[Bioc-devel] git transition: unrelated histories

Hi, I am trying to make the git transition from our RnBeads package. Unfortunately I am not able to merge from our current github’s master branch (which had been existing since SVN times) to the BioC master branch due to unrelated history: “refusing to merge unrelated histories” I would like to

[Bioc-devel] Ontology generic

Dear all, It appears that at least two packages, AnnotationDbi and rols, define the Ontology generic with the same signature setGeneric("Ontology", function(object) standardGeneric("Ontology")) Could it be moved to BiocGenerics, please? Best wishes, Laurent -- Laurent Gatto | @lgatt0

Re: [Bioc-devel] how to verify upstream git changes

Hi Robert, > On Sep 1, 2017, at 11:16 AM, Robert Castelo wrote: > > hi, > > i've had a smooth transition from SVN to git for all the software packages i > maintain (thanks for the great documentation!!) and i have the following > question. > > i keep a local git

Re: [Bioc-devel] workflow building issues on mac and windows

I've updated pandoc on the win workflow builder to the latest release (1.19.2.1) which resolves the vignette compilation error there. Regarding the Mac builder the workflow fails in the call to derfinder::loadCoverage issued by the line regions <- expressed_regions("SRP045638", "chr21", cutoff =

[Bioc-devel] how to verify upstream git changes

hi, i've had a smooth transition from SVN to git for all the software packages i maintain (thanks for the great documentation!!) and i have the following question. i keep a local git repository for each of my software packages, hanging from my github account and this means that i have to

Re: [Bioc-devel] git transition: unrelated histories

Hi Fabian, Could you please try the merge for the other branch? Or please give me the url of the GitHub package, and tell me which branch and I’ll see what the problem is. Or try it and copy the commands in the email along with the output. I need more information to help you resolve this.

Re: [Bioc-devel] how to verify upstream git changes

Good day, I like the idea of a commits log on the Bioconductor website. It was useful being able to see at a glance which packages have recently been changing. -- Dario Strbenac University of Sydney Camperdown NSW 2050 Australia

Re: [Bioc-devel] Bioconductor-mirror permanently removed August 25th

Hi Maintainers, The Bioconductor-mirror has been permanently deprecated. Please do not use this anymore. Best, Nitesh > On Aug 17, 2017, at 3:53 PM, Turaga, Nitesh > wrote: > > Hi Maintainers, > > The https://github.com/Bioconductor-mirror is now stale

Re: [Bioc-devel] Problems pushing changes from github to git.bioconductor

Dear Nitesh, I wanted to make some changes to our R/Bioconductor package but whereas I could successfully push it to my github account, it seems it did not propagate to bioconductor github / upstream. I guess I maybe didn't set up something correctly or something with the ssh keys did not work