Re: [R-SIG-Mac] Rcmdr in Aqua TclTk

2010-11-22 Thread Prof Brian Ripley
) fax: 480-965-7671 (SHESC), 480-727-0709 (CSDC) www: http://www.public.asu.edu/~cmbarton, http://csdc.asu.edu On Nov 22, 2010, at 1:32 AM, Prof Brian Ripley wrote: On Thu, 18 Nov 2010, Michael Barton wrote: Does anyone know if it is possible to run Rcmdr in Aqua TclTk (e.g.,

Re: [R-SIG-Mac] Rcmdr in Aqua TclTk

2010-11-22 Thread Prof Brian Ripley
On Thu, 18 Nov 2010, Michael Barton wrote: Does anyone know if it is possible to run Rcmdr in Aqua TclTk (e.g., ActiveStates TclTk 8.6)? Could any replies be sent to me directly since I don't subscribe to the list? Well, there is no 'TclTk 8.6' yet (it's a beta), but 8.5.9 worked last time I

Re: [R-SIG-Mac] can't Rcmdr to work with R 2.12 on just one machine

2010-11-17 Thread Prof Brian Ripley
On Wed, 17 Nov 2010, Vokey, John wrote: All, No matter what I do (e.g., complete re-install of R and then Rcmdr (with dependencies=TRUE)), Rcmdr will not launch on just one of my computers (all running 10.6.5): it crashes (R becomes ``non-responding" as it loads Tcl). It also happened on O

Re: [R-SIG-Mac] R2.12 for Mac

2010-11-15 Thread Prof Brian Ripley
On Mon, 15 Nov 2010, Steve Lianoglou wrote: Hi, On Mon, Nov 15, 2010 at 5:24 AM, Ivan Calandra wrote: Dear users, I've seen a few problems on this list related to R2.12 on Mac. It looks to me that the Mac release is not really stable yet, or is it? Maybe it's just a few instances and most of

Re: [R-SIG-Mac] R check error but install ok?!?!

2010-10-26 Thread Prof Brian Ripley
On Tue, 26 Oct 2010, Benton, Paul wrote: Dear all, I'm trying to check the xcms R package under the new R 2.12.0. I can install the package from the svn code, but when I try to run the check, I get an error saying that it couldn't load the package. However, I'm able to load xcms and use the

Re: [R-SIG-Mac] Need help using Rmpi

2010-10-21 Thread Prof Brian Ripley
Rmpi needs help (I'd say a bugfix) if your MPI is not lam (and you have not told us). See the Rmpi/README file, but the effect is more serious in 2.12.0 (and the maintainer was informed weeks ago). I don't understand your notation, but am assuming lines starting with # are both your comments

Re: [R-SIG-Mac] [R-sig-ME] lme4 missing from repositories?

2010-10-21 Thread Prof Brian Ripley
Let me point out https://stat.ethz.ch/pipermail/r-sig-mac/2010-July/007608.html This is not just a BLAS issue: I saw it with both vecLib and the reference BLAS. The lme4 code is doing exactly the same calculation for M2. and M2, but sometimes when it does that calculation the first time in

Re: [R-SIG-Mac] Easiest way to install R 2.12.0 on a Mac

2010-10-18 Thread Prof Brian Ripley
On Mon, 18 Oct 2010, Richard R. Liu wrote: Hello, Up to now I've reinstalled all packages when upgrading R.  Is there an easier way.  I'm wondering whether just copying the contents of ~/Library/R/2.11 to ~/Library/R/2.12 followed by updating in Packages & Date > Package Installer > Update All

Re: [R-SIG-Mac] Problems with tcltk-Img

2010-10-15 Thread Prof Brian Ripley
Please build R from soures against ActiveTcl: this will then work. (Img contains compiled code.) I have such a build, and library(tcltk) Loading Tcl/Tk interface ... done tclRequire("BWidget") 1.9.2 tclRequire("Img") 1.4.0.4 Simon has pointed out that it may conflict with R.app, but I use

Re: [R-SIG-Mac] problem installing rjags package

2010-10-09 Thread Prof Brian Ripley
Note your link line has no reference to -ljags. Mine is (for i386, x86_64 is later on in the output) g++ -arch i386 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o rjags.so jags.o -L/usr/local/lib -ljags -F/

Re: [R-SIG-Mac] Clear Workspace and .Rprofile

2010-09-26 Thread Prof Brian Ripley
On Sun, 26 Sep 2010, Ben Haller wrote: Hi all. I recently made myself a .Rprofile file, and I have just discovered two oddities with this in the R GUI. On the one hand, when I do "Clear Workspace" (from the Workspace menu) it doesn't clear out the .First function that my .Rprofile defined,

Re: [R-SIG-Mac] Help in creating a MacOSX binary of the mapdata package 2.1-3?

2010-08-29 Thread Prof Brian Ripley
On Mon, 30 Aug 2010, Jooil Kim wrote: Hello all, I recently noticed that the MacOSX binary of the mapdata package ver 2.1-3 wasn't available. The mapdata package is a useful extension for the maps package, providing higher-resolution map data. In contacting package maintainer Ray Brownrigg, (

Re: [R-SIG-Mac] Rsafd Mac Package

2010-08-18 Thread Prof Brian Ripley
Why don't you ask the author for a source package? By (AFAICS) not providing source code for his package he is making life difficult for users. Only on Windows is it reasonably safe to distribute compiled code in DLLs -- everywhere else dynamic linking makes compiled code dependent on the OS

Re: [R-SIG-Mac] Detecting GUI vs console?

2010-08-13 Thread Prof Brian Ripley
On Fri, 13 Aug 2010, Ben Haller wrote: Hi all. I've started using mclapply(), which doesn't work well in the GUI. I'd like to protect my code against mistakes by checking for whether I'm running under the GUI or the console. Is there a standard way to do this? See ?.Platform Thanks! Ben

Re: [R-SIG-Mac] unsupported file format which is not the architecture being linked (i386)

2010-08-10 Thread Prof Brian Ripley
This package has compiled code under inst/ . That is only going to work for one architecture (unless a fat binary, which this is not). Hardly 'from source', and you need to sort this out so the package is source-only. On Wed, 11 Aug 2010, Richard R. Liu wrote: I am trying to install a pack

Re: [R-SIG-Mac] [R] lme4 + R 2.11.0 + mac unavailable

2010-07-31 Thread Prof Brian Ripley
Let us be clear about what the issue seems to be. On i386 Mac (and not on x86_64 Mac) library(lme4) y <- (1:20)*pi; x <- (1:20)^2;group <- gl(2,10) M2. <- lmer (y ~ 1 + x + (1 + x | group)) M2 <- lmer (y ~ x + ( x | group)) identical(fixef(M2), fixef(M2.)) usually fails the first time but if y

Re: [R-SIG-Mac] tcl/tk problem.

2010-07-19 Thread Prof Brian Ripley
On Mon, 19 Jul 2010, James Platt wrote: Hi People, I am quite new to R and I also apologize if this has come up before: Did you actually read http://cran.r-project.org/bin/macosx/ ? This para This package only contains the R framework, 32-bit GUI (R.app) and 64-bit GUI (R64.app). For Tc

Re: [R-SIG-Mac] RQuantLib missing binaries

2010-06-09 Thread Prof Brian Ripley
On Wed, 9 Jun 2010, Kyle Matoba wrote: Just wondering if there was any plans to get this up and running again: http://www.r-project.org/nosvn/R.check/r-release-macosx-ix86/RQuantLib-00install.html If not, I will compile it myself. You may not find it easy. The issue is that RQuantLib depend

Re: [R-SIG-Mac] Cairo device

2010-06-03 Thread Prof Brian Ripley
On Thu, 3 Jun 2010, John Maindonald wrote: I have been trying to invoke cairoDevice on the Mac. Is there something wrong with my setup that is causing the API version mismatch? The message indicates that the cairoDevice package was compiled under a different version of R from the one you are

Re: [R-SIG-Mac] Problem with readline when building R from source.

2010-05-24 Thread Prof Brian Ripley
On Mon, 24 May 2010, Rolf Turner wrote: On 22/05/2010, at 2:23 PM, Ben Madin wrote: Rolf, Given the weekend status, I'll hazard a guess that you want to add these as environment variables, so in an attempt to be monosyllabic: Assuming that you are using the bash shell (which has been the

Re: [R-SIG-Mac] Error in untar2(tarfile, files, list, exdir) : unsupported entry type ‘x’

2010-05-19 Thread Prof Brian Ripley
On Wed, 19 May 2010, Christopher Bare wrote: Hi, I'm getting the following error when trying to build and install an R package: Error in untar2(tarfile, files, list, exdir) : unsupported entry type ‘x’ I build the package like so: R --no-init-file CMD build mypackage Then try to install it:

Re: [R-SIG-Mac] Building AEM on PPC G3 running MacOS X 10.4

2010-05-06 Thread Prof Brian Ripley
There is no Xcode 3.4 to my knowledge, and certainly not for 10.4. Perhaps you meant 2.4, in which case you need to update it. From memory (we no longer support Tiger binaries) Xcode 2.4.1 is needed and 2.5 is the last version for Tiger. Alterntively (and better), build R 2.11.0 from the sour

Re: [R-SIG-Mac] problems with X11 in R 2.11.0

2010-05-02 Thread Prof Brian Ripley
Something is wrong with your system software. On my Leopard box: tystie% otool -L /Library/Frameworks/R.framework/Resources/modules/i386/R_X11.so ... /usr/X11/lib/libpng12.0.dylib (compatibility version 42.0.0, current version 42.0.0) So your /usr/X11/lib/libpng12.0.dylib is different from

Re: [R-SIG-Mac] any advice on libtiff? (and rtiff)

2010-04-28 Thread Prof Brian Ripley
On Wed, 28 Apr 2010, Carl Witthoft wrote: Hi, I know rtiff does not compile 'cause it can't find libtiff (per cran check logs). I'm just wondering if anyone has successfully installed libtiff, either from source or via MacPorts? And if so, is it then possible to build rtiff from the source

Re: [R-SIG-Mac] TinnR for Mac

2010-04-14 Thread Prof Brian Ripley
On Wed, 14 Apr 2010, Kent Manley wrote: I haven't found an ideal answer to that. I'm not an Emacs user (I prefer vim but not for R - don't even know if it's possible). It certainly is. I've been using TeXShop with the Sweave interface. It took minor tweaks to get it running, and in some se

Re: [R-SIG-Mac] manpage problem

2010-04-08 Thread Prof Brian Ripley
On Wed, 7 Apr 2010, joerg van den hoff wrote: not sure whether this is MAC specific: Why do you suppose it would be? I use \itemize or \enumerate in some manpages. it worked previously, but I'm not sure up till when... now (with 2.10.1) I see the following: -- using the R-GUI manpages are

Re: [R-SIG-Mac] Nightly build gui framework mismatch

2010-03-31 Thread Prof Brian Ripley
Yes, there is currently no binary of 2.11.x on Simon's site. But there are (it claims) binaries of R.app for 2.12.x, as well as 2.11.x and 2.10.x. Given that we would like people to test 2.11.0 alpha this is unfortunate (but then the alpha snapshots have been broken several times over the pa

Re: [R-SIG-Mac] Installation of RPostgreSQL fails : no acceptable C compiler found in $PATH

2010-03-24 Thread Prof Brian Ripley
On Wed, 10 Mar 2010, Christiaan Pauw wrote: Hi Everybody I use R2.9.2 on Mac OS X 10.5.2. I tried to install RPostgreSQL from source on CRAN via the package installer. Apparently the program cannot find my C compiler gcc . Here is the output message trying URL ' http://cran.za.r-project.org/

Re: [R-SIG-Mac] Font Families and Cairo

2010-03-03 Thread Prof Brian Ripley
Your example is not reproducible, but png() does support transparent backgrounds and you did not specify one (by bg="transparent"). The native method on a Mac would be png(type="quartz"): have you tried that? Yes, there are known problems with cairo font handling on Macs: some of them have b

Re: [R-SIG-Mac] RGtk2 problems

2010-02-20 Thread Prof Brian Ripley
On Sat, 20 Feb 2010, Anna Oganyan wrote: Dear all, I would like to ask about package RGtk2 with which I have a problem. I will very much appreciate if somebody could tell me what I need to do. I need to install a package scdMicro and it depends on gWidgetsRGtk2. I am working on MAC, version 10.

Re: [R-SIG-Mac] Bitmap and undesired rotated figure

2010-02-17 Thread Prof Brian Ripley
First, this is not what 'bitmap' is intended for. R has a pdf() device, and on Macs quartz() can produce PDF: producing PostScript and converting it to PDF is cumbersome and you have given us no indication of why you did this (and it is not a good idea for other reasons: see the last para of m

Re: [R-SIG-Mac] Problems with savePlot() and postscript under Snow Leopard

2010-02-15 Thread Prof Brian Ripley
On Sat, 13 Feb 2010, David Winsemius wrote: On Feb 13, 2010, at 5:04 PM, David Winsemius wrote: On Feb 13, 2010, at 4:08 PM, Hannes Nietnagel wrote: Thanks David for your reply! species.n <- as.numeric(iris$Species) png("test.png") plot(iris, col = species.n) dev.off() That works fine

Re: [R-SIG-Mac] [R] Sweave, lty = 3 line incorect in pdf output

2010-02-11 Thread Prof Brian Ripley
Note that pdf does not 'display' anything: it writes a file. From ?pdf If you see problems with PDF output, do remember that the problem is much more likely to be in your viewer than in R. Try another viewer if possible. ... So which viewers are you using? I see no reason why

Re: [R-SIG-Mac] non-intel compiling; clarification

2010-02-10 Thread Prof Brian Ripley
My belief is that if you - build a single-architecture R from the sources - use that to test your packages it should work. If that is not an option, you can try R CMD INSTALL --no-multiarch with the CRAN build of R (and if that works try R CMD check --install-args=--no-multiarch ). (As someone

Re: [R-SIG-Mac] No labels/titles shown on Mac

2010-02-04 Thread Prof Brian Ripley
On Thu, 4 Feb 2010, Gommo Skipper wrote: I found the problem with the Arial font. Apparently this is due to a conflict between the Arial font installed by MS Entourage (argh!) and the default Arial in Snow leopard. The MS version installed in /Library/Fonts/Microsoft is not compatible with Snow

Re: [R-SIG-Mac] udunits and RNetCDF ... simple or hard to get Mac version?

2010-01-15 Thread Prof Brian Ripley
On Fri, 15 Jan 2010, Simon Urbanek wrote: Bob, On Jan 14, 2010, at 8:08 PM, Robert Chatfield wrote: We have been using both ncdf and RNetCDF packages, and often enjoy the general approach offered by RNetCDF That package has not been available on the Mac for some time, it appears, ... but wa

Re: [R-SIG-Mac] Rd2dvi --pdf

2010-01-04 Thread Prof Brian Ripley
On Mon, 4 Jan 2010, Matthew Fero wrote: I know this has been addressed before, but I'm not sure I understand the prior comments. Does the R Mac binary installer include the latex components necessary to run the 'R CMD Rd2dvi --pdf' command? If so, where No. See the FAQ, specifically secti

Re: [R-SIG-Mac] Example in body() help page, unexpected warning

2009-12-27 Thread Prof Brian Ripley
On Sun, 27 Dec 2009, David Winsemius wrote: On Dec 27, 2009, at 2:07 AM, Prof Brian Ripley wrote: Hmm, when I run example(body) I get body> body(f) <- as.call(c(as.name("{"), e)) with no backslash. And text help and the refman also have no backslash. So, how are you doin

Re: [R-SIG-Mac] Example in body() help page, unexpected warning

2009-12-26 Thread Prof Brian Ripley
Hmm, when I run example(body) I get body> body(f) <- as.call(c(as.name("{"), e)) with no backslash. And text help and the refman also have no backslash. So, how are you doing this? Cut-and-paste from HTML help? I suspect this is yet another rendering problem with HTML help: I've fixed qui

Re: [R-SIG-Mac] quartz.save "bug"

2009-12-09 Thread Prof Brian Ripley
On Wed, 9 Dec 2009, Hans-Jörg Bibiko wrote: On Dec 9, 2009, at 4:58 PM, Simon Urbanek wrote: Well, it's not documented to do so - it's really just pass-through for quartz() so if anything this is a wishlist item for the quartz() command. I'll see if we can accommodate that ... At least fro

Re: [R-SIG-Mac] Built on Mac, Installing on Windows - should this work?

2009-11-30 Thread Prof Brian Ripley
On Mon, 30 Nov 2009, Duncan Murdoch wrote: On 30/11/2009 11:10 AM, Bryan Hanson wrote: Hi R Mac Folks... A question about using Mac-built pkgs on the dreaded Windows machines. I have successfully checked, built and installed a package on my Mac. The package tarball is at github.com/bryanhanso

Re: [R-SIG-Mac] Loop: plot does not update

2009-11-01 Thread Prof Brian Ripley
We don't have a reproducible example, nor the details asked for in the posting guide. But a likely explanation is that the windows() device (on Windows, if that is the OS your 'a PC' is running) is double-buffered (by default), and the quartz() is not. Thus rather than being a 'problem on yo

Re: [R-SIG-Mac] Korean in quartz() device.

2009-10-30 Thread Prof Brian Ripley
On Fri, 30 Oct 2009, Dong-hyun Oh wrote: Dear R users, I run R-2.9.2 on the Snow Leopard 10.6.1 OS system. The default language of the OS is english. I want to plot a very simple graph with Korean letters on a quartz() device, but it fails. Korean Letters appear as being squares. We don't

Re: [R-SIG-Mac] Can't get help.start() to work --- update.

2009-10-29 Thread Prof Brian Ripley
On Thu, 29 Oct 2009, Duncan Murdoch wrote: On 29/10/2009 1:07 AM, Rolf Turner wrote: After looking at the help for tools::startDynamicHelp and groping around considerably, I had a look at the Firefox Preferences. Going to Advanced --> Network --> Configure how Firefox connects to the the Intern

Re: [R-SIG-Mac] 2.10.0 beta help functions

2009-10-17 Thread Prof Brian Ripley
ng was a faster compiler were obviously true, but the claims for better error messages seemed untrue: some were clearer but some were a lot more confused (not that production code is a good test of error messages). On Thu, 15 Oct 2009, Simon Urbanek wrote: On Oct 15, 2009, at 17:00 , Prof Bri

Re: [R-SIG-Mac] 2.10.0 beta help functions

2009-10-15 Thread Prof Brian Ripley
On Thu, 15 Oct 2009, Simon Urbanek wrote: On Oct 15, 2009, at 16:01 , Prof Brian Ripley wrote: Hmm, I think you probably have pre-built html pages. Yes, that's likely. They used to be part of the installation but now are not. The fact that they are missing was useful to point out t

Re: [R-SIG-Mac] 2.10.0 beta help functions

2009-10-15 Thread Prof Brian Ripley
Hmm, I think you probably have pre-built html pages. I simply don't see any code that will generate them, either directly or by starting the httpd server to do so. I just did some quick experiments, and I get blank pages on packages without pre-built html, and correct ones on a package I just

Re: [R-SIG-Mac] package management system: Fink vs MacPorts?

2009-10-12 Thread Prof Brian Ripley
On Mon, 12 Oct 2009, Simon Urbanek wrote: On Oct 12, 2009, at 9:10 , Christian Kleiber wrote: Dear all, I am currently configuring a Mac Pro running SL. https://stat.ethz.ch/pipermail/r-sig-mac/2009-September/006468.html suggests there are issues with Fink. There are issues with Fink if

Re: [R-SIG-Mac] Issue with spelling in Aquamacs

2009-09-23 Thread Prof Brian Ripley
On Wed, 23 Sep 2009, johannes rara wrote: I'm having the same problem with Aquamacs (I'm Aquamacs noob) and R. E.g. setwd("/Documents/Tämä") Error in setwd("/Documents/T\344m\344") : cannot change working directory Any ideas what's wrong? You've not (neither of you) told us the 'at a minim

Re: [R-SIG-Mac] RODBC connection MS SQL with Actual driver

2009-09-16 Thread Prof Brian Ripley
By far the most likely cause is a bug in the ODBC driver. But can you not run this in a debugger and find out where the code is segfaulting: if in the driver that pinpoints the cause (and if in RODBC it could still be the driver returning incorrect structures). I have some of the Actual Techn

Re: [R-SIG-Mac] OT: Snow Leopard and Application Compatibility

2009-08-27 Thread Prof Brian Ripley
There are list members with access to the developer pre-release 'seeds', and I have seen 'Mac OS X 10.6' in one report (with a corresponding sessionInfo() output). So it seems very likely there is no problem with R, and most likely none with with R.app. (We are deferring upgrading until our sy

Re: [R-SIG-Mac] package compilation problems

2009-08-21 Thread Prof Brian Ripley
Something has put /usr/local/lib/libiconv.2.dylib on your system, and it is not universal. You should not need it: there is a system copy in /usr/lib. You are going to need to investigate this for yourself -- it is not an R issue and I've no idea what might have put libiconv there. Also not

Re: [R-SIG-Mac] Compiling R-2.9.1 from the source

2009-08-19 Thread Prof Brian Ripley
Why not try to compile R-patched, aka 2.9.2 RC? It works for me on Mac OS X, but then 2.9.1 did too? On Wed, 19 Aug 2009, Benilton Carvalho wrote: Hi, I was hoping to be to able to compile R-2.9.1 from the source as I've always done. './configure' always worked nice, but now it fails to f

Re: [R-SIG-Mac] tcltk

2009-07-13 Thread Prof Brian Ripley
See the FAQ sections 8 and 2.1.4, e.g. X11 window system is necessary to use the X11 device in R and other devices that rely on X11. ... Mac OS X 10.3 (Panther) and 10.4 (Tiger) include X11 on the installation CD/DVD, however, it is not selected by default. If it is not installed, you can re-

Re: [R-SIG-Mac] problem with sweave

2009-06-26 Thread Prof Brian Ripley
On Thu, 25 Jun 2009, Christophe Dutang wrote: Dear list, I completely reinstalled mac os 10.5 few weeks ago, and since then I experienced some problem to use build vignettes. Following the discussion in https://stat.ethz.ch/pipermail/r-sig-mac/2008-November/005578.html I put the R texmf dir

Re: [R-SIG-Mac] XML pachage on mac osx leopard

2009-06-15 Thread Prof Brian Ripley
mmand ... it is possible to add frameworks to the R search-lib path ? Nothing special about R: you set LD_LIBRARY_PATH or DYLIB_LIBRARY_PATH depending on what you are doing (and which OS). Il giorno 14/giu/09, alle ore 23:58, Prof Brian Ripley ha scritto: Which version of package XML is

Re: [R-SIG-Mac] XML pachage on mac osx leopard

2009-06-14 Thread Prof Brian Ripley
Which version of package XML is this? For 2.5.0 at least, you need a more recent version of libxml2 (as the log you show does warn you). The CRAN install log at http://www.r-project.org/nosvn/R.check/r-release-macosx-ix86/XML-00install.html shows the same problem for XML 2.5.1. i also tried

Re: [R-SIG-Mac] Query MS SQL Server DB using RODBC from OS X

2009-06-07 Thread Prof Brian Ripley
The original message was posted to this list twice on June 4. Mainly for the archives, see https://stat.ethz.ch/pipermail/r-sig-mac/2009-June/006219.html for three rounds of answers to the other posting. On Sun, 7 Jun 2009, Don MacQueen wrote: There are others better at ODBC than I. None the

Re: [R-SIG-Mac] R 2.9.0 on Leopard 10.5.7 problems?

2009-05-26 Thread Prof Brian Ripley
I've seen no R issues at all with 10.5.7, using the CRAN binary or my own builds. On Tue, 26 May 2009, Marc Schwartz wrote: On May 26, 2009, at 9:06 AM, Luca Scrucca wrote: Dear R-Mac-users, a couple of weeks ago a message appeared in this list which mentioned a potential problem with R 2.

Re: [R-SIG-Mac] problem installing lme4 package with R 2.9.0

2009-05-26 Thread Prof Brian Ripley
I think there's a bit more to it than that. If packages using gfortran needed /usr/local/lib/libgfortran.2.dylib, e.g. package stats would not work. It is linked against /Library/Frameworks/R.framework/Versions/2.9/Resources/lib/libgfortran.2.dylib (compatibility version 3.0.0, current versi

Re: [R-SIG-Mac] problems installing rgdal on mac osx 10.5.6

2009-05-25 Thread Prof Brian Ripley
I think you should ask on the R-sig-Geo list: its arhives contain recent entries about building rgdal on Mac OS X. one of which I have used to give you a hint inline below. On Tue, 26 May 2009, Viscarra Rossel, Raphael (CLW, Black Mountain) wrote: Hello, I am trying to install rgdal on my ma

Re: [R-SIG-Mac] Problem with R CMD check, pdflatex

2009-05-18 Thread Prof Brian Ripley
On Mon, 18 May 2009, Simon Urbanek wrote: Michael, CRAN R comes configured with MacTeX, see also https://stat.ethz.ch/pipermail/r-sig-mac/2009-April/006129.html One of the problems is that PATH settings on OS X differ between LS-started apps, shells etc., so it is in general problematic to ge

Re: [R-SIG-Mac] Problem with R CMD check, pdflatex

2009-05-17 Thread Prof Brian Ripley
On Sat, 16 May 2009, Ji-Ping Wang wrote: I found a strange error while I used ?R CMD check? for package in Mac OS X Leopard. In the current version, R. 2.9, it always returns an error message related to ?pdflatex?. Something like ?LaTeX errors when creating PDF version. This typically indicate

Re: [R-SIG-Mac] Reminder: Please test the 2.9.0 beta/rc binaries!

2009-04-09 Thread Prof Brian Ripley
This is not a bug (and nothing to do with the subject line). You need to set 'ylab', e.g. p2 <- list(x=rnorm(500), main='bug?', col='orange', type='l', ylab="") Why? Because the default is the deparse of 'x', and that is a long string. On Thu, 9 Apr 2009, Steve Lianoglou wrote: Hi, On A

Re: [R-SIG-Mac] Is R more heavy on memory or processor?

2009-03-26 Thread Prof Brian Ripley
On Tue, 24 Mar 2009, Simon Urbanek wrote: On Mar 24, 2009, at 14:55 , Booman, M wrote: Dear all, I am going to purchase a Power Mac (a new one, with Nehalem processor) for my R-based microarray analyses. I use mainly Bioconductor packages, and a typical dataset would consist of 50 microarra

Re: [R-SIG-Mac] R GUI Cannot load Interface Builder

2009-03-20 Thread Prof Brian Ripley
Well, the error seems clear: your R session has too many files open. Now most OSes do have limited tables of files per process, but the numbers are not small: on Mac OS I believe it is 256 (that's what bash reports on mine): 1024 is a common value for other Unixen. You could try closeAllConnec

Re: [R-SIG-Mac] cblas on Mac and Linux

2009-03-20 Thread Prof Brian Ripley
On Fri, 20 Mar 2009, Gad Abraham wrote: Hi, I've got a package with some C code calling cblas functions (e.g., cblas_dgemm). The code is called using .C() . In order to compile correctly either cblas.h on Linux or Accelerate.h on a Mac: #include #ifdef MACOSX #include #else #include #end

Re: [R-SIG-Mac] Setting quartz() as default in ESS

2009-03-12 Thread Prof Brian Ripley
See ?options, look at 'device'. This is getting to be an FAQ On Thu, 12 Mar 2009, Christopher David Desjardins wrote: Hi, I am running CarbonEmacs and calling R from ESS. When I graph data the default device in ESS is X11() and I'd prefer it to call quartz() instead. Is there a way th

Re: [R-SIG-Mac] Readline in vi mode on OSX

2009-03-10 Thread Prof Brian Ripley
On Tue, 10 Mar 2009, Dave Murray-Rust wrote: Hi All, This is a slightly arcane question, but I'm wondering if anyone else uses vi mode with R? On my platform, across several versions, there is some broken behaviour. When executing commands like 'df)' (to delete up to the next bracket) the cu

Re: [R-SIG-Mac] mac-builder

2009-03-10 Thread Prof Brian Ripley
ys works for me. Thanks, --sundar On Mon, Mar 9, 2009 at 12:13 PM, Prof Brian Ripley wrote: On Mon, 9 Mar 2009, Sundar Dorai-Raj wrote: Hi, all, Uwe Ligges has a nice tool for creating R binaries for Windows. http://win-builder.r-project.org/ Is there an equivalent for Mac to create the tg

Re: [R-SIG-Mac] mac-builder

2009-03-09 Thread Prof Brian Ripley
On Mon, 9 Mar 2009, Sundar Dorai-Raj wrote: Hi, all, Uwe Ligges has a nice tool for creating R binaries for Windows. http://win-builder.r-project.org/ Is there an equivalent for Mac to create the tgz file? It is currently tricky: packages built on MacOS by you or I under 2.8.1 are likely t

Re: [R-SIG-Mac] Error loading packages, command 'tar' missing from path?

2009-03-05 Thread Prof Brian Ripley
To Simon: this was Mac-specific as only on Macs does install.packages use this piece of code (and we had a surplus comma in the gettextf call). I've never used 10.4.11 and don't know if /usr/bin/tar is part of the base OS or of Xcode on that version. I was hoping the Mac aficionados would kn

Re: [R-SIG-Mac] X11 missing? ... was Re: [R] rgl persp3d bounding box color problem.

2009-03-03 Thread Prof Brian Ripley
On Tue, 3 Mar 2009, Rob Goedman wrote: David, I did notice in your log.txt file the following message: ld warning: in /usr/local/lib/libfreetype.dylib, missing required architecture x86_64 in file And that is the problem. Simon supplies a libfreetype.a that has tystie% file /usr/local/li

Re: [R-SIG-Mac] X11 missing? ... was Re: [R] rgl persp3d bounding box color problem.

2009-03-03 Thread Prof Brian Ripley
It looks to me as if this is a path issue, as inside the R.app libpng-config is not found. On my system it is in /usr/local/bin. And I think the X configuration expects to find /usr/X11/bin/xmkmf (R's version certainly does). So I suggests putting /usr/local/bin and /usr/X11/bin in your path.

Re: [R-SIG-Mac] X11 missing? ... was Re: [R] rgl persp3d bounding box color problem.

2009-03-03 Thread Prof Brian Ripley
On Mon, 2 Mar 2009, David Winsemius wrote: I tried to install the current version of rgl on R-forge from source from the 64 bit R-GUI and get this error during installation : checking for X... no configure: error: X11 not found but required, configure aborted. ERROR: configuration failed for

Re: [R-SIG-Mac] R does not start on my MacBook Pro3,1

2009-03-02 Thread Prof Brian Ripley
t get me angry are the serial offenders. Also, please be patient: the experts are in short supply: Simon Urbanek is currently travelling, I will be next month Brian Ripley Thanks again, Mary On Mar 2, 2009, at 12:48 PM, Prof Brian Ripley wrote: On Mon, 2 Mar 2009, Kasper Daniel Hans

Re: [R-SIG-Mac] R does not start on my MacBook Pro3,1

2009-03-02 Thread Prof Brian Ripley
On Mon, 2 Mar 2009, Steve Lianoglou wrote: On Mar 2, 2009, at 2:48 PM, Prof Brian Ripley wrote: On Mon, 2 Mar 2009, Kasper Daniel Hansen wrote: It is considered extremely bad behavior to report something like this as bug (see recent post on R-devel). Yes it is a nuisance, but thankfully

Re: [R-SIG-Mac] R does not start on my MacBook Pro3,1

2009-03-02 Thread Prof Brian Ripley
On Mon, 2 Mar 2009, Kasper Daniel Hansen wrote: It is considered extremely bad behavior to report something like this as bug (see recent post on R-devel). Yes it is a nuisance, but thankfully we seem to have solved the problem in the meantiime. The one thing I at least have learnt is that a

Re: [R-SIG-Mac] R does not start on my MacBook Pro3,1

2009-03-02 Thread Prof Brian Ripley
Some other things that might be relevant the saved workspace ~/.Rdata the saved history ~/.Rhistory any personal library. One piece of advice that often works is to start R with --vanilla (e.g. from a terminal 'R --vanilla'): if that works it indicates a problem in one of the startup files and

Re: [R-SIG-Mac] How to Set Default Device to Quartz

2009-03-01 Thread Prof Brian Ripley
On Sat, 28 Feb 2009, ivo...@gmail.com wrote: Dear R-experts: I would like to set the default drawing device to be quartz, not X11. I understand that "quartz()" accomplishes this, but it also draws an empty window. Assigning "quartz" to .Device does not do the trick, either. Of course: see what

Re: [R-SIG-Mac] ?? Build/install x86_64 R under user home dir (non-root) on Mac OS X

2009-02-27 Thread Prof Brian Ripley
You still sent HTML mail, and we got a nigh-unreadable version with lots of blank lines. Your OS *is* for i386: a properly functioning 64-bit buils on MacIntel reports sessionInfo() R version 2.9.0 Under development (unstable) (2009-02-27 r48020) i386-apple-darwin9.6.0 locale: C/en_GB.UTF-

Re: [R-SIG-Mac] .C interface to R: problem with compilation

2009-02-22 Thread Prof Brian Ripley
What problem? Your email has no Re: in the subject and appears in a thread of its own on https://stat.ethz.ch/pipermail/r-sig-mac/2009-February/thread.html . We don't have a clue what you mean. Also, much of the time when people say they have 'the same exact problem' it is not actually true

Re: [R-SIG-Mac] update graphics component without redrawing whole plot

2009-02-20 Thread Prof Brian Ripley
On Fri, 20 Feb 2009, iuhz7j...@sneakemail.com wrote: Yes, I guess I was was using 'device' imprecisely -- I'm not so familiar with the technicalities. Is it correct to say, then, that anything that uses 'grid' is an R device and will necessarily have to redraw to edit existing graphical elemen

Re: [R-SIG-Mac] update graphics component without redrawing whole plot

2009-02-20 Thread Prof Brian Ripley
On Fri, 20 Feb 2009, iuhz7j...@sneakemail.com wrote: Regarding adding Sys.sleep() call: it does make things smoother, but it also defeats the purpose of having live-updating graphics. (Adding a 0.1-second delay to each of the 10^6 simulation timesteps would be counterproductive). I could effe

Re: [R-SIG-Mac] update graphics component without redrawing whole plot

2009-02-19 Thread Prof Brian Ripley
That still redraws, and it flickers visibly on my (latest model with nVidia graphics) MacBook Air (on both quartz() and X11()). R graphics devices use an 'ink and paper' model, so it is impossible to remove (or move) elements. All you can do is repaint background on sections of the plot and r

Re: [R-SIG-Mac] Case distinction on a Mac.

2009-02-19 Thread Prof Brian Ripley
I am wondering if case-insensitive file systems are really such a problem. Because they are the norm on Windows, R is set up to cope with them and I chose to have my Macs set up with the stanadard file systems so I'm more likely to see problems if they occur. The only time I have ever seen an

Re: [R-SIG-Mac] Can't load MASS when using Mac GUI.

2009-02-17 Thread Prof Brian Ripley
You are tryig to use MASS built for R 2.7.x on 2.8.1. Looks like /Users/rturner/Rlib needs updating. On Wed, 18 Feb 2009, Rolf Turner wrote: If I start R by clicking on the R icon on the ``dock'' then I am unable to load the MASS package. I get: library(MASS) Error in dyn.load(file, DLLpat

Re: [R-SIG-Mac] plot windows always open over terminal

2009-02-10 Thread Prof Brian Ripley
On Tue, 10 Feb 2009, Monte Milanuk wrote: Hello, I'm trying to figure out what seems like a relatively minor thing: how to get R to *not* open new Quartz windows for plots right over the terminal window. I've gone into the Preferences and there are four check boxes to select where the user p

Re: [R-SIG-Mac] serial port data aquisition via Tcl

2009-02-02 Thread Prof Brian Ripley
In Tcl/Tk documentation 'Macintosh' does not mean Mac OS X: it (usually?) means classic Macintosh. As for 'up to date': I know people still running Mac OS 8.x. On Mon, 2 Feb 2009, Atul Sharma wrote: The current on-line documentation for Tcl (i.e. the Tcl reference manual) still reads "Opening

Re: [R-SIG-Mac] 64 bit Mac GUI

2009-02-02 Thread Prof Brian Ripley
You should be able to install all the packages you need on a 64-but machine -- the Linux community has been doing so for years, and 64-bit Linux has been part of the testing equally for several years. (I only have 64-bit Linux systems.) With 'statnet', the chain of dependencies includes 'rgl'

Re: [R-SIG-Mac] rgl, Leopard, 64 bit

2009-01-22 Thread Prof Brian Ripley
to encourage people you will need to explain what is not enough in the X11 version. On Thu, 22 Jan 2009, Prof Brian Ripley wrote: On Thu, 22 Jan 2009, Matthew Cohen wrote: Looking through the archives, I see that the developers of rgl don't have access to a 64 bit Mac, and are waiting for

Re: [R-SIG-Mac] rgl, Leopard, 64 bit

2009-01-22 Thread Prof Brian Ripley
On Thu, 22 Jan 2009, Matthew Cohen wrote: Looking through the archives, I see that the developers of rgl don't have access to a 64 bit Mac, and are waiting for someone else to take the initiative and make an appropriate patch. Unfortunately, I think this is beyond my abilities. Has anyone be

Re: [R-SIG-Mac] image() to Rplot.pdf

2009-01-20 Thread Prof Brian Ripley
On Tue, 20 Jan 2009, Paul J. Ossenbruggen wrote: Hi Simon, Thank you for the information about the R image rendering issue in Preview and Acrobat. I am happy to learn that my problem is not related to R and Quartz. As you suggested, I zoomed in and out with Preview but the whit

Re: [R-SIG-Mac] [R] data frames with å, ä , and ö (=non-ASCII-characters) from win dows to mac os x

2009-01-16 Thread Prof Brian Ripley
On Fri, 16 Jan 2009, David Winsemius wrote: On Jan 16, 2009, at 8:48 AM, Prof Brian Ripley wrote: You need to use CP1252 not UTF-8 to read the data. It tells you how to do so on the help page ... under 'encoding'. So something like A <- read.table(con <- file("myfi

Re: [R-SIG-Mac] [R] data frames with å, ä , and ö (=non-ASCII-characters) from win dows to mac os x

2009-01-16 Thread Prof Brian Ripley
On Fri, 16 Jan 2009, David Winsemius wrote: Reading the help page for Sys.get/set/locale: "Attempts to change the character set (by Sys.setlocale("LC_TYPE", ), if that implies a different character set) during a session may not work and are likely to lead to some confusion. Value A character

Re: [R-SIG-Mac] [R] data frames with å, ä , and ö (=non-ASCII-characters) from win dows to mac os x

2009-01-16 Thread Prof Brian Ripley
On Fri, 16 Jan 2009, David Winsemius wrote: It displays sensibly (at least I think so, not being a reader of any Scandinavian language) on my Mac (10.5.6). I think that is because your email client re-encoded it (as did mine), always a hazard of email. It was marked as iso-8859-1. Email, u

Re: [R-SIG-Mac] data frames with å, ä, and ö (=non-ASCII-characters) from windows to mac os x

2009-01-16 Thread Prof Brian Ripley
You need to use CP1252 not UTF-8 to read the data. It tells you how to do so on the help page ... under 'encoding'. So something like A <- read.table(con <- file("myfile", encoding="CP1252"));close(con) Please don't cross-post ... I am being brief because you did. On Fri, 16 Jan 2009, Gusta

Re: [R-SIG-Mac] R CMD check / texi2dvi issues

2009-01-13 Thread Prof Brian Ripley
But the R-devel log will be the informative one. On Tue, 13 Jan 2009, Robin Hankin wrote: Prof Brian Ripley wrote: On Tue, 13 Jan 2009, Robin Hankin wrote: Dear List MacOSX 10.5.5 R-2.8.1 / R-2.9.0 I'm having difficulty with vignettes under Mac OS X. Take the partitions package

Re: [R-SIG-Mac] R CMD check / texi2dvi issues

2009-01-13 Thread Prof Brian Ripley
On Tue, 13 Jan 2009, Robin Hankin wrote: Dear List MacOSX 10.5.5 R-2.8.1 / R-2.9.0 I'm having difficulty with vignettes under Mac OS X. Take the partitions package as an example. According to the CRAN package check page for partitions, this is clean under each system, except for r-release-

Re: [R-SIG-Mac] Quartz device, font family selection.

2009-01-08 Thread Prof Brian Ripley
On Thu, 8 Jan 2009, Charly wrote: Hi All & Happy new year ! On 10.5.6, R version R 2.8.1, I'm trying to change the family font in quartz device using the "family" option. You could try using family= on the plot commands, or (base graphics) par(family="Courier") or gpar(fontfamily="Courier") i

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