[Bioc-devel] Package "not supported" on some platforms, and dependent packages

[Obenchain, Valerie]

Just fyi, as stated in the NEWS, ensemblVEP >= 1.12.0 is not supported
on windows because the Ensembl VEP tool >= 84 requires tabix.

Valerie


On 10/18/2016 04:01 PM, Kevin RUE wrote:
> Arrrrgh, I could have looked better in the Git mirror code ;)
>
> Anyway, thanks a lot for the tip!
>
> No worries about removing the file if the parent package gets supported.
> However, I've never tried to run the VEP script on Windows, which I expect
> is pre-requisite for the package building successfully there. Might not be
> that easy. Anyway, future will tell, and I'll keep an eye out for it!
>
> Cheers
> Kevin
>
>
> On Tue, Oct 18, 2016 at 11:44 PM, Dan Tenenbaum <dtenenba at fredhutch.org>
> wrote:
>
>>
>> ----- Original Message -----
>>> From: "Kevin RUE" <kevinrue67 at gmail.com>
>>> To: "bioc-devel" <bioc-devel at r-project.org>
>>> Sent: Tuesday, October 18, 2016 3:28:23 PM
>>> Subject: [Bioc-devel] Package "not supported" on some platforms,
>> and dependent packages
>>
>>> Hi all,
>>>
>>> Heartless logic works as follows:
>>>
>>>   - ensemblVEP is "not supported" on Windows (build report
>>>   <http://bioconductor.org/checkResults/devel/bioc-LATEST/ensemblVEP/>).
>>>   Completely understandable.
>>>   - My package depends on ensemblVEP.
>>>   - The build system reports an error on Windows for my package
>>> because "dependency
>>>   'ensemblVEP' is not available for package 'TVTB'" (build report
>>>   <http://bioconductor.org/checkResults/devel/bioc-
>> LATEST/TVTB/tokay2-buildsrc.html>
>>>   )
>>>   - As a result, the landing page for my package reports "build error" (
>>>   page <https://www.bioconductor.org/packages/release/bioc/html/
>> TVTB.html>)
>>> I was hoping to benefit of the same treatment as the ensemblVEP package,
>>> that is, skipping the nightly build on the Windows machine, to get the
>> nice
>>> green light "build OK" on the landing page.
>>>
>>> I suppose this is something to control in the build system, right? Or do
>> I
>>> have to put any kind of keyword in one of my package files?
>>> Thanks!
>>>
>> The build system is heartless. ;)
>> ensemblVEP is marked as unsupported on Windows by virtue of a .BBSoptions
>> file in the top level (at the same level as DESCRIPTION) containing one
>> line:
>>
>> UnsupportedPlatforms: win
>>
>> If you add that to your package it will stop building (and failing) on
>> windows.
>>
>> If ensemblVEP is ever again supported on windows (I don't know if this is
>> planned) you'll need to remove that file.
>>
>> Dan
>>
>>
>>> All the best,
>>> Kevin
>>>
>>>       [[alternative HTML version deleted]]
>>>
>>> _______________________________________________
>>> Bioc-devel at r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> 	[[alternative HTML version deleted]]
>
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