Re: [Bioc-devel] VariantAnnotation::isDelins() ??

2015-02-10 Thread Valerie Obenchain
Hi Robert, This sounds like a good addition. I'll put it on the TODO. If you need this immediately I'd be happy to accept a patch (with unit tests). Valerie On 02/10/2015 06:29 AM, Robert Castelo wrote: hi, in the VariantAnnotation package, the help of the functions for identifying varian

[Bioc-devel] VariantAnnotation::isDelins() ??

2015-02-10 Thread Robert Castelo
hi, in the VariantAnnotation package, the help of the functions for identifying variant types such as SNVs, insertions, deletions, transitions, and structural rearrangements gives the following definitions: • isSNV: Reference and alternate alleles are both a single nucleoti

Re: [Bioc-devel] vignettes is missing after build

2015-02-10 Thread Guangchuang Yu
Dear Martin, Thanks for your quick reply. The typo has been fixed and the pdf file is removed. Best Regards, Guangchuang On Tue, Feb 10, 2015 at 8:13 PM, Martin Morgan wrote: > On 02/10/2015 01:51 AM, Guangchuang Yu wrote: > >> Dear all, >> >> I found the vignette of my package DOSE is missin

Re: [Bioc-devel] vignettes is missing after build

2015-02-10 Thread Martin Morgan
On 02/10/2015 01:51 AM, Guangchuang Yu wrote: Dear all, I found the vignette of my package DOSE is missing, http://bioconductor.org/packages/devel/bioc/html/DOSE.html. I am pretty sure the I don't have .Rbuildignore file and the vignette, DOSE.Rnw, passing the build with knit2pdf. Not only it

[Bioc-devel] vignettes is missing after build

2015-02-10 Thread Guangchuang Yu
Dear all, I found the vignette of my package DOSE is missing, http://bioconductor.org/packages/devel/bioc/html/DOSE.html. I am pretty sure the I don't have .Rbuildignore file and the vignette, DOSE.Rnw, passing the build with knit2pdf. Not only it is missing in the bioconductor website, but also