[Bioc-devel] NanoStringDiff package update

[Shepherd, Lori]

Sorry for the delay.  Please try again. We have just processed the keys again and it should be accessible.  If you continue to have issues please reply all so that it stays on the devel mailing list thread and other members of the team can also assist.


Cheers


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Zhai, Tingting <tingting.zhai at uky.edu>
Sent: Thursday, January 25, 2018 9:49:47 AM
To: Shepherd, Lori
Subject: Re: [Bioc-devel] NanoStringDiff package update

Hi Lori,
You are so helpful! I really appreciate it!
I submitted the form you mentioned above two days ago (Jan. 23). But when I run "git clone git at git.bioconductor.org:packages/NanoStringDiff.git", I still get the error that "Permission denied (publickey).
fatal: Could not read from remote repository." Does it mean that my key has not been added to your system?

Thank you again for your help.


Best wishes,
Tingting




On Thu, Jan 25, 2018 at 7:13 AM, Shepherd, Lori <Lori.Shepherd at roswellpark.org<mailto:Lori.Shepherd at roswellpark.org>> wrote:

Bioconductor has switched from svn to git, and was announced back in August 2017, so you are correct that you are no longer able to use svn to upload changes to the new location for the Bioconductor repository


git.bioconductor.org<http://git.bioconductor.org>


You don't have to use github to maintain your package locally (we do recommend it but not necessary) but we do require git for maintaining the Bioconductor canonical location.  There are lots of scenarios and useful FAQ section on the Bioconductor website


http://bioconductor.org/developers/how-to/git/



Create a new GitHub repository tutorial - will take you through how to convert an existing directory onto github and how to maintain the two locations (local github and bioconductor git location)


Maintain a Bioconductor-only repository  tutorial - will take you through how to link to the Bioconductor git.bioconductor.org<http://git.bioconductor.org> repository without creating a github.


There are many tutorials with how to push changes and how to pull from the Bioconductor repo (after a release happens this is necessary) and how to trouble shoot common issues.


The first step will be to submit an id and ssh-key to the following form to gain access to the package


https://docs.google.com/forms/d/1CCwUhjtG82rnmcTWYqY43WcmBx5YyQm5UD4pcs1dhEs/viewform?edit_requested=true


You will need to enter your email -  because you had an svn account your svn.id<http://svn.id> - and a ssh public key -


Cheers,



Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces at r-project.org<mailto:bioc-devel-bounces at r-project.org>> on behalf of Zhai, Tingting <tingting.zhai at uky.edu<mailto:tingting.zhai at uky.edu>>
Sent: Wednesday, January 24, 2018 2:17:17 PM
To: bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>
Subject: [Bioc-devel] NanoStringDiff package update

I’m one of the maintainers of NanoStringDiff package on Bioconductor. Now I
want to update this package and add some useful functions. I’m using SVN,
but when committing, it gives me this error: The new canonical location for
Bioconductor software and

data experiment packages is git.bioconductor.org<http://git.bioconductor.org>


The recommended way to maintain your Bioconductor software

or data experiment package is to use GitHub.



Does this mean I’m not able to use SVN to maintain my package any more? I’m
not familiar with github.


Thank you very much for any help in advance.


Best wishes,

Tingting

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