You can define the environment variable R_DONT_USE_TK (to any value) to
avoid this hang caused by code in the tkrplot package. You do not have to
have an X server running if R_DONT_USE_TK is set. This will avoid
potential hangs while installing the 23 packages that depend on tkrplot.
tools::pack
I tried this a second time, but with --no-byte-compile, and it hung with a
slightly different traceback
(gdb) where
#0 0x7f95bc4c6689 in __fxstat64 () from
/usr/lib/x86_64-linux-gnu/libc.so.6
#1 0x7f95bc497050 in opendir () from
/usr/lib/x86_64-linux-gnu/libc.so.6
#2 0x7f95b935f1e0
Bill-- BINGO.You have found the answer. After some testing on one of
my environments where it was always hanging, connecting to the same server with
an X-Sever running on my workstation did indeed allow the package to be
installed.
**GOOD LORD THAT’S RIDICULOUS** But at least I
This is a microcosm of why installing "all CRAN" packages is a bad idea. Now
extend this to the other 5% of 16000+ packages that will have unclear
requirements, and when you have all those installed try to update just one of
the packages because one of your users has learned of a bug in that pac
I just tried installing forensim on R-devel/Ubuntu 20.04/WSL-2.0 without an
X server (hence DISPLAY was not set). Loading tktcl gives a warning that
Tk is not available because DISPLAY is not set. The installation hung
after the byte-compile message:
installing to
/home/bill/R-devel/R-build/site-
Message-
> From: Henrik Bengtsson
> Sent: Wednesday, September 29, 2021 9:43 PM
> To: Brodie, Kent
> Cc: r-help@r-project.org
> Subject: Re: [R] Package installation help: Stuck at "** byte-compile and
> prepare package for lazy loading"
>
> ATTENTION: This email or
I just tried on an up-to-date CentOS 7 with R 4.1.1 built from source
using gcc 8.3.1 (from SCL devtoolset-8; so not the default gcc 4.8.5),
and it works there. If of any help, here's the output when installing
to user's personal package library:
> chooseCRANmirror(ind = 1)
> install.packages("fo
Dear Duncan,
Thank you. Indeed I did had the R_LIBS_USER env. variable defined.
Best regards
Witold
On Mon, 7 Jun 2021 at 17:48, Duncan Murdoch wrote:
>
> On 07/06/2021 10:37 a.m., Witold E Wolski wrote:
> > Hello,
> >
> > I just installed R 4.1 and now trying to update install some packages.
>
On 07/06/2021 10:37 a.m., Witold E Wolski wrote:
Hello,
I just installed R 4.1 and now trying to update install some packages.
R version 4.1.0 (2021-05-18) -- "Camp Pontanezen"
Copyright (C) 2021 The R Foundation for Statistical Computing
But when installing packages I read:
Installing packag
Hi John,
This is a bit off-topic for this mailing list as your issue is a
linux, specifically Fedora, issue, and not R.
I don't use Fedora but I did a quick Google search on
fedora missing package .pc file
and that came back with a lot of hits. This one in particular should
be a good place to
On Fri, 29 May 2020 08:47:35 +0300
Eric Berger wrote:
> Hi John,
> This is a bit off-topic for this mailing list as your issue is a
> linux, specifically Fedora, issue, and not R.
> I don't use Fedora but I did a quick Google search on
>
> fedora missing package .pc file
>
> and that came ba
On Fri, 29 May 2020 18:36:39 +0200
Martin Møller Skarbiniks Pedersen wrote:
> sudo dnf install libcurl-devel
Martin, I was going to say I had already done that more than once,
using both the command line and the new "dnfdragora" package manager,
but then decided, "what the heck. I'll try again."
On Fri, 29 May 2020 at 07:03, John via R-help wrote:
> I'm not certain just what this problem is. Trying to install the
> "curl" package, which "tseries" wants results in the following error:
>
>
> Package libcurl was not found in the pkg-config search path.
> Perhaps you should add the dir
The library alone is not enough... you have to have the development headers for
compiling code against the library.
On May 28, 2020 10:03:18 PM PDT, John via R-help wrote:
>I'm not certain just what this problem is. Trying to install the
>"curl" package, which "tseries" wants results in the fol
On 09/07/2018 6:18 AM, Steven Yen wrote:
I have had trouble installing packages (e.g., car, aod) in some
computers (such as computers in the student lab) but no problem in my
own laptop.
Installation typically goes through, but after I got out and back in R
(and RStudios), the error message says
There is the directory that the compressed file gets downloaded (Temp), and
there is another directory where the the extracted files are "installed"
("library"). You can read all about this in the "R Administration and
Installation Manual" that comes with R.
The message about the download direct
Hi
If you installed through install.packages you could specify lib
see help page
lib
character vector giving the library directories where to install the packages.
Recycled as needed. If missing, defaults to the first element of .libPaths().
But I believe you hardly need to do it. You probably
On Oct 5, 2015, at 1:36 AM, Jutta Wrage wrote:
> Hi!
>
> Guess, I got in trouble somehow now.
> Not sure whether this question is placed well in this list. Do I have to ask
> my question in R-SIG-MAC?
>
> Installed R version: 3.2.1 for OS X up to 10.8
>
> I did update the package list from wi
The log files may not have the name of the process ("R"), but only its
process number. A good way to look at the log files in /var/log is to
cause your 'Kill' problem then use 'ls -lstA' or 'ls -lstrA' in
/var/log to see which ones changed recently.
Bill Dunlap
TIBCO Software
wdunlap tibco.com
O
On 2014-10-15 15:36, William Dunlap wrote:
Have you looked at recent entries in the system log files in /var/log,
especially /var/log/kern.log?
No such log file exist and other files in the directory do not make
reference to R and any general errors (e.g. internet access).
__
On 2014-10-15 09:13, Sven E. Templer wrote:
did you check the connection in R via for example:
head(readLines("http://cran.r-project.org/web/licenses/GPL-3";))
which should yield:
[1] "GNU GENERAL PUBLIC LICENSE"
[2] " Version 3, 29 June 2007"
[3] ""
[
Have you looked at recent entries in the system log files in /var/log,
especially /var/log/kern.log?
Bill Dunlap
TIBCO Software
wdunlap tibco.com
On Wed, Oct 15, 2014 at 1:51 AM, wrote:
> On 2014-10-14 15:40, Sven E. Templer wrote:
>>
>> Prevent graphic menues with:
>> options(menu.graphics = F
did you check the connection in R via for example:
head(readLines("http://cran.r-project.org/web/licenses/GPL-3";))
which should yield:
[1] "GNU GENERAL PUBLIC LICENSE"
[2] " Version 3, 29 June 2007"
[3] ""
[4] " Copyright (C) 2007 Free Software Foundati
On 2014-10-14 15:40, Sven E. Templer wrote:
Prevent graphic menues with:
options(menu.graphics = FALSE)
Same response after a pause: 'Killed'
or and define repositories:
options(repos = c(CRAN = "http://cran.r-project.org";))
Same response after a pause: 'Killed'
_
Prevent graphic menues with:
options(menu.graphics = FALSE)
or and define repositories:
options(repos = c(CRAN = "http://cran.r-project.org";))
On 14 October 2014 17:00, wrote:
> Subscribers,
>
> A version of R is installed in a virtual machine, which has complete
> internet access via the host.
I am following your suggestion and move this discussion to the R-devel list.
Best
Simon
On Sep 9, 2013, at 7:58 AM, Prof Brian Ripley wrote:
> On 09/09/2013 02:09, David Winsemius wrote:
>>
>> On Sep 8, 2013, at 8:00 AM, Simon Zehnder wrote:
>>
>>> Dear R-Users and R-Devels,
>>>
>>> I am w
On 09/09/2013 02:09, David Winsemius wrote:
On Sep 8, 2013, at 8:00 AM, Simon Zehnder wrote:
Dear R-Users and R-Devels,
I am writing right now my own package that makes use of 'tempfile' and there within with
'path.package'. When I install it, I get the error: Error in
path.package("mypacka
On Sep 8, 2013, at 8:00 AM, Simon Zehnder wrote:
> Dear R-Users and R-Devels,
>
> I am writing right now my own package that makes use of 'tempfile' and there
> within with 'path.package'. When I install it, I get the error: Error in
> path.package("mypackage") : none of the packages are loade
Hi,
Did you install the Xcode Developer Tools on your machine?
HTH,
Pascal
Le 04/02/2013 03:14, londonphd a écrit :
Hi, I installed R in Mac OS X, and trying to installa package. R is not
allowing me to install the meboot package. Below is the exact message I got
from R:
installation of p
On 13.09.2012 17:14, R. Michael Weylandt wrote:
Easiest answer would be to update to a more recent version of R: I'm
not sure binaries are available for 2.10.z anymore.
R-2.10.x is no longer supported, but binaries that were built years ago
for that version of R are still available on CRAN m
Easiest answer would be to update to a more recent version of R: I'm
not sure binaries are available for 2.10.z anymore.
Cheers,
M
On Thu, Sep 13, 2012 at 12:35 PM, bokaha guy wrote:
> Dear friends from the R-community,
>
> I am djipie, bokaha and live in Germany. I am a student and user of R. D
On 06.09.2012 20:58, Santosh wrote:
Dear Rxperts..
I am trying to install a few packages in R (version 2.14.2) on a *64-bit
Window 7* workstation. Some of the errors are posted below.. Both 32-bit
and 64-bit versions of R were installed. I did not get errors while
installing packages through *
The error message is here: configure: error: Can't find HDF5
The hdf5 package is an interface to the HDF5 library, so you need to
install hdf5 and hdf5-devel through your package manager (yum or
apt-get or whatever you use to install things on your linux distro).
Or you can get it straight from t
Hi
Thanks for reply
after usinginstall.packages("hdf5")
I get error
{Installing package(s) into ‘/home/uday/R/x86_64-pc-linux-gnu-library/2.14’
(as ‘lib’ is unspecified)
trying URL
'http://cran.revolutionanalytics.com/src/contrib/hdf5_1.6.9.tar.gz'
Content type 'application/x-gzip' length 50870 b
Hello,
There is a mistake. Type
> install.packages("hdf5")
instead of
> installed.packages("hdf5")
in order to install a package.
Best Regards,
Passcal
Le 19/07/2012 17:02, uday a écrit :
Hi,
Recently I have installed R in my Linux operating system , after
installation I was trying to in
This was garbled en route, but
(a) Your R is far too old: please update as the posting guide asked of
you. (You seem to be using a pre-release of 2.11.0.)
(b) You need to set DISPLAY, as the message says. It usually is set
at a Mac OS X console, so perhaps you need to ask on R-sig-mac about
On Sun, Mar 20, 2011 at 2:42 PM, Bogaso Christofer
wrote:
> Dear all, can somebody guide me how to install the package RQuantLib, for
> which windows binary is not available. I have tried installing it with R CMD
> INSTALL in my windows vista machine (I have Rtools installed), however it
> stopped
On Mon, 21 Mar 2011, Bogaso Christofer wrote:
Dear all, can somebody guide me how to install the package RQuantLib, for
which windows binary is not available. I have tried installing it with R CMD
INSTALL in my windows vista machine (I have Rtools installed), however it
stopped due to an error s
On 10/07/2010 10:37 AM, David Bickel wrote:
Thank you, Prof. Murdoch. I have this:
> .libPaths()
[1] "\\Users\\dbickel/R/win-library/2.11" "C:/R/R-2.11.1/library"
That first path doesn't look like it would work in Windows: it has no
drive letter, so its meaning will depend on the driver
Thank you, Prof. Murdoch. I have this:
> .libPaths()
[1] "\\Users\\dbickel/R/win-library/2.11" "C:/R/R-2.11.1/library"
Since the following naive line in the profile failed, I just moved the
new packages to the same directory as the default packages.
.libPaths(c("C:/Users/dbickel/R/win-library
David Bickel wrote:
Now that I have installed R outside "Program files" to get past the
permissions problem, there are packages I can only access from certain
working directories:
setwd("U:/Calc/zTemp") # "U:" points to a USB hard drive
library(splines) # ok
library(locfdr)
Error in l
Now that I have installed R outside "Program files" to get past the
permissions problem, there are packages I can only access from certain
working directories:
> setwd("U:/Calc/zTemp") # "U:" points to a USB hard drive
> library(splines) # ok
> library(locfdr)
Error in library(locfdr) : there is
On Thu, Jul 8, 2010 at 3:39 PM, Duncan Murdoch wrote:
> On 08/07/2010 9:26 AM, David Bickel wrote:
>>
>> Yes, the User into which I logged in before launching RGui is an
>> Administrator. Correct, the problem is not limited to Bioconductor packages.
>>
>
> On Windows 7, it's not enough to have the
Thanks, Joris. Your suggestion solved the problem without requiring me
to run R as an administrator.
Best regards,
David
On 08/07/2010 8:45 AM, Joris Meys wrote:
Hi,
I am running Windows 7 and R 2.11.1, and everything is installing just
fine for me. Did you install R in the "Program Files" f
Yes, the User into which I logged in before launching RGui is an
Administrator. Correct, the problem is not limited to Bioconductor packages.
David
On 08/07/2010 8:55 AM, Duncan Murdoch wrote:
On 08/07/2010 7:15 AM, Dave Bickel wrote:
Neither biocLite nor the GUI menus can install packages o
Yes, the User into which I logged in before launching RGui is an
Administrator. Correct, the problem is not limited to Bioconductor packages.
David
On 08/07/2010 8:55 AM, Duncan Murdoch wrote:
On 08/07/2010 7:15 AM, Dave Bickel wrote:
Neither biocLite nor the GUI menus can install packages on
On 08/07/2010 9:26 AM, David Bickel wrote:
Yes, the User into which I logged in before launching RGui is an
Administrator. Correct, the problem is not limited to Bioconductor packages.
On Windows 7, it's not enough to have the user be an administrator, you
need to run programs specifically
As far as my experience goes, there is no need whatsoever to run R as
an administrator for installation of any package, including
BioConductor, provided you stay away from the "Program Files" folder.
Cheers
Joris
On Thu, Jul 8, 2010 at 2:55 PM, Duncan Murdoch wrote:
> On 08/07/2010 7:15 AM, Dave
On 08/07/2010 7:15 AM, Dave Bickel wrote:
Neither biocLite nor the GUI menus can install packages on my system.
This is probably a permissions problem. Are you running R as an
administrator when you try the install? If not, you won't be able to
install to the default location, but you sh
Hi,
I am running Windows 7 and R 2.11.1, and everything is installing just
fine for me. Did you install R in the "Program Files" folder? If so,
uninstall and try to re-install R in another folder (e.g.
c:\R\R2.11.1\ like on my computer). I noticed in the past that the
access control of Windows tre
Hi
Up! I finally get it work. For the record:
1. problem - spaces in path definition
2. problem - customised Rprofile.site which throws error when trying to
load some packages
After starting with all customised values disabled R CMD INSTALL
worked as charm.
Thank you very much, it is
On 10/19/2009 7:59 AM, Petr PIKAL wrote:
Hi
r-help-boun...@r-project.org napsal dne 19.10.2009 12:24:47:
Petr PIKAL wrote:
> Hi
>
> Duncan Murdoch napsal dne 16.10.2009 17:01:59:
>
>
>> On 10/16/2009 9:31 AM, Petr PIKAL wrote:
>>
>>> Dear all
>>>
>>> I noticed from NEWS 2.11.0,dev
>>> SIGN
Hi
r-help-boun...@r-project.org napsal dne 19.10.2009 12:24:47:
> Petr PIKAL wrote:
> > Hi
> >
> > Duncan Murdoch napsal dne 16.10.2009 17:01:59:
> >
> >
> >> On 10/16/2009 9:31 AM, Petr PIKAL wrote:
> >>
> >>> Dear all
> >>>
> >>> I noticed from NEWS 2.11.0,dev
> >>> SIGNIFICANT USER-VISIBLE
Petr PIKAL wrote:
Hi
Duncan Murdoch napsal dne 16.10.2009 17:01:59:
On 10/16/2009 9:31 AM, Petr PIKAL wrote:
Dear all
I noticed from NEWS 2.11.0,dev
SIGNIFICANT USER-VISIBLE CHANGES
o Packages must have been installed under R 2.10.0 or later, as
the current help syste
Hi
Duncan Murdoch napsal dne 16.10.2009 17:01:59:
> On 10/16/2009 9:31 AM, Petr PIKAL wrote:
> > Dear all
> >
> > I noticed from NEWS 2.11.0,dev
> > SIGNIFICANT USER-VISIBLE CHANGES
> >
> > o Packages must have been installed under R 2.10.0 or later, as
> > the current help syste
On 10/16/2009 9:31 AM, Petr PIKAL wrote:
Dear all
I noticed from NEWS 2.11.0,dev
SIGNIFICANT USER-VISIBLE CHANGES
o Packages must have been installed under R 2.10.0 or later, as
the current help system is the only one now supported.
So I tried to follow instructions in manual, Du
02, 2009 6:32 AM
To: Héctor Villalobos
Cc: Haynes, Maurice (NIH/NICHD) [E]; r-help@r-project.org
Subject: Re: [R] package installation error
Héctor Villalobos wrote:
> Hi,
>
>
> This also happens in 2.9.1 and 2.9.2. My personal solution is to look
> under ' C:\Program File
Héctor Villalobos wrote:
Hi,
This also happens in 2.9.1 and 2.9.2. My personal solution is to look
under ' C:\Program Files\R\R-2.9.0\library' for a bizarre-named
directory (starts with an 'f' and has numbers and letters mixed) ,
which contains the package directory (in this case 'robustbase
Hi,
This also happens in 2.9.1 and 2.9.2. My personal solution is to look under
'C:\Program
Files\R\R-2.9.0\library' for a bizarre-named directory (starts with an 'f' and
has numbers and
letters mixed) , which contains the package directory (in this case
'robustbase') and move it
up one level
On 31/08/2009 8:53 AM, Haynes, Maurice (NIH/NICHD) [E] wrote:
On Sun April 19, you posted the following on R-help:
After installing 2.9.0 I tried loading packages, but keep getting the following
error.
package 'robustbase' successfully unpacked and MD5 sums checked
Error in normalizePath(path)
On Sun April 19, you posted the following on R-help:
> After installing 2.9.0 I tried loading packages, but keep getting the
> following error.
>
> package 'robustbase' successfully unpacked and MD5 sums checked
> Error in normalizePath(path) :
> path[1]="C:\Program Files\R\R-2.9.0\library/robust
No, this is on Windows-Xp.
From: Erin Hodgess
To: Joseph P. Gray
Sent: Sun, 19 Apr 2009 19:17:34 -0500 (CDT)
Subject: Re: [R] package installation error
Hi Pat!
Are you using Windows Vista by any chance, please?
If so, try running as administrator.
It might help.
Sincerely,
Erin
On Sun
Dear Uwe and folks,
I had connections to CRAN daily and won't have problems for most packages,
but only some does. Installed directory is:
C:\Documents and Settings\R\library\downloaded_packages
I do not have set library path except the R default. I tried to download
"lme4 and packages that unab
Odette Gaston wrote:
Hi Uwe and all,
Error message was:
error in normalizePath(path) :
path[1]: no such file to load
Hmmm, what does traceback() tell you at that point?
Have you had a cionnection to CRAN and has something been downloaded?
If so, to which directory?
Where is R installed?
Do
Hi Uwe and all,
Error message was:
error in normalizePath(path) :
path[1]: no such file to load
Many thanks,
Odette
On Fri, Jan 23, 2009 at 1:22 AM, Uwe Ligges wrote:
>
>
> Odette Gaston wrote:
>
>> Hi folks,
>>
>> I am currently having the problem with using R 2.8.1 that I cannot install
Odette Gaston wrote:
Hi folks,
I am currently having the problem with using R 2.8.1 that I cannot install
some of packages from CRAN or local drive and somebody may be able to help
me.
ex) faraway package and lme4 package. I have downloaded them in my hard
drive as local, but still R was unabl
Why don't you post your message in the Bioconductor list? People there
will be able to help you better.
Best regards,
Carlos J. Gil Bellosta
http://www.datanalytics.com
On Wed, 2008-12-31 at 08:00 -0500, jianying...@med.unc.edu wrote:
> Dear all,
>
> I tried to install bioconductor package usi
Thanks for your response. However, I need more guidance.
1) I searched the archives of this list back to June 1. I found no
discussion on this subject as I examined all the subject titles for the
string [Ww]in.
2) I tried (what I understand) to be you suggestion.
I created etc/Renviron.site:
R_
On Tue, 9 Sep 2008, [EMAIL PROTECTED] wrote:
As a sys admin, how do I install packages so that there is one common
library for all users of the MS Windows computer, instead of the
default individual location for each user?
I've done this for Linux.
The same way. You set R_LIBS_SITE in etc/Re
Hi,
I too had this same problem but it got resolved by installing two
packages :
1. kernel-headers
2. kernel-devel
I hope this helps in your case.
Regards
Sharwan
Joe_K wrote:
>
> Dear Friends,
>
> I am trying to install a few packages in R and am receiving error
> messages. Since the er
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