[Bioc-devel] shrunken vignette

[Anand MT]

Hi Dan,
Figured it out. Sorry it was my fault. Turns out I was using output style - 
"BiocStyle::html_document2",  instead of "BiocStyle::html_document" in vignette metadata. 
Changing it solved the issue. I think earlier template center aligns everything.
Thank you.


> Date: Sat, 16 Jul 2016 18:39:43 -0700
> From: dtenenba at fredhutch.org
> To: anand_mt at hotmail.com
> CC: kasperdanielhansen at gmail.com; bioc-devel at r-project.org
> Subject: Re: [Bioc-devel] shrunken vignette
> 
> It can be changed if we can identify the problem.
> 
> Bioconductor package developers should be using the devel version of Bioconductor in order to identify problems like this.
> 
> Dan
> 
> 
> ----- Original Message -----
> > From: "Anand MT" <anand_mt at hotmail.com>
> > To: "Dan Tenenbaum" <dtenenba at fredhutch.org>, "Kasper Daniel Hansen" <kasperdanielhansen at gmail.com>
> > Cc: "bioc-devel" <bioc-devel at r-project.org>
> > Sent: Saturday, July 16, 2016 6:37:01 PM
> > Subject: RE: [Bioc-devel] shrunken vignette
> 
> > Hi Dan and Kasper,
> > Thank you. I will add sessionInfo. vignette built with R CMD build also looks
> > good with cleaner toc. Maybe its the devel BiocStyle level as suggested. So no
> > way to change it now?
> > 
> >> Date: Fri, 15 Jul 2016 20:46:01 -0700
> >> From: dtenenba at fredhutch.org
> >> To: kasperdanielhansen at gmail.com
> >> CC: anand_mt at hotmail.com; bioc-devel at r-project.org
> >> Subject: Re: [Bioc-devel] shrunken vignette
> >> 
> >> Also note that the build system does not use devtools to build vignettes, it
> >> uses R CMD build.
> >> 
> >> 
> >> ----- Original Message -----
> >> > From: "Kasper Daniel Hansen" <kasperdanielhansen at gmail.com>
> >> > To: "Anand MT" <anand_mt at hotmail.com>
> >> > Cc: "bioc-devel" <bioc-devel at r-project.org>
> >> > Sent: Friday, July 15, 2016 8:43:00 PM
> >> > Subject: Re: [Bioc-devel] shrunken vignette
> >> 
> >> > If you add a sessionInfo() section to your document (which I highly
> >> > recommend) you'll probably realize the two versions are using different
> >> > versions of BiocStyle (anything in devel uses BiocStyle level).  The
> >> > default layout is changing, and I am sure comments or bug reports are
> >> > welcome.  For example, as rendered right now I would agree the TOC sucks.
> >> > 
> >> > Best,
> >> > Kasper
> >> > 
> >> > On Fri, Jul 15, 2016 at 9:53 PM, Anand MT <anand_mt at hotmail.com> wrote:
> >> > 
> >> >> Hi all,
> >> >> My package 'maftools' finally found its homepage today. But when I checked
> >> >> the vignette, it has been shrunken. It appears to be html vignette is
> >> >> center aligned rather than left aligned. It makes things cluttered and and
> >> >> toc looks messy.
> >> >> Vignette is here:
> >> >> http://bioconductor.org/packages/devel/bioc/vignettes/maftools/inst/doc/maftools.html
> >> >> When I build it manually on my computer with devtools::build_vignettes()
> >> >> it looks like this. http://poisonalien.github.io   - A much cleaner look.
> >> >> Do I need to change any thing in markdown file?
> >> >> Meta data on my vignette markdown looks like this.
> >> >> ---title: "maftools : Summarize, Analyze and Visualize MAF files"author:
> >> >> "Anand Mayakonda"date: "`r Sys.Date()`"output:
> >> >> BiocStyle::html_document2vignette: >  %\VignetteIndexEntry{Summarize,
> >> >> Analyze and Visualize MAF files}  %\VignetteEngine{knitr::rmarkdown}
> >> >> %\VignetteEncoding{UTF-8}---
> >> >>
> >> >> Thank you.
> >> >>
> >> >>         [[alternative HTML version deleted]]
> >> >>
> >> >> _______________________________________________
> >> >> Bioc-devel at r-project.org mailing list
> >> >> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >> >>
> >> > 
> >> >	[[alternative HTML version deleted]]
> >> > 
> >> > _______________________________________________
> >> > Bioc-devel at r-project.org mailing list
> > > > https://stat.ethz.ch/mailman/listinfo/bioc-devel
 		 	   		  
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