My svn account doesn't have permission to write on the bumphunter package, which is what I tried before emailing the patch. Or are you saying that if I use the Git mirrors, `git svn dcommit` won't complain about the permission issue?
On Thu, Mar 24, 2016 at 5:04 PM, Dan Tenenbaum <dtene...@fredhutch.org> wrote: > Please make the change yourself using the git mirrors. > > https://bioconductor.org/developers/how-to/git-mirrors/ > > Dan > > > ----- Original Message ----- >> From: "lcollado" <lcoll...@jhu.edu> >> To: "bioc-devel" <bioc-devel@r-project.org> >> Cc: "Rafael Irizarry" <r...@jimmy.harvard.edu> >> Sent: Thursday, March 24, 2016 1:59:02 PM >> Subject: [Bioc-devel] NAMESPACE issue in bumphunter > >> Hi, >> >> I found a NAMESPACE issue in bumphunter version 1.11.3 as reported at >> https://github.com/ririzarr/bumphunter/issues/7 with the proposed fix >> at >> https://github.com/lcolladotor/bumphunter/commit/4093a628ecd81ace3a26511b82d2c3ca47849d33 >> However the bumphunter GitHub repository is outdated versus the >> version available in Bioc-devel as I reported at >> https://github.com/ririzarr/bumphunter/issues/9. I can recognize that >> it stopped being in sync once the git-svn-bridge stopped working. >> Which is why I'm sending here a SVN diff file with the patch that can >> fix this small issue. >> >> The patch reads: >> >> >> Index: DESCRIPTION >> =================================================================== >> --- DESCRIPTION (revision 115247) >> +++ DESCRIPTION (working copy) >> @@ -1,5 +1,5 @@ >> Package: bumphunter >> -Version: 1.11.3 >> +Version: 1.11.4 >> Title: Bump Hunter >> Description: Tools for finding bumps in genomic data >> Authors@R: c(person(c("Rafael", "A."), "Irizarry", role = c("cre","aut"), >> email >> Index: NAMESPACE >> =================================================================== >> --- NAMESPACE (revision 115247) >> +++ NAMESPACE (working copy) >> @@ -19,6 +19,7 @@ >> importFrom(GenomicRanges, GRanges, makeGRangesFromDataFrame) >> importMethodsFrom(GenomicRanges, sort) >> importFrom(locfit, locfit) >> +importFrom(locfit, lp) >> importFrom(utils, data, packageDescription) >> importFrom(parallel, mclapply, stopCluster) >> importFrom(GenomicFeatures, exonsBy, cdsBy, transcriptsBy) >> >> >> >> >> Best, >> Leonardo >> >> Leonardo Collado Torres, PhD Candidate >> Department of Biostatistics >> Johns Hopkins University >> Bloomberg School of Public Health >> Website: http://lcolladotor.github.io/about.html >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel