Search Archives

Hi, Is there anything we need to do to set up the svn repository and git mirror for new packages accepted last week? The issue in the GitHub contributions repo for our package is closed/accepted ( https://github.com/Bioconductor...

Thanks Dario. Could we please use my gmail address for this (cc?d), which is the address I used for registering my Bioconductor account. Best regards, Lukas Lukas M. Weber, Ph.D. Postdoctoral Fellow Department of Biostatistics Johns Hopkins Bloomberg...

Thanks Dario. Could we please use my gmail address for this (this address), which is the one I used for registering my Bioconductor account. (Sorry for possible duplicate email - I previously tried replying from my other address, which is not...

Hi, We have pushed an update to our package SpatialExperiment, and now have the following error in checks (pasted below) on the build report. On our local machines I can fix this error by deleting the old cache, as explained...

Hi, I have a question about biocViews. Currently we are including packages for spatially resolved transcriptomics analysis in the SingleCell (and SingleCellData / SingleCellWorkflow) biocViews. Would it be possible to add a new biocViews for spatial data? We are likely to...

Hi, I have removed a large image file from the git history in my package nnSVG, using "BFG repo cleaner" and the instructions at https://contributions.bioconductor.org/git-version-control.html. I have push-forced the clean repo to...

Hi, I submitted a new package last week, which passed all the checks, but I haven't heard anything else back since then. I wanted to confirm how the feature-freeze deadline next week (Friday Oct 7) will work for...

Hi, Is there any way to reset the devel branch of a package SVN repo / git mirror to an earlier state, or simply to delete the devel branch and start again from a copy of release-3.4? I made...

Ok that's great, thank you! Lukas On Sat, Oct 15, 2016 at 10:15 PM, Martin Morgan < martin.morgan at roswellpark.org> wrote: > On 10/15/2016 10:01 AM, Lukas Weber wrote: > >> Hi, >> >> Is there anything we need...

Great, thank you! On Thu, Jul 29, 2021 at 2:32 PM Kern, Lori <Lori.Shepherd at roswellpark.org> wrote: > Thank you for making us aware. > > Its interesting because I have already cleaned this up and initialized the > caches on...

Hi Kevin, I have been using the following setup in my .travis.yml file. Travis CI should automatically use the correct version of R for the Bioconductor version specified in the "r: bioc-devel" line (you can replace this with...

Hi Keegan, I'm not sure how much this will help you, but I had some similar issues recently. I also wanted to keep my pre-existing development history in my personal GitHub repo, which wasn't straightforward. I ended...

Thank you for the detailed reply. I think I have managed to fix it now. Syncing the Bioconductor-mirror properly was actually the only major thing required. For my local Git repository, I cloned a fresh copy (including pre-Bioconductor...

I just checked by sending a commit to my package. I am also still seeing installation of R version 3.3.1: $ curl -Lo /tmp/R-3.3.1.xz https://s3.amazonaws.com/rstudio-travis/R-3.3.1...