[BioC] sva package

[Kasper Daniel Hansen]

My impression is that the author is considering putting it on
Bioconductor.  Any additional pressure (besides me) might expedite the
process; I highly recommend bugging him about it.

Kasper

On Tue, Nov 23, 2010 at 8:08 AM, Sean Davis <sdavis2 at mail.nih.gov> wrote:
> On Tue, Nov 23, 2010 at 7:55 AM, S T <elengss at gmail.com> wrote:
>
>> Dear Sean,
>>
>> Thanks very much.
>> I downloaded from there and installed it.
>> However, the error message states
>>
>> > utils:::menuInstallLocal()
>> package 'sva' successfully unpacked and MD5 sums checked
>> > library(sva)
>> Error: package 'sva' was built before R 2.10.0: please re-install it
>>
>>
> You could ask the author to build the package for another version of R or
> you could install from source.  In any case, it is probably best to contact
> the author directly, as he may have thought of these situations already.
>
> Sean
>
>
>
>> Does this mean that I would have to use it on an older version of R (I'm
>> currently using 2.11)?
>>
>> Thanks again.
>>
>> E.N.S
>>
>> On Tue, Nov 23, 2010 at 8:38 PM, Sean Davis <sdavis2 at mail.nih.gov> wrote:
>>
>>>
>>>
>>> On Tue, Nov 23, 2010 at 7:07 AM, S T <elengss at gmail.com> wrote:
>>>
>>>> Dear users,
>>>>
>>>> I am having some trouble installing the SVA package for surrogate
>>>> variable
>>>> analysis
>>>>
>>>> > source("http://bioconductor.org/biocLite.R")
>>>> BioC_mirror = http://www.bioconductor.org
>>>> Change using chooseBioCmirror().
>>>> > biocLite("sva")
>>>> Using R version 2.11.1, biocinstall version 2.6.9.
>>>> Installing Bioconductor version 2.6 packages:
>>>> [1] "sva"
>>>> Please wait...
>>>>
>>>> Warning message:
>>>> In getDependencies(pkgs, dependencies, available, lib) :
>>>>  package ‘sva’ is not available
>>>>
>>>> Can anyone help?
>>>>
>>>>
>>> I do not think that sva is a bioconductor package and it is not available
>>> via CRAN.  Therefore, biocLite() won't find it.  The URL appears to be:
>>>
>>> http://www.biostat.jhsph.edu/~jleek/sva/index.html
>>>
>>> Sean
>>>
>>>
>>>> Thanks very much.
>>>>
>>>> E.N.S
>>>>
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>>>>
>>>>
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>>>
>>>
>>
>
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>
>
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