[Bioc-devel] Create a new GitHub repository for an existing Bioconductor package

Dear Bioconductor, I need to create a new GitHub repository for an existing /Bioconductor/ package; however, I have lost my svn account connecting to the package. Could you please tell me how I can recover the svn account in order to do so. I will highly appreciate your help. Regards, Ngoc

Re: [Bioc-devel] Create a new GitHub repository for an existing Bioconductor package

Hi Ngoc, Please follow documentation we have put together on the Bioconductor website. To help with your specific question http://bioconductor.org/developers/how-to/git/maintain-github-bioc/. For everything you’ll need after that, http://bioconductor.org/developers/how-to/git/ Best regards,

[Bioc-devel] BioC 3.8 release schedule

Hi all, The release of Bioconductor 3.8 will be on October 31: https://www.bioconductor.org/developers/release-schedule/ Over the next weeks we'll announce key dates on the on bioc-devel@r-project.org mailing list. Thanks in advance for cleaning up packages a

[Bioc-devel] New Package Submission Deadline for Bioc Release 3.8

The final day to submit new packages to the Bioconductor contributions tracker to have a shot at being included in the upcoming 3.8 release is Friday October 5th. Please note: submission by this date does not guarantee it will be included - the package must undergo an official review and be acc

Re: [Bioc-devel] Create a new GitHub repository for an existing Bioconductor package

Hi, Could you please tell me what package you are referring to? Nitesh > On Sep 24, 2018, at 7:34 AM, Ngoc Pham wrote: > > Hi Nitesh, > > Thank you very much for answering to my question. However, my problem is at > the step 3 from the link > http://bioconductor.org/developers/how-to/git/

[Bioc-devel] Issue with an illegal version bump message when updating an old experiment data package

Hi, Marcel Ramos told me a few months ago (July 24, 2018) that experiment data packages are now controlled the same way as software packages via GitHub. Today I finally tried synching the repos following these instructions http://bioconductor.org/developers/how-to/git/sync-existing-repositories/.

Re: [Bioc-devel] Create a new GitHub repository for an existing Bioconductor package

Hi, I am talking about the minet package. My advisor, Prof. Patrick Meyer is the author and maintainer of the package. And now he wants me to upgrade minet to version 4.0 with new functionalities. The last time that my advisor updated the package is 2014. However, he does not have access to th

Re: [Bioc-devel] paxtoolsr Bioconductor Push Issues

Hi Augustin, You should be able to push to your repository now. Please notify me once you have been able to push with the new .jar file, and also make sure your version bump (1.15.1 —> 1.15.2) is correct. Best, Nitesh > On Sep 21, 2018, at 10:10 AM, Augustin Luna > wrote: > > As far a

Re: [Bioc-devel] Create a new GitHub repository for an existing Bioconductor package

Hi Ngoc, We’d need an email from Patrick Meyer confirming this. Once that is sorted out, I can go ahead and add you to the package. His SVN id is p.meyer, so that should give him access to change the package. Best, Nitesh > On Sep 24, 2018, at 11:20 AM, Ngoc Pham wrote: > > Hi, > I am ta

Re: [Bioc-devel] paxtoolsr Bioconductor Push Issues

I just pushed. I guess we'll soon see if my updates fix some problems have been happening with the package. Augustin Luna On Mon, Sep 24, 2018 at 11:24 AM, Turaga, Nitesh wrote: > Hi Augustin, > > You should be able to push to your repository now. > > Please notify me once you have been able to

Re: [Bioc-devel] paxtoolsr Bioconductor Push Issues

Augustin, I will reenable the hook for you now. You will not be able to push large files after this. Best, Nitesh > On Sep 24, 2018, at 12:00 PM, Augustin Luna > wrote: > > I just pushed. I guess we'll soon see if my updates fix some problems > have been happening with the package. > > Aug

[Bioc-devel] Final List of Deprecated Package Release 3.8

The Bioconductor Team is continuing to identify packages that will be deprecated in the next release to allow for the Bioconductor community to respond accordingly. The current list of deprecated packages for Release 3.8: Maintainer requested deprecation: Software: BiocInstaller (replaced wi

Re: [Bioc-devel] paxtoolsr Bioconductor Push Issues

Hi Augustin, Please remove the .Rproj file in your repository from git version control. You can add a .gitignore file, http://bioconductor.org/developers/package-guidelines/#gitignore Please check that link. Best, Nitesh > On Sep 24, 2018, at 12:15 PM, Turaga, Nitesh > wrote: > > August