On Dec 8, 2011, at 5:16 AM, Thomas Chesney wrote:
Hey it worked! Thank you *very* much. I installed XCode from my Mac
DVD, then downloaded the arules source file and ran R CMD INSTALL /
Users/thomas/Documents/arules_1.0-7.tar.gz in the terminal.
So should I always use the source file of the pakages in the future?
I wouldn't. I used to do so but the system is very stable in my
experience over the last several years. Unless you enjoy the thrill of
seeing pages of compiler messages scrolling across you screen, (and I
will admit to sometimes being strangely thrilled by that experience at
times) there isn't much point.
How come this worked but downloading the binary didn't? The binary
file is somehow tied to a version of R whereas the source file isn't?
To some extent that may be true. Major version upgrades to R sometimes
add requirements on packages or provide new functions. Source code
from former years may also fail to compile with newer versions of R.
Has the binary file been complied already whereas my CMD INSTALL
command compiled C code on my machine?
Yes. Mac binaries are *.tgz files whereas *.tar.gz files are source.
Source files may or may not require compilation of C/Fortran code. Not
all packages have such. Some packages are pure R and installation
would succeed even without the Xcode resources.
But then why would my compiled C code be different from the compiled
C code in the binary file?
Not sure what you mean here. Are you asking about some specific
instance?
--
David.
Anyway, important thing is it seems to have worked, but if someone
could advise on whether I should use source files in the future that
would be really helpful.
Thomas
________________________________________
From: David Winsemius [[email protected]]
Sent: Thursday, December 08, 2011 12:58 AM
To: R.Michael Weylandt
Cc: Thomas Chesney; [email protected]
Subject: Re: [R-SIG-Mac] arules installation
On Dec 7, 2011, at 4:35 PM, R. Michael Weylandt wrote:
Theoretically, but I've always built packages from Terminal so I
can't
promise it. Also, there's an outside chance you'll need a Fortran
compiler too, but I haven't looked at the source files to confirm.
I'd also suggest you try your CRAN mirror one more time and make sure
you are getting the 2.13 version: for instance, I used this link:
http://lib.stat.cmu.edu/R/CRAN/bin/macosx/leopard/contrib/2.13/arules_1.0-7.tgz'
I believe that the link shown on the CRAN page will automatically
give
you the current release (2.14) build.
Michael
2011/12/7 Thomas Chesney <[email protected]>:
Michael - thanks for the reply. So if I install my XCode C complier,
You would want all of the Xcode to be installed including the Fortran
complier and other support.
then download the latest arules source file which is:
arules_1.0-7.tar.gz and then run: install.packages("/Users/thomas/
Documents/arules_1.0-7.tar.gz", repos=NULL, type="source") it will
just work? (Why will that work with the latest version but the
latest .tgz won't?)
It should succeed that way if Xocde is properly installed. Why didn't
you try that?
AND: Why are you staying with 2.13? Why not update your R version?
What I usually do to install a package is download the .tgz file,
double click to unzip it, then copy the resulting folder into
Library/Frameworks/R.Framework/Resources/Library.
That is only going to work for packages that are all-R and no C/
Fortran
I could install the latest R and then do that for arules, but then
I'd have to do the same for dozens of other packages (or could I
just copy them to another folder, update R, and then copy them to
R.Framework/Resources/Library saying no to any replace file popups?)
The usual recommendation is after updating R , which creates a new
Resources folder with ./library/, to copy/paste the contents of the
2.13 ../library/ into the new one and then at the R console to
execute:
update.packages(checkBuilt=TRUE) # and probably also include the
ask=FALSE option
I usually forget that ask option and then have to keep typing Y<cr>.
Best;
David.
Thomas
________________________________________
From: R. Michael Weylandt <[email protected]>
[[email protected]
]
Sent: Wednesday, December 07, 2011 1:36 PM
To: Thomas Chesney
Cc: [email protected]
Subject: Re: [R-SIG-Mac] arules installation
You need a C compiler: the usual recommendation is XCode which you
can get off your OS X install DVD or download from Apple Developer
pages.
Out of curiosity, how did you download the first time? I can still
get 2.13.x packages from CRAN though I haven't tried with arules
specifically.
Michael
On Dec 7, 2011, at 6:05 AM, Thomas Chesney <[email protected]
wrote:
I sent the following and got the following reply to the R-Help,
and then was told I should have sent it here.
On 07.12.2011 10:54, Thomas Chesney wrote:
I'm using R version 2.13.0 (2011-04-13) on Mac OS X and I get the
following error message with library(arules):
Loading required package: Matrix
Loading required package: lattice
Attaching package: 'Matrix'
The following object(s) are masked from 'package:base':
det
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Library/Frameworks/R.framework/
Versions/2.13/Resources/library/arules/libs/i386/arules.so':
dlopen(/Library/Frameworks/R.framework/Versions/2.13/Resources/
library/arules/libs/i386/arules.so, 6): Library not loaded: /
Library/Frameworks/R.framework/Versions/2.14/Resources/lib/
libR.dylib
Referenced from: /Library/Frameworks/R.framework/Versions/2.13/
Resources/library/arules/libs/i386/arules.so
Reason: image not found
In addition: Warning message:
package 'arules' was built under R version 2.14.0
Error: package/namespace load failed for 'arules'
Install an arules binary that was built for your version of R
(reather
than a later one) or install from sources.
Uwe Ligges
The arules CRAN page says: Depends: R (≥ 2.11.0), stats,
methods, Matrix (≥ 0.999375-38), all of which I have - anyone
know what the problem is? I'm really relunctant to update R as
its Package Installer is blocked somehow by our Firewall and
updating all the packages I use is a major hassle.
Thank you (as always!)
Thomas
PS on a related note, are the package installer port settings
available somewhere and I'll send them to IT, ask them to unblock
it?
-------------------------------------
I tried installing from source as Prof Ligges suggested (as
explained here:
http://stackoverflow.com/questions/1474081/how-do-i-install-an-r-package-from-source)
but got the following error:
install.packages("/Users/thomas/Documents/arules_1.0-7.tar.gz",
repos=NULL, type="source")
* installing *source* package 'arules' ...
** libs
*** arch - i386
sh: make: command not found
ERROR: compilation failed for package 'arules'
* removing '/Library/Frameworks/R.framework/Versions/2.13/
Resources/library/arules'
Warning message:
In install.packages("/Users/thomas/Documents/
arules_1.0-7.tar.gz", :
installation of package '/Users/thomas/Documents/
arules_1.0-7.tar.gz' had non-zero exit status
Why would installing from source make any difference? Prof Ripley
suggested I use arules for R.13.0, which I would if I could find
it.
Has anyone got any advice?
Thank you,
Thomas
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David Winsemius, MD
West Hartford, CT
David Winsemius, MD
West Hartford, CT
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