Hi Martin, Can you check DEGreport? I have made commits already but is not in your list.
I am off the office, so cannot check anything until tomorrow. Thanks sent not from my computer > On Aug 21, 2017, at 16:23, Martin Morgan <martin.mor...@roswellpark.org> > wrote: > >> On 08/21/2017 03:17 PM, Stephanie M. Gogarten wrote: >> If we followed the steps here: >> https://www.bioconductor.org/developers/how-to/git/maintain-github-bioc/ >> How much, if any, of this will need to be redone after the repositories are >> regenerated? In particular, if I don't have an unknown user, will the >> regenerated commits be equal to the previous commits, or will "git fetch >> upstream" duplicate my commit history? > > Hi Stephanie -- > > if there are no unknown users, then we should not regenerate your git > repository. Is this GWAStools? If so let's leave it on the list of > repositories not to regenerate? > > Martin > > >> thanks, >> Stephanie >>> On 8/21/17 9:00 AM, Martin Morgan wrote: >>> Hi git transitioners -- >>> >>> We'd like to regenerate git repositories from svn. This is because some svn >>> user ids were mapped to 'unknown' git users, so that contributors would not >>> be credited accurately. This will invalidate any local clones made from >>> git.bioconductor.org. >>> >>> Our plan is to regenerate all git repositories EXCEPT those that have been >>> modified when we are ready (probably tomorrow morning). Modified >>> repositories that we would NOT regenerate, based on current commits, are >>> listed below; repositories modified between now and when we are ready to >>> update would also NOT be regenerated: >>> >>> beadarray BiocStyle CAMERA Cardinal CEMiTool ChemmineR cydar cytofkit >>> derfinder derfinderHelper derfinderPlot DmelSGI DOSE EBImage ELMER >>> ensembldb FamAgg gcapc GenVisR ggtree GOexpress gQTLstats GWASTools isomiRs >>> karyoploteR LOBSTAHS motifcounter piano Rdisop REMP Rhdf5lib rnaseqcomp >>> seqplots systemPipeR TCGAbiolinks TCGAbiolinksGUI vsn >>> >>> >>> For a little more detail, the problem is manifest as 'unknown' authors in a >>> git commit, e.g., in Biobase from svn user 'jmc' >>> >>> commit b5ae43bc8aae967b80062da13e5085a6a305b274 >>> Author: unknown <unknown> >>> Date: Fri Dec 7 15:17:06 2001 +0000 >>> >>> fixed the arguments to 'show' methods >>> >>> >>> A more common problem is that the git author 'name' is 'unknown', as in >>> this limma commit >>> >>> commit 5910dc34a952a72816ada787d3f2c849edf48a95 >>> Author: unknown <sm...@wehi.edu.au> >>> Date: Tue Jul 25 07:23:39 2017 +0000 >>> >>> >>> >>> The problem primarily affects users with svn accounts from the earlier part >>> of Bioconductor's svn history, and stems from incomplete historical records >>> about the user name associated with svn accounts (this information is not >>> stored in svn per se). >>> >>> Please feel free to respond here if your package is listed above but you >>> would like it to be regenerated anyway; remember that you will loose any >>> commits made, and invalidate your local repository. >>> >>> Sorry for the inconvenience, >>> >>> Martin >>> >>> >>> This email message may contain legally privileged and/or...{{dropped:2}} >>> >>> _______________________________________________ >>> Bioc-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel > > > This email message may contain legally privileged and/or...{{dropped:2}} > > _______________________________________________ > 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
