[BioC] old version of affy package 1.5.8

[Patrick Aboyoun]

I just added anonymous read-only svn access to versions BioC 1.5, 1.4, 
and 1.0.

https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_5/madman/Rpacks
https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_4/madman/Rpacks
https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_4_branch/madman/Rpacks
https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_0/madman/Rpacks
https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_0_branch/madman/Rpacks

I will check into the bioconductor.org repositories now and send out a 
follow up e-mail with my findings.


Patrick


Wolfgang Huber wrote:
>
>
> Dear Leonor
>
> 1.) You are right, it seems that 
> https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_5/madman/Rpacks 
>
> is indeed not setup for anonymous access. Nishant: Is this something 
> you would consider?
>
> 2.) As a workaround, try
>
> svn co --username readonly --password readonly -r 10419 
> https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks
>
> (in one line). This brings you to the state of the archive "trunk" 
> around 1 Nov 2004, when  Bioc 1.5 was released.
>
>
> Best wishes
>      Wolfgang
>
> ----------------------------------------------------
> Wolfgang Huber, EMBL-EBI, http://www.ebi.ac.uk/huber
>
>
>
> Leonor Palmeira wrote:
>> [back in thread]
>>
>> Leonor Palmeira a écrit :
>>  > Hi Leonor,
>>
>> [...]
>>
>>  > Actually yes. Nothing ever goes away.
>>
>> I was crossing fingers for that! However, the 'readonly' user and 
>> 'readonly' password don't seem to work (403 forbidden access) to 
>> access the svn depository. So, I couldn't explore this possibility.
>>
>> I also tried installing R.2.0.0 and running biocLite() from within 
>> this old R. But, when calling "http://bioconductor.org/biocLite.R", R 
>> calls for "http://bioconductor.org/biocLite.R" which explicitely 
>> checks for the R version and returns an error (R version should be 
>> above R.2.1.0).
>>
>> When taking a look at the biocLite.R script, this line caught my eye:
>>
>> ## R versions less than 2.1.0 need to use the old (BioC 1.5) version 
>> of getBioC.R
>>
>> but I have no idea where to get the old version of getBioC.R.
>> Does someone know how I could get help on this?
>>
>> Thank you very much,
>> Leonor.
>>
>>  > And if I am not mistaken, you can
>>  > get this for yourself. All you need is a subversion client, which you
>>  > can get here if you aren't on Linux (if you are on Linux it is 
>> easier to
>>  > install using whatever package manager your distro uses):
>>  >
>>  > http://subversion.tigris.org/
>>  >
>>  > Then you can get any of the packages from release 1.5 here:
>>  >
>>  > 
>> https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_5/madman/Rpacks 
>>
>>  >
>>  > e.g.,
>>  >
>>  > svn co
>>  > 
>> https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_1_5/madman/Rpacks/affy 
>>
>>  >
>>  > will get you the affy sources. You want to use the username 
>> readonly and
>>  > password readonly, which I think should work.
>>  >
>>  > You will probably need to get other packages as well, depending on 
>> what
>>  > the dependencies were for affy at that time. In addition, you will 
>> need
>>  > to get R-2.0.0, as there is no guarantee that an old affy will run on
>>  > current R.
>>  >
>>  > You might also just try installing R-2.0.0 and running biocLite(). It
>>  > might actually work.
>>  >
>>  > Best,
>>  >
>>  > Jim
>>
>
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