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
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