Hi, looks like the latest commit to the relevant code <https://github.com/microbiome/mia/commit/4d7d2ced1e7b6dfba3a819f217fa0f0ce1438101#diff-5076714cc44878c14c747f655d3f5e259ef8f8c4df916cb9a4644a3712ee7092> in package mia has changed the arguments of makePhyloseqFromTreeSummarizedExperiment (makePhyloseqFromTreeSE). I wonder if that's the reason. Is the error gone if you call it differently? - pseq <- makePhyloseqFromTreeSummarizedExperiment(tse, assay.type=" counts.shifted")
Best, Oleksii On Fri, 7 Apr 2023 at 15:23, Justin Silverman <jsilv...@gmail.com> wrote: > Hello helpful list. > > I have repeatedly got the following email over the past few weeks. At > first I thought it was a false positive as the error in question was fixed > a while back. But I keep receiving this email. I have asked a few > colleagues to try to test out the package and run R CMD CHECK and they find > that the package passes no without problems (particularly no one can > recreate this bug in the vignette) on mac, windows, and linux. > > I am sorry to ask this but could someone please help me figure out what is > going on? I am almost certain that the master branch of my github repo > (jsilve24/philr) is synced with the BioC 3.17 branch as they are both at > version 1.25.2. > > Thank you so much for your help and sorry for the trouble. > > Justin > > bbs-nore...@bioconductor.org writes: > > > [This is an automatically generated email. Please don't reply.] > > > > Hi philr maintainer, > > > > According to the Multiple platform build/check report for BioC 3.17, > > the philr package has the following problem(s): > > > > o ERROR for 'R CMD build' on nebbiolo1. See the details here: > > < > https://master.bioconductor.org/checkResults/3.17/bioc-LATEST/philr/nebbiolo1-buildsrc.html > > > > > > Please take the time to address this by committing and pushing > > changes to your package at git.bioconductor.org > > > > Notes: > > > > * This was the status of your package at the time this email was sent > to you. > > Given that the online report is updated daily (in normal conditions) > you > > could see something different when you visit the URL(s) above, > especially if > > you do so several days after you received this email. > > > > * It is possible that the problems reported in this report are false > positives, > > either because another package (from CRAN or Bioconductor) breaks > your > > package (if yours depends on it) or because of a Build System > problem. > > If this is the case, then you can ignore this email. > > > > * Please check the report again 24h after you've committed your > changes to the > > package and make sure that all the problems have gone. > > > > * If you have questions about this report or need help with the > > maintenance of your package, please use the Bioc-devel mailing list: > > > > <https://bioconductor.org/help/mailing-list/> > > > > (all package maintainers are requested to subscribe to this list) > > > > For immediate notification of package build status, please > > subscribe to your package's RSS feed. Information is at: > > > > <https://bioconductor.org/developers/rss-feeds/> > > > > Thanks for contributing to the Bioconductor project! > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
