[BioC] Problems installing v 1.2

[Christopher Wilkinson]

Hi

I've just installed R and have now tried to install bioconductor but have run 
into several problems

I've tried the suggested script (getBioC) but this appears to be failing.

Firstly, I'm behind a firewall so have to use password based proxy. I managed 
to work this out (perhaps a link to the manual pages on how to setup a proxy 
might not go astray here).

I try running the script, it installs the repostools and then appears to hang.
It sits at the 
"synching local package management info" stage and doesn't appear to do 
anything.  

I've tried a few times, but always end up doing a Control-C and aborting.
I've taken the alternate approach of downloading the Bioconductor_1.2.tar.gz 
file to try a manual install (R INSTALL Bioconductor_1.2.tar.gz)

This appears to work better, until I get to the rhdf5 package where it fails 
with an
configure: error: please specify a valid hdf5 installation with --with-hdf5=DIR
ERROR: configure failed for package rhdf5

and I can get no further (no option to skip)

I then tried manually installing rhdf5 manually but same error, and even tried 
hdf5 package but no success.

So any suggestions on ways around this.  I'm intending to unzip everything and 
see if I can hack a version minus the rhdf5 package.

Cheers
Chris


Dr Chris Wilkinson

Research Officer (Bioinformatics)        | Visiting Research Fellow
Child Health Research Institute (CHRI)   | Microarray Analysis Group
7th floor, Clarence Rieger Building      | Room 121
Women's and Children's Hospital          | School of Applied Mathematics
72 King William Rd, North Adelaide, 5006 | The University of Adelaide, 5005

Math's Office (Room 121)        Ph: 8303 3714
CHRI   Office (2nd floor)       Ph: 8161 6729

Christopher.Wilkinson at adelaide.edu.au