[Bioc-devel] MafDb.ExAC.r0.3.sites missing from build

[Robert Castelo]

oops, how embarrassing :*} thanks Dan, just did it.

On 4/10/15 11:35 PM, Dan Tenenbaum wrote:
> Robert, you just need to put MafDb.ExAC.r0.3.sites in Depends, Suggests, or Imports.
>
> Dan
>
>
> ----- Original Message -----
>> From: "Robert Castelo" <robert.castelo at upf.edu>
>> To: bioc-devel at r-project.org
>> Sent: Friday, April 10, 2015 2:33:04 PM
>> Subject: [Bioc-devel] MafDb.ExAC.r0.3.sites missing from build
>>
>> hi,
>>
>> i have just noticed that VariantFiltering breaks in the last build:
>>
>> http://www.bioconductor.org/checkResults/3.1/bioc-LATEST/VariantFiltering/zin2-buildsrc.html
>>
>> and the reason is that the devel annotation package
>>
>> http://www.bioconductor.org/packages/devel/data/annotation/html/MafDb.ExAC.r0.3.sites.html
>>
>> seems not to be available on the build system during the vignette
>> execution.
>>
>> it's strange b/c its landing page shows that the package is there and
>> other MafDb annotation packages are loaded by VariantFiltering during
>> the vignette execution without problems.
>>
>> just to ensure that this is solved for the release/NEWS deadline let
>> me
>> know if you think this is something that can be fixed on the build
>> machine or you prefer that i update VariantFiltering so that it does
>> not
>> attempt to load this package during the vignette execution, and we
>> sort
>> out the problem after the release.
>>
>> thanks!!
>>
>> robert.
>>
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