and you  will of course be able to load them again next time you start a
session without having to re-install them

I see this now

The first part of my question was that my R session is not being saved
because I am not

2011/2/28 Hervé Pagès <hpages@fhcrc.org>

> Hi Pete,
>
>
> On 02/28/2011 03:34 PM, rna seq wrote:
>
>> Hi Sean,
>>
>> Thanks for getting back. There are two questions, the first I will direct
>> towards the rpy list as you suggest. But the second is that as you say
>> these
>> packages are loaded using "library", but once I log off a session, the
>> packages that are loaded are lost once a session is over. I am trying to
>> save these packages because some such as "BSgenome.Hsapiens.UCSC.hg19" are
>> rather large.
>>
>
> What do you mean by "saving" a package? As Sean already explained,
> packages are "installed" into R and then loaded in a session
> using "library". When you quit the session, the loaded packages
> are not "lost" (did you mean "deleted from the disk"?) and you
> will of course be able to load them again next time you start a
> session without having to re-install them. So you don't need to "save"
> any package before you quit the session. There is no such mechanism
> because it's not needed.
>
> Cheers,
>
> H.
>
>
>> Pete
>>
>> On Mon, Feb 28, 2011 at 2:41 PM, Sean Davis<sdavis2@mail.nih.gov>  wrote:
>>
>>
>>>
>>> On Mon, Feb 28, 2011 at 3:48 PM, rna seq<rna.seeker@gmail.com>  wrote:
>>>
>>>  Dear R,
>>>>
>>>> Using Ubuntu 10.04 OS and R 2.10, I am running R through python using
>>>> "rpy".
>>>>
>>>>
>>> Hi, Peter.
>>>
>>> This isn't really on-topic for the bioconductor list.  I would encourage
>>> you to use the rpy support mechanisms for further details.
>>>
>>>
>>>  I have noticed thatmy sessions are not saved and I am wondering if there
>>>> is
>>>> a way to do this.
>>>>
>>>
>>>
>>> You would need to save them.  See save().
>>>
>>>
>>>  Also and more importantly. Is there a way to direct R to
>>>> save downloaded packages in a specific file that will be recognized when
>>>> the
>>>> "saved" session is restored?
>>>>
>>>>
>>> I'm not sure what you mean here.  Packages are "installed" into R and
>>> then
>>> loaded using "library".  Simply having a downloaded package in a file
>>> will
>>> not allow you to use it in R--it must be installed.
>>>
>>> Sean
>>>
>>>
>>>
>>        [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioconductor mailing list
>> Bioconductor@r-project.org
>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>> Search the archives:
>> http://news.gmane.org/gmane.science.biology.informatics.conductor
>>
>
>
> --
> Hervé Pagès
>
> Program in Computational Biology
> Division of Public Health Sciences
> Fred Hutchinson Cancer Research Center
> 1100 Fairview Ave. N, M2-B876
> P.O. Box 19024
> Seattle, WA 98109-1024
>
> E-mail: hpages@fhcrc.org
> Phone:  (206) 667-5791
> Fax:    (206) 667-1319
>
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
>

	[[alternative HTML version deleted]]

