[Bioc-devel] annotate missing from devel

[Marc Carlson]

Hi Jim,

I was planning to write a short vignette to replace the broken 
hsahomology one (since we have previously deprecated that).  I was going 
to replace it with one that demonstrates how you can use the newer 
inparanoid packages.  I just have not had time to do it yet.  Please let 
me know if you have this tackled already, but if not it is already on my 
"to do " list.  In the meantime, dropping the broken vignette that 
describes a defunct package seems like a step in the right direction.


    Marc




James W. MacDonald wrote:
> Hi Herve,
>
> Herve Pages wrote:
>> Hi Kasper,
>>
>> Kasper Daniel Hansen wrote:
>>> The checks seems fine but I cannot obtain it with biocLite under 2.8.0
>>
>> The "orange" builds (i.e. the builds for R-2.7/BioC-2.2) look fine 
>> for annotate:
>>
>>   
>> http://bioconductor.org/checkResults/2.2/bioc-LATEST/annotate/lamb1-buildsrc.html 
>>
>>
>> but not the "aquarium" builds (i.e. the builds for R-2.8/BioC-2.3):
>>
>>   
>> http://bioconductor.org/checkResults/2.3/bioc-LATEST/annotate/wilson1-buildsrc.html 
>>
>>
>> Therefore annotate will not be pushed to the BioC 2.3 public repo 
>> until someone
>> fixes its vignette.
>
> Unfortunately that vignette is unfixable - it is based on the old 
> Homologene/env packages, so will need to be almost completely 
> rewritten to use the new InParanoid/SQLite packages.
>
> I should be able to replace it with something reasonable either this 
> week or the next. In the meantime I will just rename it so it won't 
> interfere with the build.
>
> Best,
>
> Jim
>
>
>>
>> Cheers,
>> H.
>>
>> PS: The general page for all our builds is:
>>
>>   http://bioconductor.org/checkResults/
>>
>>
>>>
>>> Kasper
>>>
>>> _______________________________________________
>>> Bioc-devel at stat.math.ethz.ch mailing list
>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>>
>> _______________________________________________
>> Bioc-devel at stat.math.ethz.ch mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>