Re: [Bioc-devel] report package issue to Bioconductor

2017-01-06 Thread Obenchain, Valerie
On 01/06/2017 09:53 AM, Obenchain, Valerie wrote: > Hi, > > It looks like CorMut doesn't have a github repo so the best approach is > to contact the maintainer directly or cc them (zpl...@gmail.com) instead > of creating your own gist. Maybe you've tried this? Once the transition I should have

Re: [Bioc-devel] Code quality and bug reports

2017-01-06 Thread Obenchain, Valerie
On 01/04/2017 07:53 AM, LluĂ­s Revilla wrote: > Dear Guangchuang and all, > > Quality of the packages has been a preoccupation of the project from > the beginning (see > https://stat.ethz.ch/pipermail/bioc-devel/2014-May/005810.html for > more references and other discussions about bug reports.)

Re: [Bioc-devel] report package issue to Bioconductor

2017-01-06 Thread Obenchain, Valerie
Hi, It looks like CorMut doesn't have a github repo so the best approach is to contact the maintainer directly or cc them (zpl...@gmail.com) instead of creating your own gist. Maybe you've tried this? Once the transition from svn to git / github is complete you can open issues or submit a pull

Re: [Bioc-devel] asBam Default Destination

2017-01-06 Thread Martin Morgan
On 01/06/2017 06:00 AM, Dario Strbenac wrote: Good day, The destination parameter is mandatory and has no default. asBam(samFile) Error in is(path, "RsamtoolsFile") : argument "destination" is missing, with no default Would a good default be the same path as as the input file, but having

Re: [Bioc-devel] maftools package not updated after pushing bug fixes.

2017-01-06 Thread Martin Morgan
On 01/06/2017 06:27 AM, Anand MT wrote: Hi Vladimir, Thanks for suggestion. I will try this and see if it helps. yes hover over the red dot at the end of each line and it says that the build version (x.y.4) is lower than the published version (x.y.31) -- the elements of the version number