[BioC] selfmade annnotation package

[James MacDonald]

To build binaries you use

R CMD INSTALL --build

which will result in a binary package in your R_HOME/bin directory, as
well as the package being installed.

Best,

Jim



James W. MacDonald, M.S.
Biostatistician
Douglas Lab
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826
>>> Mayra Eduardoff <mayra.eduardoff at gmail.com> 08/05/09 4:19 AM >>>
Ok, this might be really obvious, but I finally managed.
I am using R on Windows at the moment, so I had to download the Rtools
from
http://www.murdoch-sutherland.com/Rtools/Rtools.txt so that i can
compile
and install tar.gz packages.
then I compiled the .db and installed it using R CMD INSTALL.
I still don t know how to compile windows binaries... but well it works
this
way.
thanks again for your help !
kind regards
mayra


On Tue, Aug 4, 2009 at 6:59 PM, Sean Davis <seandavi at gmail.com> wrote:

>
>
> On Tue, Aug 4, 2009 at 12:55 PM, Mayra Eduardoff <
> mayra.eduardoff at gmail.com> wrote:
>
>> I ve read the help and tried before and it is not working...
>>
>> the db is in my working directoy
>>
>> install.packages("zfv2.db", pkgs="zfv2.db",repos=NULL)
>>
>
> install.packages(pkgs="zfv2.db.tar.gz",repos=NULL)
>
> You will need to tar and compress the package directory, I think.
>
> Sean
>
>
>
>>
>> get a german error message, so I guess that won't help
>>
>> Fehler in if (ok) { : Fehlender Wert, wo TRUE/FALSE nötig ist
>>
>>
>>
>>
>> On Tue, Aug 4, 2009 at 6:44 PM, Sean Davis <seandavi at gmail.com>
wrote:
>>
>>>
>>>
>>> On Tue, Aug 4, 2009 at 12:34 PM, Mayra Eduardoff <
>>> mayra.eduardoff at gmail.com> wrote:
>>>
>>>> thanks for the quick answer, yes, but how do I install it ?
>>>> install.package ? but what is my repos ? I don t have a binary file
or
>>>> do I ?  I just don t get it ....
>>>>
>>>
>>> doing ?install.packages will get you help for install.packages().
>>>
>>> However, install.packages() with repos=NULL and the file path of the
>>> package should do it.  It is probably not a binary package.
>>>
>>> Sean
>>>
>>>
>>>
>>>>
>>>>
>>>>
>>>> On Tue, Aug 4, 2009 at 6:17 PM, Sean Davis <seandavi at gmail.com>
wrote:
>>>>
>>>>>
>>>>>
>>>>> On Tue, Aug 4, 2009 at 12:11 PM, Mayra Eduardoff <
>>>>> mayra.eduardoff at gmail.com> wrote:
>>>>>
>>>>>> Dear all,
>>>>>> this might be a really, really stupid question, but I can't
figure it
>>>>>> out.
>>>>>> I have created an annotation.db for an agilent one color 4x44K
>>>>>> zebrafish
>>>>>> array, but I can't figure out how to load it into R afterwards.
Can
>>>>>> anyone
>>>>>> help ?
>>>>>>
>>>>>
>>>>> You need to "install" it, first.  Then, you can load it.
>>>>>
>>>>> Sean
>>>>>
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Mayra Eduardoff
>>>> Institute of Molecular Biology
>>>> University of Innsbruck
>>>> Viktor-Franz Hess Haus
>>>> Technikerstrasse 25
>>>> 6020 Innsbruck
>>>> Tel: +43 512 507 6286
>>>> email: mayra.eduardoff at student.uibk.ac.at
>>>>
>>>>
>>>
>>
>>
>> --
>> Mayra Eduardoff
>> Institute of Molecular Biology
>> University of Innsbruck
>> Viktor-Franz Hess Haus
>> Technikerstrasse 25
>> 6020 Innsbruck
>> Tel: +43 512 507 6286
>> email: mayra.eduardoff at student.uibk.ac.at
>>
>>
>


-- 
Mayra Eduardoff
Institute of Molecular Biology
University of Innsbruck
Viktor-Franz Hess Haus
Technikerstrasse 25
6020 Innsbruck
Tel: +43 512 507 6286
email: mayra.eduardoff at student.uibk.ac.at

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