[BioC] Problem with Installing affylmGUI on MAC OS X

[James MacDonald]

Hi Rich,

I think there is a binary version available, but it looks like the link
is broken. Since it is now Saturday in Oz I think you may be out of luck
unless Gordon Smyth or James Wettenhall happen to be working this
weekend.

I don't use MacOS, but from reading the lists, it appears all you have
to do is install the Developer tools and then you can install using R
CMD INSTALL just like on other *nix boxes. Might be worth it to try that
route.

Best,

Jim



>>> Richard Friedman <friedman at cancercenter.columbia.edu> 7/8/2005
2:21:20 PM >>>
Dear Jim and Everybody,

	As best I can see the version of affylmGU that I just downloaded
is in 
source rather
than binary form.
	 Am I correct in this?
	If  so, is a binary version for Mac OS X available?

Thanks and best wishes,
Rich

On Jul 8, 2005, at 12:29 PM, James W. MacDonald wrote:

> Richard Friedman wrote:
>> Dear Bioconductoir List,
>> 	I am having a problem installing affylmGUI in R 1.11 for Mac OSX
(R  
>> Framework 2.1)
>> under mac OS X Version 10.3.9.
>>  > .libPaths()
>> [1] "/Library/Frameworks/R.framework/Resources/library"
>>  >  
>> install.packages("affylmGUI",contriburl="http://bioinf.wehi.edu.au/

>> affylmGUI",
lib="/Library/Frameworks/R.framework/Resources/library")
>> trying URL
'http://bioinf.wehi.edu.au/affylmGUI/affylmGUI_1.3.1.tgz'
>> Error in download.file(url, destfile, method, mode = "wb") :
>> 	cannot open URL  
>> 'http://bioinf.wehi.edu.au/affylmGUI/affylmGUI_1.3.1.tgz'
>> In addition: Warning message:
>> cannot open: HTTP status was '404 Not Found'
>
> This error is probably due to the fact that the correct url is
>
> http://bioinf.wehi.edu.au/affylmGUI/affylmGUI_1.3.1.tar.gz 
>
> Note that it is a .tar.gz, not .tgz file. I have no idea how to fix 
> this from within R, but you could always download by hand and
install.
>
> HTH,
>
> Jim
>
>
>>  >
>> Does this error message mean that the problem is with the
remote-site 
>>  or with my configuration?
>> here is what happens when I try the install.packages pulldown:
>> trying URL 'http://www.bioconductor.org/bin/macosx/2.1/PACKAGES'
>> Content type 'text/plain; charset=ISO-8859-1' length 11959 bytes
>> opened URL
>> ==================================================
>> downloaded 11Kb
>> I would appreciate any suggestions.
>> Thanksand best wishes,
>> Rich
>> ------------------------------------------------------------
>> Richard A. Friedman, PhD
>> Associate Research Scientist
>> Herbert Irving Comprehensive Cancer Center
>> Oncoinformatics Core
>> Lecturer
>> Department of Biomedical Informatics
>> Box 95, Room 130BB or P&S 1-420C
>> Columbia University Medical Center
>> 630 W. 168th St.
>> New York, NY 10032
>> (212)305-6901 (5-6901) (voice)
>> friedman at cancercenter.columbia.edu 
>> http://cancercenter.columbia.edu/~friedman/ 
>> " I know what is going to happen next in 'Middlemarch'.
>> Mr. Featherstone left Fred his money,
>> and the lady who wants his money is going to tell everybody
>> that Fred gambles and it is going to be in all the papers in  
>> Middlemarch."
>> Rose Friedman, age 8
>> _______________________________________________
>> Bioconductor mailing list
>> Bioconductor at stat.math.ethz.ch 
>> https://stat.ethz.ch/mailman/listinfo/bioconductor 
>
>
> -- 
> James W. MacDonald
> Affymetrix and cDNA Microarray Core
> University of Michigan Cancer Center
> 1500 E. Medical Center Drive
> 7410 CCGC
> Ann Arbor MI 48109
> 734-647-5623
>
------------------------------------------------------------
Richard A. Friedman, PhD
Associate Research Scientist
Herbert Irving Comprehensive Cancer Center
Oncoinformatics Core
Lecturer
Department of Biomedical Informatics
Box 95, Room 130BB or P&S 1-420C
Columbia University Medical Center
630 W. 168th St.
New York, NY 10032
(212)305-6901 (5-6901) (voice)
friedman at cancercenter.columbia.edu 
http://cancercenter.columbia.edu/~friedman/ 

" I know what is going to happen next in 'Middlemarch'.
Mr. Featherstone left Fred his money,
and the lady who wants his money is going to tell everybody
that Fred gambles and it is going to be in all the papers in 
Middlemarch."
Rose Friedman, age 8



**********************************************************
Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.