[BioC] Cannot install Bioconductor 1.6 Binaries from within R 2.1.0a on Mac OS X 10.4

[Chris Kirchberg]

When I go to Packages & Data, select Package Installer, then choose  
BioConductor (binaries), then click on Get List.
The list is blank.

Here is the output from the R console when I do this:

trying URL 'http://www.bioconductor.org/bin/macosx/2.1/PACKAGES'
Content type 'text/plain; charset=ISO-8859-1' length 15 bytes
opened URL
==================================================
downloaded 15 bytes

Here is the Session Info:

 > sessionInfo()
R version 2.1.0, 2005-05-12, powerpc-apple-darwin7.9.0

attached base packages:
[1] "methods"   "stats"     "graphics"  "grDevices" "utils"      
"datasets"  "base"
 >

When I select BioConductor (sources), I get a full list, but I am  
unable to install them,

Output of R console when I try this option:

 >

Packages are shown, but when I select one and chose install selected,  
nothing happens.

I have also tried:

source("http://www.bioconductor.org/getBioC.R")
this will download the getBioC functionality into your R session.
To install Bioconductor packages, use the function "getBioC" as  
follows. To download and install the default packages, type:
getBioC()

I get this output on the console:
 > getBioC()

Running getBioC version 0.2  with R version  2.1.0
http://www.bioconductor.org/scripts/2.1/biocinstall.R
Running biocinstall version 0.9  with R version  2.1.0
Warning message:
cannot open: HTTP status was '404 Not Found'
Warning: unable to access index for repository http:// 
www.bioconductor.org/packages/bioc/stable/bin/macosx/2.1
Warning message:
cannot open: HTTP status was '404 Not Found'
Warning: unable to access index for repository http:// 
www.bioconductor.org/packages/bioc/stable/bin/macosx/2.1
Warning message:
cannot open: HTTP status was '404 Not Found'
Warning: unable to access index for repository http:// 
www.bioconductor.org/packages/data/annotation/stable/bin/macosx/2.1
Warning message:
cannot open: HTTP status was '404 Not Found'
Warning: unable to access index for repository http:// 
www.bioconductor.org/packages/data/experiment/stable/bin/macosx/2.1
Warning message:
cannot open: HTTP status was '404 Not Found'
Warning: unable to access index for repository http:// 
www.bioconductor.org/packages/omegahat/stable/bin/macosx/2.1
Warning message:
cannot open: HTTP status was '404 Not Found'
Warning: unable to access index for repository http:// 
www.bioconductor.org/packages/lindsey/stable/bin/macosx/2.1
dependencies ‘affy’ are not availabledependencies ‘affydata’ are not  
availabledependencies ‘affyPLM’ are not availabledependencies  
‘annaffy’ are not availabledependencies ‘annotate’ are not  
availabledependencies ‘Biobase’ are not availabledependencies  
‘Biostrings’ are not availabledependencies ‘DynDoc’ are not  
availabledependencies ‘edd’ are not availabledependencies ‘gcrma’ are  
not availabledependencies ‘genefilter’ are not availabledependencies  
‘geneplotter’ are not availabledependencies ‘hgu95av2’ are not  
availabledependencies ‘makecdfenv’ are not availabledependencies  
‘marray’ are not availabledependencies ‘matchprobes’ are not  
availabledependencies ‘multtest’ are not availabledependencies  
‘reposTools’ are not availabledependencies ‘ROC’ are not  
availabledependencies ‘siggenes’ are not availabledependencies  
‘tkWidgets’ are not availabledependencies ‘vsn’ are not  
availabledependencies ‘widgetTools’ are not available

dependency ‘NA’ is not available

trying URL 'http://cran.fhcrc.org/bin/macosx/2.1/limma_1.9.3.tgz'
Content type 'application/x-gzip' length 937214 bytes
opened URL
==================================================
downloaded 915Kb

trying URL 'http://cran.fhcrc.org/bin/macosx/2.1/pamr_1.25.tgz'
Content type 'application/x-gzip' length 1272079 bytes
opened URL
==================================================
downloaded 1242Kb

trying URL 'http://cran.fhcrc.org/bin/macosx/2.1/sma_0.5.14.tgz'
Content type 'application/x-gzip' length 3178148 bytes
opened URL
==================================================
downloaded 3103Kb

trying URL 'http://cran.fhcrc.org/bin/macosx/2.1/statmod_1.1.0.tgz'
Content type 'application/x-gzip' length 79240 bytes
opened URL
==================================================
downloaded 77Kb

trying URL 'http://cran.fhcrc.org/bin/macosx/2.1/xtable_1.2-5.tgz'
Content type 'application/x-gzip' length 24732 bytes
opened URL
==================================================
downloaded 24Kb


The downloaded packages are in
     /tmp/RtmpyzP9yx/downloaded_packages
 >


Packages are being installed at System Level (in R Framework) which  
is the default setting.

Any clues as to what is happening?

Chris Kirchberg
2848 Roslyn St., Unit 6
Denver, CO 80238
phone: 1.303.399.1768
mobile: 1.303.618.5545
cjkirchberg at gmail.com