[Bioc-devel] issues with access to my Bioconductor repository IntramiRExploreR

Hello, I was trying to make some final changes to my package yesterday (changing the README file with the link to the bioconductor page, instead of my github repository), but am getting errors in accessing the bioconductor repository. I followed the flow given in the webpage: ##Added the

Re: [Bioc-devel] Cannot reproduce Bioc build server errors for annotatr package

Hi Martin, A ha! Thank you for pointing that out. Not sure how that space got in there, but I’ll remove it and hopefully it’ll clear the error. Odd about the reproducibility though… Thanks again, Raymond > On Oct 26, 2017, at 17:34, Martin Morgan > wrote: > >

Re: [Bioc-devel] Cannot reproduce Bioc build server errors for annotatr package

On 10/23/2017 09:22 AM, Raymond Cavalcante wrote: Hello all, I’m getting some CHECK errors in the examples and tests for the annotatr package (http://bioconductor.org/checkResults/devel/bioc-LATEST/annotatr/ ) that I cannot

[Bioc-devel] Warning that namespace of my package not available for my data object

Hello, When I push my commits to my personal github and they run through TravisCI I get the following warning when my package ‘clusterExperiment’ is build: * looking to see if a ‘data/datalist’ file should be added Warning: namespace ‘clusterExperiment’ is not available and has been replaced by

Re: [Bioc-devel] push access to bioconductor repository-reg.

Thank you, this was helpful! I had to set up my config file! On Thu, Oct 26, 2017 at 11:09 AM, Turaga, Nitesh < nitesh.tur...@roswellpark.org> wrote: > Hi Shweta, > > I’m cc-ing bioc-devel on this as well. There are other members of the team > in the future who could possibly help you with

Re: [Bioc-devel] push access to bioconductor repository-reg.

Hi Shweta, I’m cc-ing bioc-devel on this as well. There are other members of the team in the future who could possibly help you with your questions. You seem to have three public keys on our find . -name "shwetagopaul92.pub" -exec cat {} \; ssh-rsa

[Bioc-devel] Reset packages with duplicate commits

Hi Maintainers, You are being notified because we have identified duplicate commits in your packages. Only the last “merge” commit is the one causing the issues in both these packages. The two packages are listed below. - affyPLM - Rdisop If you are receiving this message,

Re: [Bioc-devel] Accepted packages can't find each other and fail build

We have already taken care of this on our end and you shouldn't need to do anything else. As always changes reflected may take a few days to reflect in the build reports. The solution is to add a .BBSoptions file with ForceInstall: TRUE to the software package. Since there is a circular

Re: [Bioc-devel] "extra" unit tests

There is currently some capacity in the build system to support 'extended' builds. One possibility would be to provide facilities for packages to 'opt in' to a distinct 'extended' build, with a (weekly?) build report. One could also just increase the timeouts of the current builds. I think

Re: [Bioc-devel] Bioconductor Git: Online interface

There has been previous discussion about this. https://stat.ethz.ch/pipermail/bioc-devel/2017-September/011455.html It is not in our short-term plans to offer a full on-line solution, but not impossible in a longer context. Martin On 10/26/2017 03:01 AM, Stian Lågstad wrote: I would very

[Bioc-devel] Accepted packages can't find each other and fail build

Hey all, I created 2 packages that got accepted (pcxn and pcxnData) where pcxn depends on the data coming from pcxnData. However, in the vignettes of pcxnData I am using library(pcxn) to demonstrate what can you do with the data. As a result both packages fail building in BioC 3.6 as they can't

Re: [Bioc-devel] Bioconductor Git: Online interface

I would very much appreciate this as well. Issue tracking and communicating with users directly in the repository would be very nice, as well as the ability to reference source code directly. On Thu, Oct 26, 2017 at 8:50 AM, Henrik Bengtsson < henrik.bengts...@gmail.com> wrote: > Are there any

[Bioc-devel] Bioconductor Git: Online interface

Are there any plans for an online interface to https://git.bioconductor.org/? I've recently looked into solutions for an open-source in-house "GitHub/GitLab"-ish, and I've found https://gitea.io/ to be really nice. It is very easy to install. It has support for various common user authentication