- Original Message -
> From: "Dan Tenenbaum"
> To: "Kasper Daniel Hansen"
> Cc: bioc-devel@r-project.org
> Sent: Thursday, July 30, 2015 10:05:05 AM
> Subject: Re: [Bioc-devel] BiocStyle and R markdown
>
>
>
> - Original Message
- Original Message -
> From: "Kasper Daniel Hansen"
> To: "Jim Hester"
> Cc: bioc-devel@r-project.org
> Sent: Thursday, July 30, 2015 7:01:46 AM
> Subject: Re: [Bioc-devel] BiocStyle and R markdown
>
> Thanks Jim, this prompted me to rea
Thanks Jim, this prompted me to read the documentation one more time and I
understand it better now. Since I have svn write permissions to BiocStyle
I can do what you're suggesting.
However, it makes sense to have one location on Github with which to track
issues and accept incoming pull requests
Kasper,
Easiest way to get a GitHub version of BiocStyle is to just fork
https://github.com/Bioconductor-mirror/BiocStyle/
Jim
On Thu, Jul 30, 2015 at 9:28 AM, Kasper Daniel Hansen <
kasperdanielhan...@gmail.com> wrote:
> Well, without really knowing details it could just be that more work has
Well, without really knowing details it could just be that more work has
been done on BiocStyle in devel.
One could backport the change to release, but that would mean that all
packages (which use BiocStyle) need to be version bumped and re-build,
purely for cosmetic issues in the vignette. While
Yes, they show under Bioc-devel, but not under Bioc-release. Building the
exact same *Rmd source from here
https://bioconductor.org/packages/devel/bioc/vignettes/BiocStyle/inst/doc/HtmlStyle.html
under Bioc-release looks quite different:
http://biocluster.ucr.edu/~tgirke/HtmlStyle.html
Thomas
On
What exactly do you mean by numbering. As far as I understand, numbering
is already there in devel:
https://bioconductor.org/packages/devel/bioc/vignettes/BiocStyle/inst/doc/HtmlStyle.html
Kasper
On Wed, Jul 29, 2015 at 10:39 PM, Thomas Girke wrote:
> Perfect, if your update in Bioc-devel eli
Perfect, if your update in Bioc-devel eliminates the awkward bullets in
front of the numbers. The lack of numbered content tables in Bioc-release
may be something we have to live with until the next Bioc release? I don't
want to overstretch Dan's or the Bioc team's patience with overly picky
style
When I roll that styles.css into the bioconductor.css file shipping with
BiocStyle, it gets rid of the bullets.
Its added to BiocStyle 1.7.5
Kasper
On Wed, Jul 29, 2015 at 9:37 PM, Kasper Daniel Hansen <
kasperdanielhan...@gmail.com> wrote:
> This is just reporting what I see using Bioc-devel:
This is just reporting what I see using Bioc-devel:
I get a TOC where each line looks like
While I agree that the bullet is kind of ugly (and would be great to get
rid of), I do get the section numbering functionality you want.
Note: for this report I am rendering the Rmd file myself, I ha
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