the error message:
Warning: unknown option ‘--outdir==RCHECK’
This happens both on R 2.15.2 Linux, as well as R 3.0.1 Windows, with
latest Rtools. Is it just that I am not passing the argument the right way,
or is there an issue with R CMD check?
I tried to write the argument
2013 Feb 20
4
Error in setwd(outDir) : cannot change working directory
I installed R on my Windows laptop in C:\Program Files\R\R-2.15.2
and am able to open RGUI (640bit), see packages and run commands. However,
when I test the installation and run the basic tests and all the tests on
the standard and recommended packages i.e.:
library("tools")
testInstalledBasic("both")
testInstalledPackages("base", errorsAreFatal
2010 Jun 06
1
R CMD in 2.11.1 error
Hi,
I have a set of user defined package which I have installed in 2.8.1 for quite some time. I installed 2.11.0 and 2.11.1 a couple of days ago while still having 2.8.1 version in my system. For the package, package.skeleton works fine in R 2.11. However, it comes problem when I run Rcmd check/intall. The intall.out shows below.
I further tested that I reran R-2.8.1/bin/R CMD check in
2007 Mar 04
1
Problem using callNextMethod() in S4
Dear all,
Maybe, I am doing something wrong, but using R-2.5.0 on my Intel-Mac, I
have problems
using function callNextMethod() in method initialize.
I am loading the following code as file "testS4.R":
setClass("baseClass",
representation(myname = "character",
mydir = "character",
"VIRTUAL"),
2008 Oct 03
2
A strange behaviour of file.path in Windows? (PR#13119)
Full_Name: Enrico Pegoraro
Version: 2.7.2
OS: Windows (Vista or Xp PRO) Italian
Submission from: (NULL) (87.4.189.202)
If you send these lines of code:
outdir="c:/pippo"
file.path(outdir,"pluto.html")
R replies correctly:
[1] "c:/pippo/pluto.html"
But if you change the first steps to:
outdir=""
file.path(outdir,"pluto.html")
R replies
2002 Mar 12
2
problem with environment detecting
Hello!
I want to detect some environment on a remote host (in C program, getenv()),
but it is failed. Here is a little program which I try to run on a remote
host with command: "#ssh myhost myecho"
/* myecho */
#include <stdio.h>
main (){
char *dir;
if ((dir = getenv("MYDIR")) != NULL)
printf ("environment is %s\n",dir);
2006 Aug 01
2
deleting a directory
Hi, all,
I'm looking a utility for removing a directory from within R. Currently,
I'm using:
foo <- function(...) {
mydir <- tempdir()
dir.create(mydir, showWarnings = FALSE, recursive = TRUE)
on.exit(system(sprintf("rm -rf %s", mydir)))
## do some stuff in "mydir"
invisible()
}
However, this is assumes "rm" is available. I know of
2013 May 08
1
Namespace/inheritance problem in S4 methods for a union class
Hi,
I started this post on bioc-devel but this seems to be more general:
https://stat.ethz.ch/pipermail/bioc-devel/2013-May/004311.html
See reproducible example from Martin below.
Thank you.
Renaud
---------- Forwarded message ----------
From: Martin Morgan <mtmorgan at fhcrc.org>
Date: 7 May 2013 19:55
Subject: Re: [Bioc-devel] ExpressionSet and LumiBatch: inheritance problem
in S4
2003 Feb 28
2
File opening error after 1020 files opened
Hi,
I am trying to use "read.pnm" from the package "pixmap" to read more
than 10 thousand image files in "mydir".
> file.list <- dir( "mydir", full=T)
> for( i in 1:length(file.list) ) {
print(i)
x <- read.pnm(file.list[i])
}
In the beginning it was fine. But after reading 1020 images or so, the
read.pnm function
seems to crash on
2011 Oct 28
3
R CMD check and error in an \Sexpr in an Rd file
Hi,
another Rd related issue I encountered is that if an error occurs in an
\Sexpr in an Rd file, then on get the following error:
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... ERROR
Error in paste(before, x, after, sep = "") : object 'exfile' not found
Execution halted
2009 Aug 03
1
the protect flag - P doesn't work with --relative option ?
Hi,
Basically, I want to preserve some of directories on destination side
conditionally and hence, I choose to use --filter option mentioned in rsync
man pages. I noticed that --filter option works as expected when I don't
have --relative option used but in below case it doesn't work.
rsync -avz --relative --delete --filter='H /mydir2' --exclude='-
/preserve' mydir1/.
2012 Feb 15
1
Passing date as parameter while retrieving data from database using dbGetQuery
Hi All,
This might be simple question, I need to retrive data for modelling from the
databases. Eveytime date values changes so I countnot fix date value in the
code, it is required to pass as parameter.
When I pass the date as parameter, it throws error.
(ERROR: column "start_dt" does not exist Position: 285)
My script is as below, please guide me where am I going wrong?
All parameters
2008 Jul 28
1
How to set directory Rscript runs in/Sweave output directory
Hello
I am using Sweave to generate some pdf reports using R on a Windows
platform and would like to control the output directory that the
generated .tex file goes to. Basically I use the following commands in
a batch file:
set outdir=c:/output/1234
Rscript -e Sweave('C:/pathpathpath/script.Rnw')
Which produces script.tex
Sweave has the option of specifying an output directory for
2001 Dec 03
1
New package: g.data
A new package "g.data" is available on CRAN, to create and maintain databases
that work more like the S-Plus model.
Here's the official Description for g.data (v1.2):
Create and maintain delayed-data packages (DDP's). Data stored in
a DDP are available on demand, but do not take up memory until requested.
You attach a DDP with g.data.attach(), then read from it and assign
2001 Dec 03
1
New package: g.data
A new package "g.data" is available on CRAN, to create and maintain databases
that work more like the S-Plus model.
Here's the official Description for g.data (v1.2):
Create and maintain delayed-data packages (DDP's). Data stored in
a DDP are available on demand, but do not take up memory until requested.
You attach a DDP with g.data.attach(), then read from it and assign
2002 Feb 11
1
problem getting just a single dir !
I am trying to fetch a single dir using the following command but all I
get is a empty dir:
rsync -av www.myServer.com::myStuff --include=myDir --exclude=* .
Here is the rsync output:
receiving file list ... done
myDir/
./
wrote 119 bytes read 392 bytes 92.91 bytes/sec
total size is 0 speedup is 0.00
The command looks simple and straight forward but somehow I am not
getting the expected
2012 Jun 08
4
Multiple sub-architecture: linking issue
Hi again,
following my previous post on RCurl, I cannot install Rcpp either:
g++ -m32 -I/home/renaud/bin/R/2.15/lib64/R/include
-I/home/renaud/bin/R/2.15/lib64/R/include/i386 -DNDEBUG
-I../inst/include/ -I/usr/local/include -fpic -g -O2 -c r_cast.cpp
-o r_cast.o
g++ -m32 -shared -L/usr/local/lib64 -o Rcpp.so Date.o DateVector.o
Datetime.o DatetimeVector.o Dimension.o DottedPair.o
2012 Jun 08
4
Multiple sub-architecture: linking issue
Hi again,
following my previous post on RCurl, I cannot install Rcpp either:
g++ -m32 -I/home/renaud/bin/R/2.15/lib64/R/include
-I/home/renaud/bin/R/2.15/lib64/R/include/i386 -DNDEBUG
-I../inst/include/ -I/usr/local/include -fpic -g -O2 -c r_cast.cpp
-o r_cast.o
g++ -m32 -shared -L/usr/local/lib64 -o Rcpp.so Date.o DateVector.o
Datetime.o DatetimeVector.o Dimension.o DottedPair.o
2013 Aug 28
1
Error when using buildVignettes()
Dear all,
When running function 'testQAReport()', which uses function
'buildVignettes()' to create a pdf-file I get the following error:
> source("testQAReport.R")
> testQAReport()
Error in .get_package_metadata(pkgdir) :
Files 'DESCRIPTION' and 'DESCRIPTION.in' are missing.
Since I did not get this error in earlier versions of R, could you