[Bioc-devel] Update data in data package, pcxnData

Sokratis Kariotis s.kariotis at sheffield.ac.uk
Tue Mar 27 15:02:10 CEST 2018


Hey all,

Thanks for the advice. I managed to fix the problem of no permissions! My
windows machine, after an update, changed the paths to my github keys and
had to reposition them.  I have now succesfully pushed in both master and
RELEASE_3_6 branches.

Cheers,
Sokratis

On 26 March 2018 at 15:47, Turaga, Nitesh <Nitesh.Turaga at roswellpark.org>
wrote:

> Hi Sokratis,
>
> Your key(s) on file is
>
> ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQCmaqfMSKr3AtAPpMz5m4pITFaq6AVp+
> v8ABp7FfTvcirdZz834ECUsnlsvkLZL2uWtelNo7TFgaIo0Jfi21IDSZ3R0O
> yl49vsYXqHAB9CtH3yItiaddq+nLG4s+jnlAftWyQOFa/
> 02LyYwBvEnuacLxxZimveZ6VywBF9Q7pz3v+pGXZb9LDmK9khr6RvO+
> mRcD7dJyFt1CySEbxVZj/TKHwn4Vs9lQIISxeeKo9ypxFzW8YDzmACLga7u2BVX622/
> UjrrXanZhmNWcEEgxw3B8rgzDZi2YcwbBG3RqXncE29a6gEvsjqJbUh5jIyk
> 9cLunUjQpVwqrnlHXcRGjkLB
>
> ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQC9G4NrGqxmHJj26MBW4A2EJLCD8z+
> QV5fRehTPiNzwHztQiJzj8Kakesk8FcfZt1Y3cPZRhwzyuwxiZQRrB1qidg6
> nFfLwjHBi24xLo9RWQBxTfgCDWyUKb5WLFZn6wQWhWp10ooRz0oGX9Syh6rw
> +rCiHiFwE+CxTWjELwlASiuDUa/599MBe7Q2mMVmtP4QXFyaOGsq46I16
> k80Ta0YzM1bbIZlY+YFbmw8GhDrZ//z+2FJ241AR4nuTx8QJ6fXLMnfo8IgZtD
> xJYw3G24ZduP93Q47ptl4u5IElZzEceXN53VD1WQkphk4+SDr24Fm4qkYkQ2s5VaPk6Yh3oXYd
>
> ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQC7QB8rwK1n7/cD5rfDoZe/
> uSVGVqkBCHOEbfReiEt8dQCx1KqrjPFRv2geTDkhmQpSmVSWxKbrmbgMmogG
> QZykKmT2CybrGQZavOgwsFNzvkJYW8InfQ6eO09ovHKxW8u/
> kPBxuR8tUQAqWLaMVDp0UZseC79zqMAZRVOxvy4Esa5E/
> gIPDPrrhAVraTTqZjLGKOvii2WnInYZP4oR2KsBck5sIdYUFIdkDU73oHbTl
> vTl8ic7s5uiW94+VM5Cj8oi5sZtQKptdLK8cQWGerCcYj/
> ZzlvMpn1wXKbmGYiGVWDZy5qtO42UsW5EIVb1QlGXh//ppBJRnZ9ORSZahFsf
>
> ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAACAQDdEiGtAz6nXBAaGbUCLQFMWYE9mKRt
> Kf+20GTGAt83aM7uMpIH9fiHIFpe+5ghm3+68fKVTuprG2PYosiy3Nvk79/
> WZ02IZuYGfFHXEIhsa1aIVMNsofvOrwBhFezbvoZ3b9oPakFbQFiAtjPkN6h4drr+
> iQq4to4jc5wvYw07uqIEEG8nZfiB+QWa5s+rplTS3zJZzr7xpEDT/7ZHpKVduZUg34tzaN4+
> vONgofgOthUMWArO3oO69wPwAdoAUACRmXT02xknrcWZm4UtuhzT98FHLznS
> owZMLG3jm8vKgsgbH8UGGtz478UZW5xE4qS5LHiKJbcZFBCLFABUjCajuYF3
> z+bZF0cxbT9d+25kpp/p89lvljsvlE7vbxdqFmeobGSQ6ftDq5btdEHfD2rc++
> iWEZgmOGjcHtDxUem3nNGCOYtDkPAIKES5oCCtlD9sBL5gLFHTkl3KyxNdIs
> H9j0iNFdJmEHySZh2ePdrqG7ZE/FOKf77XTX+acqgydF+
> Dsep16lTIxk94MXLk7Sz2v8XQqFtETa5q0Gkm70Ok/qht/
> O80nWUT3QX44sPM4ivPckOHwnZjywpZyBONas26hP0M1pZSEvB5qLCMKyD4Y
> mTJ5aZkeCHh6wsW7CDZvNJl7dWyn2kxrxgin4nhqSrDryEYl3qYZxwOG0XzfHGVfQ==
>
> Are you sure you are using a private key which corresponds to any of these
> public keys? I’d start with that.
>
> Best
>
> Nitesh
>
>
> > On Mar 23, 2018, at 8:20 AM, Sokratis Kariotis <
> s.kariotis at sheffield.ac.uk> wrote:
> >
> > Hey Lori,
> >
> > While under the RELEASE_3_6 branch and using git fetch upstream or git
> push
> > upstream/RELEASE_3_6:
> >
> >
> >
> >
> >
> >
> > *Warning: Permanently added 'git.bioconductor.org
> > <http://git.bioconductor.org>,34.192.48.227' (ECDSA) to the list of
> known
> > hosts.Permission denied (publickey).fatal: Could not read from remote
> > repository.Please make sure you have the correct access rightsand the
> > repository exists.*
> >
> >
> > git remove -v results to:
> >
> >
> >
> >
> >
> >
> > *origin  https://github.com/hidelab/pcxn.git
> > <https://github.com/hidelab/pcxn.git> (fetch)origin
> > https://github.com/hidelab/pcxn.git <https://github.com/hidelab/pcxn.git
> >
> > (push)upstream        git at git.bioconductor.org:packages/pcxn.git
> > (fetch)upstream        git at git.bioconductor.org:packages/pcxn.git
> (push)*
> > The ssh command also gives:
> >
> >
> >
> >
> > *Warning: Permanently added 'git.bioconductor.org
> > <http://git.bioconductor.org>,34.192.48.227' (ECDSA) to the list of
> known
> > hosts.Permission denied (publickey).*
> >
> > *Cheers,*
> >
> > *Sokratis*
> >
> >
> > On 23 March 2018 at 11:35, Shepherd, Lori <Lori.Shepherd at roswellpark.org
> >
> > wrote:
> >
> >> Where you able to update master?  Or are you having access trouble
> >> for both branches?  Please use reply all so that other members on the
> team
> >> can answer when appropriate and the responses go to the mailing list.
> >>
> >> Your package is in the git repository and has access with the ID
> s.kariotis.
> >> Can you please copy the commands with the output you are receiving that
> >> make you think that you do not have access?
> >>
> >> Please also include the output of
> >>
> >> git remote -v
> >>
> >> and
> >>
> >> ssh -T git at git.bioconductor.org
> >> (you should see RW access next to your package)
> >>
> >>
> >> Please
> >>
> >>
> >>
> >> 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> on behalf of
> >> Shepherd, Lori <Lori.Shepherd at RoswellPark.org>
> >> *Sent:* Friday, November 24, 2017 10:13 AM
> >> *To:* Sokratis Kariotis; bioc-devel
> >> *Subject:* Re: [Bioc-devel] Update data in data package, pcxnData
> >>
> >> You should make changes and push to the master branch of your package at
> >> git at git.bioconductor.org:packages/pcxnData.git  .  This will update the
> >> devel version of your package.
> >>
> >> As long as the package builds correctly, It will be available for
> download
> >> immediately with Bioc devel 3.7.
> >>
> >>
> >> We don't encourage updating release unless it is a bug correction or
> >> justifiable updates, but if you push changes to the RELEASE_3_6 branch
> they
> >> will also be available in Bioc 3.6
> >>
> >>
> >> Instructions for pushing data to our git repository can be found here:
> >>
> >> http://bioconductor.org/developers/how-to/git/
> >>
> >>
> >> Remember to do a pull from our git repositories if you have not done so
> >> since the release as we update the versions when rolling out the
> release.
> >>
> >> http://bioconductor.org/developers/how-to/version-numbering/
> >>
> >>
> >>
> >> 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> on behalf of
> Sokratis
> >> Kariotis <s.kariotis at sheffield.ac.uk>
> >> Sent: Friday, November 24, 2017 10:02:13 AM
> >> To: bioc-devel
> >> Subject: [Bioc-devel] Update data in data package, pcxnData
> >>
> >> Hi all,
> >>
> >> I have a data package (pcxnData) that got released in 3.6 and I am
> >> wondering how long will it take, if I changed some of the data in that
> >> package for them to be publicly available in bioconductor instead of the
> >> old data. Can they be available sooner than the next release? Thanks in
> >> advance.
> >>
> >> Cheers,
> >> Sokratis Kariotis
> >>
> >>
> >>
> >> --
> >> Sokratis Kariotis
> >> Scientific Programmer
> >> Hidelab
> >> Sheffield Institute for Translational Neuroscience
> >> 385a Glossop Rd, Sheffield, S10 2HQ
> >> <https://maps.google.com/?q=385a+Glossop+Rd,+Sheffield,+
> S10+2HQ&entry=gmail&source=g>
> >>
> >>        [[alternative HTML version deleted]]
> >>
> >> _______________________________________________
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> >> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >>
> >>
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> >
> >
> >
> > --
> > Sokratis Kariotis
> > Scientific Programmer
> > Hidelab
> > Sheffield Institute for Translational Neuroscience
> > 385a Glossop Rd, Sheffield, S10 2HQ
> >
> >       [[alternative HTML version deleted]]
> >
> > _______________________________________________
> > Bioc-devel at 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
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>



-- 
Sokratis Kariotis
Scientific Programmer
Hidelab
Sheffield Institute for Translational Neuroscience
385a Glossop Rd, Sheffield, S10 2HQ

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