[Bioc-devel] Package Without a Vignette

[Zhilong Jia]

Hi,

I just found no vignette for my updated package cogena
<http://bioconductor.org/packages/3.3/bioc/html/cogena.html> (1.5.2),
though there are vignettes  in the code. And the check CMD is
/home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings
cogena_1.5.2.tar.gz in
http://bioconductor.org/checkResults/3.3/bioc-LATEST/cogena/zin2-checksrc.html

And the similar section is here:

vignette: >
  %\VignetteIndexEntry{Vignette Title}
  %\VignetteEngine{knitr::rmarkdown}
  %\usepackage[utf8]{inputenc}

No \\ here.


Thank you.

Regards,
Zhilong


On 22 March 2016 at 18:24, Stefan Haunsberger <stefan.haunsberger at gmail.com>
wrote:

> Hi,
>
> Yes, my bad. I'm already on it.
>
> Thanks,
> Stefan
>
> On Tue, Mar 22, 2016 at 10:14 AM Martin Morgan <
> martin.morgan at roswellpark.org> wrote:
>
> >
> >
> > On 03/22/2016 03:00 AM, Dario Strbenac wrote:
> > > Hello,
> > >
> > > The newly added Bioconductor package miRNAmeConverter has no vignette,
> > although a vignette is a requirement for Bioconductor packages which are
> > not simply annotation databases.
> >
> > Rather, the package has a vignette, but it is not built.
> >
> > This is because of the '\\' in the vignette header. Also, the 'html' and
> > 'pdf' versions of the vignette should not be in SVN.
> >
> > I've cc'd the maintainer.
> >
> > Martin
> >
> >
> > Index: miRNAmeConverter-vignette.Rmd
> > ===================================================================
> > --- miRNAmeConverter-vignette.Rmd       (revision 115094)
> > +++ miRNAmeConverter-vignette.Rmd       (working copy)
> > @@ -9,9 +9,9 @@
> >   csl: apa.csl
> >   bibliography: references.bib
> >   vignette: >
> > -   %\\VignetteIndexEntry{miRNAmeConverter-vignette}
> > -   %\\VignetteEncoding{UTF-8}
> > -   %\\VignetteEngine{knitr::rmarkdown}
> > +   %\VignetteIndexEntry{miRNAmeConverter-vignette}
> > +   %\VignetteEncoding{UTF-8}
> > +   %\VignetteEngine{knitr::rmarkdown}
> >   ---
> >
> >   <!-- output:
> >
> >
> > >
> > > --------------------------------------
> > > Dario Strbenac
> > > PhD Student
> > > University of Sydney
> > > Camperdown NSW 2050
> > > Australia
> > > _______________________________________________
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> > > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> > >
> >
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-- 
Zhilong JIA
zhilongjia at gmail.com
https://github.com/zhilongjia

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