Hi Nitesh, Thank you for the explanation. Now everything is clear.
Best, Diego On Mon, Jul 10, 2017 at 10:55 PM, Turaga, Nitesh <nitesh.tur...@roswellpark.org> wrote: > Hi Diego, > > This is a good question. > > Please note, that when you do a 'git clone¹, you are getting the commit > history of every branch, and master(trunk) locally. Git stores the log of > the commit history(trees, commits and blobs) locally in the .git/object > directory. > > When you checkout an svn branch, you are checking out 1 specific branch, > i.e, trunk or RELEASE_X_Y. It also needs to connect to the server to get > the commit history of your files. > > These are fundamental differences in the way these version control systems > work, and this difference is expected. > > Best, > > Nitesh > > > >>Dear all, >> >>Great to know that the git transition is moving forward. I tested >>cloning (https) several packages and I noticed a significant >>difference in the repository size between svn and git. Two examples >>showing the output (svn/git) of du -k: >> >>Biobase: 4968 / 8720 >>limma: 6284 / 20296 >> >>Looking briefly at the .git folder inside the repositories it seems >>the .pack file inside .git/objects/pack takes most of the overweight. >>I wonder if this is expected? >> >>Thank you. >> >>Diego >> >>PS: commands used to obtain the repositories: >> >>git clone https://git.bioconductor.org/packages/limma >>svn co https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/limma >>--username readonly >> >>On Fri, Jul 7, 2017 at 9:42 PM, Turaga, Nitesh >><nitesh.tur...@roswellpark.org> wrote: >>> Dear Maintainers, >>> >>> For those of you who have submitted your public github id instead of >>>your >>> public SSH key, please make sure that the link >>> `www.github.com/<username>.keys` is valid and shows your SSH key. >>> >>> If that is not valid, we are not able to add your SSH key to the >>> bioconductor server. >>> >>> Thanks, >>> >>> Nitesh >>> >>> >>>>>Dear Maintainers >>>>> >>>>>As announced earlier this year, Bioconductor is moving version control >>>>>systems from SVN to Git. >>>>> >>>>>The plan >>>>>------------ >>>>> >>>>>- Software, experiment data, and workflow packages will be maintained >>>>> as git repositories created to capture the full commit history of >>>>> each package. (the commit history of the 'data_store' portion of >>>>> data experiment packages will unfortunately not carry forward to >>>>> git). >>>>> >>>>>- Read-only (user) access for each package is available via https, >>>>> e.g., >>>>> >>>>> git clone >>>>>https://git.bioconductor.org/packages/SummarizedExperiment >>>>> >>>>>- Read-write (developer) access for each package is available via ssh, >>>>>e.g., >>>>> >>>>> git clone g...@git.bioconductor.org:packages/SummarizedExperiment >>>>> >>>>> Developers MUST SHARE public key(s) with Bioconductor. The process >>>>> for this during the beta phase is outlined below. >>>>> >>>>>- The build system and other core infrastructure will use >>>>> git.bioconductor.org as the canonical source after the transition. >>>>> >>>>>- Developers may wish to independently clone and maintain github or >>>>> other repositories to support their package. Developers are >>>>> responsible for pushing changes from these cloned repositories to >>>>> the canonical source. >>>>> >>>>>- https://github.com/Bioconductor-mirror will be removed after the >>>>> transition. >>>>> >>>>>Beta testers >>>>>---------------- >>>>> >>>>>We are starting Beta testing now. We encourage as many people as >>>>>possible to become beta-testers, either as users (via git clone >>>>>https://...) or maintainers (via git clone git@...). >>>>> >>>>>All software, data experiment, and workflow packages are available at >>>>> >>>>> (read-only) git clone >>>>>https://git.bioconductor.org/packages/<package> >>>>> (read / write) git clone >>>>>g...@git.bioconductor.org:packages/<package> >>>>> >>>>>These are STATIC SNAPSHOTS of SVN. Developers are encouraged to commit >>>>>to these repositories, but the commits are not propagated to svn and >>>>>will be lost at the end of the beta phase. >>>>> >>>>>For maintainers, Bioconductor needs your SSH public key. We have >>>>>prepared a Google form for this >>>>> >>>>> https://goo.gl/forms/eg36vcBkIUjfZfLe2 >>>>> >>>>>The form requires your Bioconductor provided SVN username, and your >>>>>Github user name (to retrieve your public keys from >>>>>https://github.com/<your-github-id>.keys) OR SSH key. Currently, the >>>>>form is processed on an approximately daily basis, so there is a delay >>>>>between credential submission and developer access. >>>>> >>>>>(IMPORTANT) As a beta tester, we ask that you work through the >>>>>'scenarios' at >>>>> >>>>> https://github.com/Bioconductor/bioc_git_transition/tree/master/doc >>>>> >>>>>Package authors and maintainers, please take the extra measure to >>>>>check that your package history is complete to July 4th, i.e commit >>>>>history, >>>>>files, folders and all Bioconductor components. >>>>> >>>>>If you are new to Git or Github, there are learning materials online >>>>>https://try.github.io >>>>> >>>>>We encourage pull-requests on documentation. Please post other >>>>>beta-test feedback from the experience with the new git server to this >>>>>mailing list. >>>>> >>>>>Transition >>>>>-------------- >>>>> >>>>>Important Dates: >>>>> >>>>>Transition: on date T, tentatively July 31st. >>>>> >>>>>Until July 30th 2017: >>>>> >>>>> Beta testing phase. >>>>> >>>>> >>>>>July 26th 2017: >>>>> >>>>> Developer day demo session on Bioconductor's GIT transition/usage >>>>> going forward. (30-45 mins) Be sure to attend if you are at >>>>> Bioc2017, Boston. Slides will be made public. >>>>> >>>>>T - 2: Final SVN snapshot of data experiment packages >>>>> >>>>> No more SVN commits to Data Experiment packages. >>>>> >>>>>T: Day of transition. >>>>> >>>>> All SVN commits to software, experiment data, and workflow >>>>> repositories are stopped, forever. >>>>> >>>>> Git repositories are updated to most recent svn version on day T. >>>>> (We estimate that this will take about 6 hours; no commits >>>>> possible on either svn or git). >>>>> >>>>> Git commits resume. Please make sure to commit to >>>>> g...@git.bioconductor.org. >>>>> >>>>> Only git sever commits moving forward. >>>>> >>>>>This is an important step for the infrastructure of the project. If >>>>>you have questions please reply to this email, i.e. to the bioc-devel >>>>>mailing list. If there are any issues with individual packages, make >>>>>sure to list them out. >>>>> >>>>>Best Regards, >>>>> >>>>>Nitesh >>>>>Bioconductor Core Team >>>> >>> >>> >>> >>> This email message may contain legally privileged and/or confidential >>>information. If you are not the intended recipient(s), or the employee >>>or agent responsible for the delivery of this message to the intended >>>recipient(s), you are hereby notified that any disclosure, copying, >>>distribution, or use of this email message is prohibited. If you have >>>received this message in error, please notify the sender immediately by >>>e-mail and delete this email message from your computer. Thank you. >>> _______________________________________________ >>> Bioc-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel > > > > This email message may contain legally privileged and/or confidential > information. If you are not the intended recipient(s), or the employee or > agent responsible for the delivery of this message to the intended > recipient(s), you are hereby notified that any disclosure, copying, > distribution, or use of this email message is prohibited. If you have > received this message in error, please notify the sender immediately by > e-mail and delete this email message from your computer. Thank you. _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
