[Bioc-devel] "'BiocInstaller' package not in repository" error during nightly build

From: "Robert Castelo" <robert.castelo at upf.edu>
To: "Kevin Rue-Albrecht" <kevin.rue at ucdconnect.ie>
Cc: bioc-devel at r-project.org
Sent: Thursday, October 16, 2014 3:24:32 AM
Subject: Re: [Bioc-devel] "'BiocInstaller' package not in repository" error during nightly build

hi Kevin,

if you're talking about the devel version of BiocInstaller, the SVN
logs
show a commit yesterday with some correction on the BiocInstaller
package, just svn the last version if you don't want to wait until
the
newer version gets built:

vn export --username readonly --password readonly
https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/BiocInstaller
BiocInstaller

and R CMD build and INSTALL this newer version (1.17.1).

cheers,

robert.

On 10/16/2014 11:45 AM, Kevin Rue-Albrecht wrote:

Hi Bioconductors,

I got the *BUILD* ERROR report below on all platforms last night.

Given the fact that I didn't update my package since the last
(successful)
build, and the error ''BiocInstaller' package not in repository'',
 I have
a feeling this is due to a problem on the build platforms ?
In which case, I wonder how many other packages may be affected the
same
way. Most of the packages seem fine though.

I can see that the BiocInstaller package got *CHECK* ERROR on all
platforms
in the most recent report. Could that be the origin of the problem?
In my vignette, I give the typical installation code
"biocLite(GOexpress)"
which likely caused the build error when trying to load the
BiocInstaller
library.

Thanks in advance for advising me

Kind regards,
Kevin


##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD build
--keep-empty-dirs
--no-resave-data GOexpress
###
##############################################################################
##############################################################################


* checking for file ?GOexpress/DESCRIPTION? ... OK
* preparing ?GOexpress?:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Bioconductor version 3.1 (BiocInstaller 1.17.0), ?biocLite for help

Error: processing vignette 'GOexpress-UsersGuide.Rnw' failed with
diagnostics:
  chunk 2
Error : ''BiocInstaller' package not in repository' while trying
   http://bioconductor.org/packages/3.1/bioc
Execution halted

--
Robert Castelo, PhD
Associate Professor
Dept. of Experimental and Health Sciences
Universitat Pompeu Fabra (UPF)
Barcelona Biomedical Research Park (PRBB)
Dr Aiguader 88
E-08003 Barcelona, Spain
telf: +34.933.160.514
fax: +34.933.160.550