[Bioc-devel] Vignettes location in BiocCheck vs R CMD check

[Armen Abnousi]

Thanks! I ended up putting the references in the YAML rather than as a
separate bib file.

On Mon, Jan 29, 2018 at 5:27 PM, Kasper Daniel Hansen <
kasperdanielhansen at gmail.com> wrote:

> Put the bib file in /vignettes.  Perhaps see a couple of packages for
> examples, including how to use BiocStyle
>
> On Mon, Jan 29, 2018 at 3:26 PM, Armen Abnousi <a.abnousi at gmail.com>
> wrote:
>
>> Thanks for your answers, that helped but now there is another issue. The
>> vignette in vignettes/ directory is referring to a bib file for
>> references.
>> The bib file is in the inst/ directory (so I have used
>> ../inst/REFERENCES.bib) to point to it. I don't get any warnings on my
>> Linux computer when running check and BiocCheck. But when I submit the
>> package it builds on Mac OS with no errors but on Linux it gives the error
>>
>> Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck =
>> vI[[i]]) :
>>   there is no package called bibtex
>>
>> Is this related to my referencing to the bib file? How could I solve this
>> issue. I appreciate your help.
>>
>> Thanks!
>>
>> On Mon, Jan 29, 2018 at 11:49 AM, Diego Morais <arthur.vinx at gmail.com>
>> wrote:
>>
>> > Hello, Armen.
>> >
>> > Your vignettes should be located in <packagename> / vignettes. The
>> > vignette will be built automatically later.
>> >
>> > 2018-01-29 16:41 GMT-03:00 Armen Abnousi <a.abnousi at gmail.com>:
>> >
>> >> Hi,
>> >>
>> >> I'm trying to submit my first package. but I'm confused about the
>> location
>> >> of the vignettes in my submitted package. It seems like BiocCheck is
>> >> expecting the vignettes to go in <packagename>/vignettes directory but
>> R
>> >> 3.2+ expects them to go in <packagename>/inst/doc directory. Wherever I
>> >> put
>> >> them, one of the checks complains about their location. Can't put them
>> in
>> >> both directories either.
>> >>
>> >> Thanks,
>> >> Armen
>> >>
>> >>         [[alternative HTML version deleted]]
>> >>
>> >> _______________________________________________
>> >> Bioc-devel at r-project.org mailing list
>> >> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>> >>
>> >
>> >
>> >
>> > --
>> > Atenciosamente,
>> > Diego Arthur de Azevedo Morais
>> >
>>
>>         [[alternative HTML version deleted]]
>>
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>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>>
>
>

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