Re: [Bioc-devel] COHCAP GitHub Update

2017-09-03 Thread Turaga, Nitesh
Hi You are using HTTPS protocol for cloning your repository. You need to use SSH. http://bioconductor.org/developers/how-to/git/new-package-workflow/ • SSH (developer) read / write access: g...@git.bioconductor.org • HTTPS (public) read only access: https://git.bioconductor.org

[Bioc-devel] BioCAsia, 17th November 2017, Adelaide, Australia

2017-09-03 Thread Matt Ritchie
Dear Developers, The third Bioconductor Asia meeting (https://www.abacbs.org/conference-workshops#bioc2017-link) will be held on Friday 17th November 2017 in Adelaide, Australia as a satellite event to ABACBS 2017 (http://www.abacbs.org/conference/). This one-day event aims to bring together

Re: [Bioc-devel] COHCAP GitHub Update

2017-09-03 Thread Charles Warden
Hi Martin and Nitesh, Thanks for your help - I can now clone from the Bioconductor COHCAP git repository, and I'm now working on syncing the GitHub repository and the Bioconductor repository (or at least updating the Bioconductor repository). I'm testing making a minor change (not affecting

[Bioc-devel] Cannot install Bioconductor packages with biocLite() after loading QuasR

2017-09-03 Thread Pariksheet Nanda
Hi folks, It looks like loading QuasR breaks biocLite() because it magically wants to use biocLite() in qAlign(): $ find -not -name '*.Rnw' -exec grep -E '(BiocInstaller|biocLite)' {} + 2>/dev/null ./DESCRIPTION: S4Vectors (>= 0.9.25), IRanges, BiocInstaller, Biobase, ./R/qAlign.R:

[Bioc-devel] Identical methods in two packages

2017-09-03 Thread Laurent Gatto
Dear all, This is a follow up to a previous email regarding the Ontology generic function, that is now in the BiocGenerics package. It seems that my problem was not only that both rols and AnnotationDbi defined the same generic, but they also both defined Ontology,character. > library("rols")