"Di Wu" <dxw51 at="" po.cwru.edu=""> writes:
> Dear list,
>
> I have used bioconductor for several years. Recently, I moved to a
new job
> and wanted to install R and bioconductor in my new office pc. But I
failed
> to install bioconductor. R works well.
>
> Could you help me out? Or give some suggestion?
You need to tell R how to access the internet using the web proxy used
at your institution.
You can read the man page for download.file and/or search the R-help
and bioconductor mailing lists as this is a common issue.
Perhaps someone who has recently solved this can chime in with a
summary of the solution that worked for them.
+ seth
I guess you are using R. Start it using the --internet2 option. See
more details in the R FAQ (perhaps the R for Windows FAQ). You may
have to look at the ?download help page.
/Kasper
On Jul 12, 2006, at 7:09 PM, Seth Falcon wrote:
> "Di Wu" <dxw51 at="" po.cwru.edu=""> writes:
>
>> Dear list,
>>
>> I have used bioconductor for several years. Recently, I moved to a
>> new job
>> and wanted to install R and bioconductor in my new office pc. But
>> I failed
>> to install bioconductor. R works well.
>>
>> Could you help me out? Or give some suggestion?
>
> You need to tell R how to access the internet using the web proxy
used
> at your institution.
>
> You can read the man page for download.file and/or search the R-help
> and bioconductor mailing lists as this is a common issue.
>
> Perhaps someone who has recently solved this can chime in with a
> summary of the solution that worked for them.
>
> + seth
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/
> gmane.science.biology.informatics.conductor
Hi Di Wu,
Right click on your R icon and go to the properties tab. You should
see
the file path written in the "target" box. Add
--internet2
to the end of the filepath (this goes after the quotation marks and
don't
forget the 'space' before --internet2).
Cheers,
Amy
----------------------------------------------------------------------
-----
Dear list,
I have used bioconductor for several years. Recently, I moved to a new
job
and wanted to install R and bioconductor in my new office pc. But I
failed
to install bioconductor. R works well.
Could you help me out? Or give some suggestion?
I use Dell (normal) PC. Our institute uses Novell Network. I use IE
and
Firefox both.
The following is what I got:
> source("http://www.bioconductor.org/biocLite.R")
Error in file(file, "r", encoding = encoding) :
unable to open connection
In addition: Warning message:
unable to connect to 'www.bioconductor.org' on port 80.
> utils:::menuInstallPkgs()
--- Please select a CRAN mirror for use in this session ---
Error in open.connection(file, "r") : unable to open connection
In addition: Warning message:
unable to connect to 'cran.r-project.org' on port 80.
Warning: unable to access index for repository
http://cran.ms.unimelb.edu.au/bin/windows/contrib/2.3
Warning: unable to access index for repository
http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.3
Error in install.packages(NULL, .libPaths()[1], dependencies = TRUE,
type =
type) :
no packages were specified
>
It seems there is problem to access internet. But I know my internet
wokrs
well, but it requires to log in each time when you open a new IE, not
need
to log in for Firefox.
Thanks,
Yours Di Wu
-------------------------------------------
Amy Mikhail
Research student
University of Aberdeen
Zoology Building
Tillydrone Avenue
Aberdeen AB24 2TZ
Scotland
Email: a.mikhail at abdn.ac.uk
Phone: 00-44-1224-272880 (lab)
00-44-1224-273256 (office)
