[R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
Hi All, I am building a package on my MBP (latest R, latest OSX, TexLive 2010), and I am incurring in some annoying problems with R CMD check: * checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems. * checking PDF version of manu

Re: [R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
On 5 Jul 2011, at 10:44, Federico Calboli wrote: > > My comment is, pdflatex *is* availiable: > > $ :/usr/local/texlive/2010/bin/universal-darwin$ ls -l pdflatex > lrwxr-xr-x 1 root wheel 6 21 Oct 2010 pdflatex -> pdftex > > and > > $ :/usr/local/texlive

Re: [R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
Simon, > both are entirely irrelevant - run > system("pdflatex --version") > in R - that is the only thing that counts. If it shows an error, then you > don't have pdflatex on your PATH which would be the problem. As a side note, > you are showing two separate TeX packages which may not help you

Re: [R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
On 5 Jul 2011, at 14:48, David Winsemius wrote: > On Jul 5, 2011, at 9:10 AM, Federico Calboli wrote: > >> Simon, >> >>> both are entirely irrelevant - run >>> system("pdflatex --version") >>> in R - that is the only thing that counts. If

Re: [R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
On 5 Jul 2011, at 15:19, Simon Urbanek wrote: > > But that is largely irrelevant to R. R has its own mechanisms that are well > documented in the R documentation, so you can use environment.plist or > .profile if you are so inclined, but I would not recommend it, mainly because > it will still

Re: [R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
ch may not help you to find out >> what breaks in your setup in general ... >> >> Cheers, >> Simon >> >> >> >> On Jul 5, 2011, at 5:51 AM, Federico Calboli wrote: >> >>> On 5 Jul 2011, at 10:44, Federico Calboli wrote: >>>> &g

Re: [R-SIG-Mac] building a package on a Mac: pdflatex

2011-07-05 Thread Federico Calboli
On 5 Jul 2011, at 16:26, Kasper Daniel Hansen wrote: >> >> which texi2dvi >> /usr/bin/texi2dvi >> >> and >> >> $:/usr/local/texlive/2010/bin/x86_64-darwin$ ls texi* >> texindy >> >> but no texi2dvi. I did ask other mactex users and they also do not have >> texi2dvi > > Well, I have texi2dvi a

[R-SIG-Mac] gfortran, tclck and /usr/local

2011-07-11 Thread Federico Calboli
Hi, can I ask if anyone can tell me which of these files belongs to the Gfortran and tcltk R Mac tools instalation please: :~$ ls -l /usr/local/lib total 205784 drwxr-xr-x 4 root wheel 136 15 Dec 2009 ImageMagick-6.5.8 drwxr-xr-x 4 root wheel 136 17 Apr 2010 ImageMagick-6.6.1

Re: [R-SIG-Mac] gfortran, tclck and /usr/local

2011-07-11 Thread Federico Calboli
On 11 Jul 2011, at 17:27, Simon Urbanek wrote: > > On Jul 11, 2011, at 12:05 PM, Federico Calboli wrote: > >> Hi, >> >> can I ask if anyone can tell me which of these files belongs to the Gfortran >> and tcltk R Mac tools instalation please: >> &g

Re: [R-SIG-Mac] gfortran, tclck and /usr/local

2011-07-11 Thread Federico Calboli
On 11 Jul 2011, at 17:27, Simon Urbanek wrote: > > On Jul 11, 2011, at 12:05 PM, Federico Calboli wrote: > >> Hi, >> >> can I ask if anyone can tell me which of these files belongs to the Gfortran >> and tcltk R Mac tools instalation please: >> > &g

Re: [R-SIG-Mac] Lion

2011-07-23 Thread Federico Calboli
On 23 Jul 2011, at 00:44, Simon Urbanek wrote: > Since I got a few private e-mails concerning Lion, this is just to say that > nothing changed since the last Lion post here a while ago (you'll still have > to open Quartz explicitly in command line R). > R works out of the box and you have the ch

Re: [R-SIG-Mac] autocompletion in R.app on Lion

2011-07-27 Thread Federico Calboli
On 26 Jul 2011, at 20:21, Lorenz Gerber wrote: > Dear all, > > I just upgraded to Lion and have since then a strange behavior of the > autocompletion when invoking R by R.app. > As an example, after typing "heat" and then autocompletion, choosing > heat.colors, the command line could look like

[R-SIG-Mac] cannot install gfortran-lion-5666-3.pkg

2011-07-27 Thread Federico Calboli
As a test I downloaded and tried to install gfortran-lion-5666-3.pkg. It does not like the fact that Xcode 4.1 comes with gcc build 5658, rather than 5666.3, and it does not install. Lion, Xcode 4.1 gcc --version i686-apple-darwin11-llvm-gcc-4.2 (GCC) 4.2.1 (Based on Apple Inc. build 5658) (LL

Re: [R-SIG-Mac] cannot install gfortran-lion-5666-3.pkg

2011-07-27 Thread Federico Calboli
On 27 Jul 2011, at 15:42, Berend Hasselman wrote: > > [.../R]: gcc-4.2 --version > i686-apple-darwin11-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5666) (dot 3) Same here: gcc-4.2 --version i686-apple-darwin11-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5666) (dot 3) hence I am puzzled why I should no

Re: [R-SIG-Mac] R 2.13.1-patched, vecLib problem on Lion

2011-08-19 Thread Federico Calboli
On 19 Aug 2011, at 21:06, Yan Zhou wrote: > Dear all, > > I have a problem with R 2.31-patched from http://R.research.att.com/. I am > using Lion 10.7.1 > > I did a fresh install of R and I checked that the BLAS library is linked to > vecLib. However the following simple code halt on my machi

Re: [R-SIG-Mac] R 2.13.1-patched, vecLib problem on Lion

2011-08-19 Thread Federico Calboli
On 19 Aug 2011, at 21:06, Yan Zhou wrote: > Dear all, > > I have a problem with R 2.31-patched from http://R.research.att.com/. I am > using Lion 10.7.1 > > I did a fresh install of R and I checked that the BLAS library is linked to > vecLib. However the following simple code halt on my machi

[R-SIG-Mac] Java error loading deducer

2011-10-20 Thread Federico Calboli
Hi All, I would like to try the library 'Deducer' (http://www.deducer.org/pmwiki/pmwiki.php?n=Main.DeducerManual), because I have to introduce my other half to R. I installed JGR and Deducer and all the required libraries, but I get a java error: [using the R64 Mac GUI] > library(Deducer) Loa

Re: [R-SIG-Mac] Java error loading deducer

2011-10-20 Thread Federico Calboli
On 20 Oct 2011, at 16:19, Simon Urbanek wrote: > Federico, > > you have to load Deducer from JGR, you can't load it in a "regular" R > session. Download the JGR launcher from the JGR website: > for Mac OS X 10.6 or higher: > http://rforge.net/JGR/web-files/JGR-1.6-SL.dmg > for Mac OS X 10.5: > h

Re: [R-SIG-Mac] R 2.14.0 on MacBook Pro

2011-11-11 Thread Federico Calboli
On 10 Nov 2011, at 14:41, Simon Urbanek wrote: > Jan, > > On Nov 10, 2011, at 6:02 AM, Verbesselt, Jan wrote: > >> Dear all, >> >> I have just upgraded from 2.13.2 to 2.14.0 on my mac book pro on 10.6.8 OsX. >> After installing the "zoo" package - I am unable to load the zoo package in >> R

Re: [R-SIG-Mac] R 2.14.0 on MacBook Pro

2011-11-11 Thread Federico Calboli
On 11 Nov 2011, at 12:12, Federico Calboli wrote: > On 10 Nov 2011, at 14:41, Simon Urbanek wrote: > >> Jan, >> >> On Nov 10, 2011, at 6:02 AM, Verbesselt, Jan wrote: >> >>> Dear all, >>> >>> I have just upgraded from 2.13.2 to

Re: [R-SIG-Mac] R 2.14.0 on MacBook Pro [SOLVED]

2011-11-11 Thread Federico Calboli
On 11 Nov 2011, at 12:13, Federico Calboli wrote: > > On 11 Nov 2011, at 12:12, Federico Calboli wrote: > >> On 10 Nov 2011, at 14:41, Simon Urbanek wrote: >> >>> Jan, >>> >>> On Nov 10, 2011, at 6:02 AM, Verbesselt, Jan wrote: >>> &

Re: [R-SIG-Mac] manually load package

2011-11-23 Thread Federico Calboli
On 23 Nov 2011, at 16:05, Lara R. Appleby 04 wrote: > I want to install the old R package "Design" from a source file > "Design_2.3-0.tar.gz" which is on my desktop. I need this (old) package to > run another (newer) package "Contrast". > >> install.packages(pkgs="Design_2.3-0.tar.gz", >> repo

[R-SIG-Mac] changing the font of R.app

2011-11-29 Thread Federico Calboli
As trivial as it is, I'd like to change *permanently* the font (or fonts in case output, error messages etc) on my R.app 64 bit GUI. I seem to be able to chnage the font with 'Format', but it only affects the font of input, and. erratically, the font of what is already on screen -- not always.

Re: [R-SIG-Mac] Why there are two R.app & R64.app?

2011-12-15 Thread Federico Calboli
On 15 Dec 2011, at 11:38, Adam Strzelecki wrote: > > You're looking on it from developer's perspective. But regular user that want > to make few plots via R do not necessarily know what is 64-bit at all. That's > why on Mac there's a convention to use FAT binaries and default to 64-bit > unless

[R-SIG-Mac] gcc, gfortran and Xcode upgrade

2012-01-17 Thread Federico Calboli
Hi, I am on OS X 10.7.2, Xcode 4.2.1, R 2.14.1 (GUI 6008) and I was wondering what would happen if I installed gcc-4.2 (Apple build 5666.3) with GNU Fortran 4.2.4 for Mac OS X 10.7 (Lion) (from http://r.research.att.com/tools/) and then Apple released Xcode 4.2.2… would I have to reinstall gcc

[R-SIG-Mac] R-GUI 6049 colours

2012-01-30 Thread Federico Calboli
Hi All, maybe I caught a bug, but my input is in blue, and cannot be modified, on R-GUI 64 bit, built 6049, installed today 30th of Jan, 2012. I use white text on a black background, and I seem unable to specify a white input -- it just ignores me and uses blue. Output is white though. I have t

Re: [R-SIG-Mac] R-GUI 6049 colours

2012-01-31 Thread Federico Calboli
On 30 Jan 2012, at 13:47, Hans-Jörg Bibiko wrote: > > Hi Federico, > > thanks a lot for the hint! It should be fixed in rev 6050, thus please try it > out. I confirm the issues has been fixed. Thank you very much. BW F -- Federico C. F. Calboli Neuroepidemiology and Ageing Research Imperial

[R-SIG-Mac] XCode 4.3

2012-02-17 Thread Federico Calboli
Hi All, before I do something stupid, will XCode 4.3 play nice with R? my guess is that I should -- install Xcode 4.3 -- get rid of Xcode 4.2.1 and /Developer -- install the command line tools -- possibly reinstall GNU Fortran 4.2.4 for Mac OS X 10.7 (Lion) from http://r.research.att.com/tool

Re: [R-SIG-Mac] can not open R

2012-02-24 Thread Federico Calboli
This is not a R Mac question, and using an informative subject would be a good start. > I have about 30 .txt files which are needed to be concatenated into one > file(without change for each file). Is there an efficient way to do this in > R? given names like file1.txt … file30.txt cat file2.tx

Re: [R-SIG-Mac] how to open R commands from a separate file and execute them

2012-03-10 Thread Federico Calboli
On 10 Mar 2012, at 12:02, mamush bukana wrote: > Dear list, > I am new for mac. I used to write R commands, save them as a separate file > form "file.R ", execute the commands from the file just pressing Ctrl+R, > save plots in "file.eps" format.. But I can't enjoy all this simple > tasks in m

[R-SIG-Mac] cannit get list of binary packages from the GUI

2012-03-16 Thread Federico Calboli
Hi, I just noticed the following weird issue. If I go to the menu 'Packages and Data', select 'Package Installer' the installer goes up, but when I tell it to give the list of binaries available (I like to keep up to date, and check every couple of days) the list comes up empty. The list for C

Re: [R-SIG-Mac] cannit get list of binary packages from the GUI

2012-03-16 Thread Federico Calboli
Apologies, I forgot to say, I have R 2.14.2, latest 64-bit GUI from http://r.research.att.com/, OS 10.7.3 BW F On 16 Mar 2012, at 12:23, Federico Calboli wrote: > Hi, > > I just noticed the following weird issue. If I go to the menu 'Packages and > Data', select &

Re: [R-SIG-Mac] cannit get list of binary packages from the GUI

2012-03-17 Thread Federico Calboli
On 17 Mar 2012, at 11:06, David Winsemius wrote: >>> >> >> Hmm... it's not empty on the master machine -- use http://r.research.att.com >> as the mirror - it should work ... >> > > Could PACKAGES file be in some damaged state that R cannot process? When I > change the repository to that value

[R-SIG-Mac] R.app ''crashing'' when trying to install bioconductor packages

2012-05-10 Thread Federico Calboli
Hi, on a R64 R.app [R.app GUI 1.52 (6153) x86_64-apple-darwin9.8.0] the R.app stops responding and has to be force quit if I try to install any Bioconductor package. sessionInfo() R version 2.15.0 (2012-03-30) Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) locale: [1] en_GB.UTF-8/en_GB.UTF

Re: [R-SIG-Mac] R.app ''crashing'' when trying to install bioconductor packages

2012-05-10 Thread Federico Calboli
mmm, might it be that I get this warning if I istall things with biocLite Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/leopard/contrib/2.15 ? BW F On 10 May 2012, at 17:05, Federico Calboli wrote: > Hi, > > on a R64 R.app [

Re: [R-SIG-Mac] How to delete R session history?

2012-06-26 Thread Federico Calboli
go to your working dir, I assume that would be /Users/your_username do ls -a if the file is there kill it, otherwise find the dir where you were working when you saved the session and go through the step above F On 26 Jun 2012, at 17:31, C W wrote: > I accidentally saved my R session, and

Re: [R-SIG-Mac] R 2.15.1 installer with signature (for Mountain Lion)

2012-08-15 Thread Federico Calboli
On 15 Aug 2012, at 14:26, Simon Urbanek wrote: > On Aug 15, 2012, at 5:28 AM, Berend Hasselman wrote: > >> To be completely sure: for ML I only have to install >> gfortran-lion-5666-3.pkg (from r.research.att.com) and Xcode + CLI tools? > > No, the "regular" Fortran from the top of the page

[R-SIG-Mac] GCC Wiki GFortran

2012-08-22 Thread Federico Calboli
Hi, I used to be able to use the Fortran binaries provided by Simon for both R and Julia, but alas this will not be possible anymore: "The problem is not BLAS, but your version of gfortran. Mac provides a built-in system blas, so it is not required to build our own. However, "checking for Fort

Re: [R-SIG-Mac] GCC Wiki GFortran

2012-08-30 Thread Federico Calboli
On 22 Aug 2012, at 15:12, Simon Urbanek wrote: > > On Aug 22, 2012, at 6:34 AM, Federico Calboli > wrote: > >> Hi, >> >> I used to be able to use the Fortran binaries provided by Simon for both R >> and Julia, but alas this will not be possible anymore:

Re: [R-SIG-Mac] GCC Wiki GFortran

2012-08-30 Thread Federico Calboli
On 30 Aug 2012, at 16:26, Simon Urbanek wrote: > > On Aug 30, 2012, at 11:19 AM, Federico Calboli > wrote: > >> On 22 Aug 2012, at 15:12, Simon Urbanek wrote: >> >>> >>> On Aug 22, 2012, at 6:34 AM, Federico Calboli >>> wrote: &g

Re: [R-SIG-Mac] GCC Wiki GFortran

2012-08-30 Thread Federico Calboli
On 30 Aug 2012, at 17:10, Simon Urbanek wrote: > > On Aug 30, 2012, at 11:42 AM, Federico Calboli > wrote: > >> On 30 Aug 2012, at 16:26, Simon Urbanek wrote: >> >>> >>> On Aug 30, 2012, at 11:19 AM, Federico Calboli >>> wrote

Re: [R-SIG-Mac] install question

2012-10-18 Thread Federico Calboli
On 18 Oct 2012, at 15:57, "Hodgess, Erin" wrote: > Hello! > > Is there an equivalent of "sudo apt-get install" on the Mac, please? a bit too vague -- are you using fink (which should give some apt-get options I think), macports, home-brew or what? The short of it is NO, you will have to say w

Re: [R-SIG-Mac] install question

2012-10-18 Thread Federico Calboli
> This is on a MacBook Air with Mountain Lion. > > Sorry for the ambiguity. > > Erin > > > From: Federico Calboli [f.calb...@imperial.ac.uk] > Sent: Thursday, October 18, 2012 10:05 AM > To: Hodgess, Erin > Cc: r-sig-mac@r

Re: [R-SIG-Mac] R 32-bit suddenly the default on Mountain Lion 10.8.2?

2012-11-13 Thread Federico Calboli
On 13 Nov 2012, at 19:06, Marc Schwartz wrote: > Hi All, > > I am on a fully updated MacBook Pro, running 10.8.2. I get: > > uname -m > x86_64 > > from the terminal, as would be expected. > > I have been using the CRAN OSX binaries for some time now, rather than > building from source, which

Re: [R-SIG-Mac] R 32-bit suddenly the default on Mountain Lion 10.8.2?

2012-11-13 Thread Federico Calboli
On 13 Nov 2012, at 19:59, Prof Brian Ripley wrote: > Marc, > > Start with 'which R', or run /usr/bin/R explicitly. $ which R /usr/bin/R > That should be a symlink to > > /Library/Frameworks/R.framework/Resources/bin/R it does: $ ls -l /usr/bin/R lrwxr-xr-x 1 root wheel 47 28 Oct 10:47

Re: [R-SIG-Mac] library not found for -lX11

2012-11-29 Thread Federico Calboli
On 29 Nov 2012, at 16:49, Berend Hasselman wrote: > > Contents .../00install.out > > * installing *source* package 'vimcom' ... > checking for pkg-config... no > ERROR: Cannot find pkg-config. > ERROR: configuration failed for package 'vimcom' > * removing > '/Users/berendhasselman/Documents/P

Re: [R-SIG-Mac] library not found for -lX11

2012-11-29 Thread Federico Calboli
On 29 Nov 2012, at 17:29, Jochen wrote: > Just a guess, but maybe XCode and its command line tools need to be installed? I don't know for third parties, but I do have the latest XCode + command line tools installed (and I would need them for MacPorts in the first place). As by my previous ema

Re: [R-SIG-Mac] library not found for -lX11

2012-11-29 Thread Federico Calboli
On 29 Nov 2012, at 17:49, Prof Brian Ripley wrote: > On 29/11/2012 17:37, Federico Calboli wrote: >> On 29 Nov 2012, at 17:29, Jochen wrote: >> >>> Just a guess, but maybe XCode and its command line tools need to be >>> installed? >> >> I do

Re: [R-SIG-Mac] Why do i get: Error: unexpected input in "A<-lm(GandW ~ Authocracy,Data)" ?

2012-12-06 Thread Federico Calboli
On 25 Nov 2012, at 20:01, Faradj Koliev wrote: > Every time i insert : A<-lm(GandW ~ Authocracy;Data) i get this error: > Error: unexpected input in "A<-lm(GandW ~ Authocracy,Data)" A<-lm(GandW ~ Authocracy;Data) is wrong, you are using ; You should be writing A<-lm(GandW ~ Authocracy,Dat

Re: [R-SIG-Mac] packages impute

2013-01-02 Thread Federico Calboli
On 2 Jan 2013, at 10:23, Guillaume Meurice wrote: > Dear all, > > I recently got problem using "impute" package, which raise the following > error message : > > "Error in ximp[junk$imiss == 2] <- NA : > invalid type (bytecode) for 'dimnames' (must be a vector)" > > > And from time-to-time

Re: [R-SIG-Mac] R packages on Mac

2013-01-23 Thread Federico Calboli
On 23 Jan 2013, at 11:07, Ivan Calandra wrote: > Hi again, > > It probably won't be of any help for now, but you might need it in the > future: I used to install packages from the package installer. Then I > realized that it often messed up with dependencies. I notice there is a nice 'install

Re: [R-SIG-Mac] R packages on Mac

2013-01-23 Thread Federico Calboli
e.fr > http://biogeosciences.u-bourgogne.fr/calandra > > Le 23/01/13 12:18, Federico Calboli a écrit : >> On 23 Jan 2013, at 11:07, Ivan Calandra wrote: >> >>> Hi again, >>> >>> It probably won't be of any help for now, but you might need it in

Re: [R-SIG-Mac] Encoding issue with text output from R

2013-01-31 Thread Federico Calboli
Heve you tried opening the file in TextEdit, save it, and open it in Word after? BW F On 31 Jan 2013, at 17:17, Fisher Dennis wrote: > R 2.15.2 > OS X ML > > Colleagues, > > I am "sink"ing output from statistical tests to a text file: > sink(FILENAME) > SOMETEST() > sink()

[R-SIG-Mac] uninstalling gcc-4.2 (Apple build 5666.3) with GNU Fortran 4.2.4 for Mac OS X 10.7 (Lion)

2013-04-05 Thread Federico Calboli
Hi All, is there an intelligent way of uninstalling the stuff that comes with gcc-4.2 (Apple build 5666.3) with GNU Fortran 4.2.4 for Mac OS X 10.7 (Lion) without accidentally removing something else? I could use pkgutil to fish out all the files and remove them by hand (my bash foo is not foo

Re: [R-SIG-Mac] uninstalling gcc-4.2 (Apple build 5666.3) with GNU Fortran 4.2.4 for Mac OS X 10.7 (Lion)

2013-04-05 Thread Federico Calboli
On 5 Apr 2013, at 15:13, Simon Urbanek wrote: > > On Apr 5, 2013, at 5:16 AM, Federico Calboli wrote: > >> Hi All, >> >> is there an intelligent way of uninstalling the stuff that comes with >> gcc-4.2 (Apple build 5666.3) with GNU Fortran 4.2.4 for

Re: [R-SIG-Mac] How to move existing packages?

2013-04-09 Thread Federico Calboli
My understanding is that you have to reinstall them from 0. Having said that, because of dependencies this is often quite trivial if you install some 'high dependencies' packages first. BW F On 9 Apr 2013, at 17:28, Petar Milin wrote: > Hello! > I am new to Mac and I wonder is there a way

Re: [R-SIG-Mac] rgl crashes after one successful draw on R.app

2013-05-29 Thread Federico Calboli
On 29 May 2013, at 16:19, Bryan Hanson wrote: > [originally on R-help, reposted here as the most relevent place] > > NOTE: problem is with R.app, looks OK on command line R > > This is really odd, and probably 100% local to me No, same here. I'm on OS 10.8.3, Xcode command line, all bells and

Re: [R-SIG-Mac] mac mavericks problem

2013-10-24 Thread Federico Calboli
On 24 Oct 2013, at 17:37, Marc Schwartz wrote: > > Rich, > > I get the same error message, but not the segfault, using 3.0.2 on Mavericks, > using R.app: > > R version 3.0.2 (2013-09-25) -- "Frisbee Sailing" > Copyright (C) 2013 The R Foundation for Statistical Computing > Platform: x86_64-app

Re: [R-SIG-Mac] Compiling against the Accelerate framework on OS X 10.9

2013-10-28 Thread Federico Calboli
On 27 Oct 2013, at 21:33, Simon Zehnder wrote: > > P.S.: I would consider the gcc4.8.2 binary from http://hpc.sourceforge.net > for Mavericks and ML; I worked before with the macports alternative and found > it easier to use these binaries. They are always up to date… Please note that http:/

Re: [R-SIG-Mac] My first package

2014-01-20 Thread Federico Calboli
On 18 Jan 2014, at 14:31, Axel Urbiz wrote: > Hi All, > > > I'm planning to submit my first package to R, and although I read all the > documentation, I'm not very clear on the following 2 items, from which I'd > appreciate your guidance: > > > 1)I understand it is suggested to use the R dev

Re: [R-SIG-Mac] [Rd] My first package

2014-01-20 Thread Federico Calboli
On 20 Jan 2014, at 14:51, Gábor Csárdi wrote: > On Mon, Jan 20, 2014 at 4:31 AM, Federico Calboli > wrote: > [...] > Is it? this is news to me. I have a grand total of 2 packages up and I > never ever used R-devel, and never ever had a problem, had a report of a > pro

Re: [R-SIG-Mac] [Rd] My first package

2014-01-20 Thread Federico Calboli
On 20 Jan 2014, at 15:15, Gábor Csárdi wrote: > On Mon, Jan 20, 2014 at 9:58 AM, Federico Calboli > wrote: > [...] > I do that *with the current release of R* and I never had an issue > whatsoever. Incidentally the words 'This should be done with the current > ve

[R-SIG-Mac] making R.app and home-brew live happily together

2014-02-28 Thread Federico Calboli
Hi All, I recently moved from OS 10.8.5 to 10.9.2. So far so good. After years of using Macports (without any issues) I decided on a whim to give Homebrew a try. Before installing Homebrew I had installed R-3.0-branch-snowleopard-signed.pkg from http://r.research.att.com. Using brew doctor

Re: [R-SIG-Mac] making R.app and home-brew live happily together

2014-02-28 Thread Federico Calboli
Simon, > Unfortunately HB installs by default in /usr/local and requires full control > so you cannot have native libraries and HB in the same place at the same > time. So essentially you have to pick one or the other. There are two options: > > a) install HB in another place. This allows you

Re: [R-SIG-Mac] making R.app and home-brew live happily together

2014-03-05 Thread Federico Calboli
(http://www.activestate.com/activetcl/downloads) BW F > > Davor > > On Feb 28, 2014, at 9:51 AM, Federico Calboli > wrote: > >> Simon, >> >> >> >>> Unfortunately HB installs by default in /usr/local and requires full >>> contr

Re: [R-SIG-Mac] making R.app and home-brew live happily together

2014-03-05 Thread Federico Calboli
On 5 Mar 2014, at 13:12, Prof Brian Ripley wrote: > On 05/03/2014 13:04, Federico Calboli wrote: >> On 4 Mar 2014, at 18:41, Davor Cubranic wrote: >> >>> If you don’t care about Tcl/Tk, you could also install R without it. Just >>> choose “Customize”

Re: [R-SIG-Mac] making R.app and home-brew live happily together

2014-03-05 Thread Federico Calboli
On 5 Mar 2014, at 14:53, Simon Urbanek wrote: > > On Mar 5, 2014, at 9:24 AM, Gábor Csárdi wrote: > >> On Wed, Mar 5, 2014 at 9:21 AM, Simon Urbanek >> wrote: >> On Mar 5, 2014, at 8:04 AM, Federico Calboli >> wrote: >> >>> On 4 Mar 2014, a

[R-SIG-Mac] Cannot list Bioconductor packages

2015-04-23 Thread Federico Calboli
erent OS). If this *is* a OS X issue I would be grateful if someone can figure out what’s missing. Best F -- Federico Calboli Ecological Genetics Research Unit Department of Biosciences PO Box 65 (Biocenter 3, Viikinkaari 1) FIN-00014 University of Helsinki Finland federico

Re: [R-SIG-Mac] Cannot list Bioconductor packages

2015-04-24 Thread Federico Calboli
; z <- paste(mirror, "packages", >ver, c("bioc", "data/annotation", "data/experiment", "extra"), >sep = "/")) > > > -Peter D. > > On 23 Apr 2015, at 09:58 , Federico Calboli > wrot

[R-SIG-Mac] Can I safely edit the fortran compiler in Makeconf?

2015-05-08 Thread Federico Calboli
{R_HOME}/etc/Makeconf # # R was configured using the following call # (not including env. vars and site configuration) # configure 'CC=clang' 'CXX=clang++' 'OBJC=clang' 'F77=gfortran' 'FC=gfortran’ <—*change to gfortran* and be done with it?

Re: [R-SIG-Mac] Can I safely edit the fortran compiler in Makeconf?

2015-05-08 Thread Federico Calboli
I have actually solved it by editing ~/.R/Makevars… BW F > On 8 May 2015, at 10:39, Federico Calboli > wrote: > > Hi, > > I am trying to build this package from source: > > https://github.com/timothyfrasier/related > > I cannot do it because I have gfor

[R-SIG-Mac] Removing (completely) TCl/Tk

2015-12-09 Thread Federico Calboli
is long it it looks like it is going to be tedious to remove all the files one by one (I could remove the directories but I could only do that once I am sure nothing else is there from another source). Is there a smarter way of achieving my goal? BW Federico -- Federico Calboli Ecological

Re: [R-SIG-Mac] Removing (completely) TCl/Tk

2015-12-09 Thread Federico Calboli
> On 9 Dec 2015, at 18:40, Prof Brian Ripley wrote: > > On 09/12/2015 16:12, Federico Calboli wrote: >> Hi All, >> >> I have TCL/Tk installed from the latest DMG image for R 3.2.2 I will upgrade >> to R 3.2.3 as soon as the DMG is available). I’d like to

[R-SIG-Mac] Cannot list Bioconductor packages

2016-02-10 Thread Federico Calboli
erent OS). If this *is* a OS X issue I would be grateful if someone can figure out what’s missing. Best F -- Federico Calboli f.calb...@gmail.com ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

[R-SIG-Mac] R gui monokai

2016-03-04 Thread Federico Calboli
Is there a way that does not involve a lot of time (because it is a purely cosmetic issue) to turn the Mac R GUI in the Monokai color scheme? Best F -- Federico Calboli Ecological Genetics Research Unit Department of Biosciences PO Box 65 (Biocenter 3, Viikinkaari 1) FIN-00014 University of

Re: [R-SIG-Mac] R gui monokai

2016-03-04 Thread Federico Calboli
). BW F > > Brandon > > > On Fri, Mar 4, 2016 at 7:48 AM, Federico Calboli > wrote: >> Is there a way that does not involve a lot of time (because it is a purely >> cosmetic issue) to turn the Mac R GUI in the Monokai color scheme? >> >> Best >&g

[R-SIG-Mac] R 3.4.3 binaries

2017-12-06 Thread Federico Calboli
Hi All, I know that I can get the latest and greatest binaries from http://r.research.att.com/ but I am puzzled why there are still no OSX R 3.4.3 binaries on CRAN. The Windows installer has been up a few days already. Is there anything I am missing concerning this delay? Cheers F __

Re: [R-SIG-Mac] R 3.4.3 binaries

2017-12-06 Thread Federico Calboli
sed by High Sierra, which I am finding riddled with bugs. Cheers F > >> On 6 Dec 2017, at 10:26 , Federico Calboli >> wrote: >> >> Hi All, >> >> I know that I can get the latest and greatest binaries from >> http://r.research.att.com/ but I am

Re: [R-SIG-Mac] R-SIG-Mac Digest, Vol 178, Issue 2

2017-12-06 Thread Federico Calboli
Consider yourself lucky. BW F > >> On 6 Dec 2017, at 12:26, Federico Calboli >> wrote: >> >> >> >>> On 6 Dec 2017, at 11:22, peter dalgaard >> <mailto:pda...@gmail.com>> wrote: >>> >>> I would guess that either

[R-SIG-Mac] odd message opening R.app

2019-03-27 Thread Federico Calboli
what it might mean, and whether I need to be concerned, but I felt I should report it. Cheers F -- Federico Calboli LBEG - Laboratory of Biodiversity and Evolutionary Genomics Charles Deberiotstraat 32 box 2439 3000 Leuven +32 16 32 87 67 ___ R-SIG-Mac

[R-SIG-Mac] odd message opening R.app

2019-03-27 Thread Federico Calboli
what it might mean, and whether I need to be concerned, but I felt I should report it. Cheers F -- Federico Calboli LBEG - Laboratory of Biodiversity and Evolutionary Genomics Charles Deberiotstraat 32 box 2439 3000 Leuven +32 16 32 87 67 ___ R-SIG-Mac

[R-SIG-Mac] error opening R-GUI

2019-04-29 Thread Federico Calboli
[1] compiler_3.6.0 -- Federico Calboli LBEG - Laboratory of Biodiversity and Evolutionary Genomics Charles Deberiotstraat 32 box 2439 3000 Leuven +32 16 32 87 67 ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] error opening R-GUI

2019-04-30 Thread Federico Calboli
crayon_1.3.4 > On 29 Apr 2019, at 12:08, Federico Calboli > wrote: > > Hi, > > I get the following error opening the R-GUI: > > 2019-04-29 12:05:50.515 R[64826:6153713] Failed to connect (separatorView) > outlet from (NSView) to (NSTitlebarSepara

[R-SIG-Mac] random message on opening R-app

2020-01-12 Thread Federico Calboli
] compiler_3.6.2 It is harmless but offends my retentive nature — is there a permanent fix? Cheers F -- Federico Calboli LBEG - Laboratory of Biodiversity and Evolutionary Genomics Charles Deberiotstraat 32 box 2439 3000 Leuven +32 16 32 87 67

Re: [R-SIG-Mac] random message on opening R-app

2020-01-12 Thread Federico Calboli
> On 12 Jan 2020, at 16:47, Marc Schwartz wrote: > > >> On Jan 12, 2020, at 7:51 AM, Federico Calboli >> wrote: >> >> Hi All, >> >> just to check whether I am the only one (or one of the lucky few) who >> randomly get the messag