[Bioc-devel] NAMESPACE issue in bumphunter

[Dan Tenenbaum]

Please make the change yourself using the git mirrors.

https://bioconductor.org/developers/how-to/git-mirrors/

Dan


----- Original Message -----
> From: "lcollado" <lcollado at jhu.edu>
> To: "bioc-devel" <bioc-devel at r-project.org>
> Cc: "Rafael Irizarry" <rafa at 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 However the bumphunter GitHub repository is outdated versus the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 at 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 at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel