On 11/14/2016 10:52 PM, Hervé Pagès wrote:
Hi James,On 11/14/2016 06:38 PM, James Collins wrote:I have attempted to remove several .tar.gz files from the LOBSTAHS package directory using a series of cherry-picked commits. (I had successfully removed these .tar files a few months ago, but somehow they just reappeared in the directory after I invoked git svn rebase during a recent attempt to commit some other changes.) I was able to successfully remove them a second time from the svn directory, but they are still showing up on the Bioconductor GIt mirror. I even tried re-committing the files, and then making a new commit that deleted them, but this did not work as far as the Git mirror is concerned (it was successful on svn). Please advise, any help appreciated.
The mirror did get stuck, which typically occurs when svn commits come faster than the mirror processes them. Usually this is when a git branch with several commits is merged in a way that triggers one svn commit per git commit.
I think LOBSTAHS is back on track; it's hard to know where the tar files re-emerged from; if they showed up during git svn rebase it implies they were (still?) in svn, but svn says they were deleted here
r121293 | j.collins | 2016-09-23 10:13:36 -0400 (Fri, 23 Sep 2016) | 1 line then added herer123979 | j.collins | 2016-11-14 17:37:17 -0500 (Mon, 14 Nov 2016) | 26 lines
Changed paths: A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.1.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.2.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.1.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.0.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.1.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.2.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.3.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.4.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.5.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.6.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.7.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.8.tar.gz Merge branch 'master' into devel ... which looks like they came from a commit from your git repository.Sorry for the trouble and let us know if these zombies come back to haunt you.
Martin
I'm not sure I understand what you are trying to achieve with these commits e.g. the last 3 svn commits for LOBSTAHS are: hpages@latitude:~$ svn log -v https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/LOBSTAHS -r 124003:HEAD --username readonly --password readonly ------------------------------------------------------------------------ r124003 | j.collins | 2016-11-14 17:58:22 -0800 (Mon, 14 Nov 2016) | 1 line Changed paths: D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.1.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.2.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.1.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.0.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.1.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.2.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.3.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.4.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.5.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.6.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.7.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.8.tar.gz Remove .tar.gz files ------------------------------------------------------------------------ r124004 | j.collins | 2016-11-14 18:05:14 -0800 (Mon, 14 Nov 2016) | 1 line Changed paths: A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.1.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.2.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.1.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.0.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.1.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.2.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.3.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.4.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.5.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.6.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.7.tar.gz A /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.8.tar.gz Commit .tar.gz files ------------------------------------------------------------------------ r124005 | j.collins | 2016-11-14 18:08:32 -0800 (Mon, 14 Nov 2016) | 1 line Changed paths: D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.1.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.2.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.1.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.3.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.0.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.1.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.2.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.3.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.4.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.5.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.6.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.7.tar.gz D /trunk/madman/Rpacks/LOBSTAHS/LOBSTAHS_0.99.8.tar.gz Remove .tar.gz files ------------------------------------------------------------------------ Why would you delete files, then add them, and then delete them again? It's true though that the deleted files still show up on the Bioconductor-mirror: https://github.com/Bioconductor-mirror/LOBSTAHS which indicates that there might be a problem with our mirroring script. Your last svn commit was less than 2 hours ago so maybe it's just because of the lag between the moment you commit to svn and the moment the commit shows up on Bioconductor-mirror. So let's wait and see. The truth is that the .tar.gz files are not in the svn repo anymore, which I guess is what really matters for now: hpages@latitude:~$ svn ls https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/LOBSTAHS --username readonly --password readonly .BBSoptions .Rbuildignore .gitignore DESCRIPTION LICENSE LOBSTAHS.Rproj NAMESPACE R/ README.md data/ inst/ man/ vignettes/ so no need to fight so hard against these zombie .tar.gz files ;-) Cheers, H.Jamie Collins [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
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