On Thu, Sep 27, 2012 at 10:08 AM, Dan Tenenbaum <dtenenba@fhcrc.org> wrote:

> On Wed, Sep 26, 2012 at 11:41 PM, Tengfei Yin <yintengfei@gmail.com>
> wrote:
> > Dear maintainers and developers,
> >
> > I am wondering, is there a way to use knitr to built my vignette, I am
> > trying to write a Makefile under my inst/doc, something like
> >
> > # Makefile to use knitr for package vignettes
> > # put all PDF targets here, separated by spaces
> > PDFS= ggbio.pdf
> > all: $(PDFS)
> > clean:
> > rm -f *.tex *.bbl *.blg *.aux *.out *.log *.spl *tikzDictionary
> > %.pdf: %.Rnw
> > $(R_HOME)/bin/Rscript -e "library(knitr); knit2pdf('ggbio.Rnw')"
> >
> > Then I realize the bioc maintained two branch, released and development,
> so
> > the R version it used to check each branch must be different, I don't
> > really know how to specify those in my Makefile, especially after next
> > Monday, the devel-branch become released version automatically, there
> must
> > be a problem if I set up a fixed point to some */bin/Rscript?
> >
> > I don't really know how it works with bioconductor, the example above
> > should work for cran, but I guess things are very different between cran
> > and bioc.
>
>
> If you use "$(R_HOME)/bin/R" in your Makefile, as you do, the correct
> R will be used.
> Dan
>
> Hi Dan,

Thanks a lot, I will give a try to see how it works.

Tengfei

>
> >
> > thanks a lot!
> >
> > Tengfei
> >
> >
> >
> > --
> > Tengfei Yin
> > MCDB PhD student
> > 1620 Howe Hall, 2274,
> > Iowa State University
> > Ames, IA,50011-2274
> >
> >         [[alternative HTML version deleted]]
> >
> > _______________________________________________
> > Bioc-devel@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
>



-- 
Tengfei Yin
MCDB PhD student
1620 Howe Hall, 2274,
Iowa State University
Ames, IA,50011-2274

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