[Bioc-devel] Fw: EXTERNAL: Re: MSnID failing on release and devel

Tue Oct 10 22:37:11 CEST 2017

I believe you have the wrong form.  https://docs.google.com/forms/d/1CCwUhjtG82rnmcTWYqY43WcmBx5YyQm5UD4pcs1dhEs (this is the correct link).

http://master.bioconductor.org/developers/how-to/git/faq/ (point #3)

Best,

Nitesh 

> On Oct 10, 2017, at 4:30 PM, Vladislav Petyuk <petyuk at gmail.com> wrote:
> 
> Here is the link I was using. 
> https://docs.google.com/forms/d/e/1FAIpQLSdYJ86-qpStdbbcPzFFXO4_XWnN8DvF2dOgNLE_iWNd0J-g8g/viewform
> 
> On Tue, Oct 10, 2017 at 1:28 PM Vladislav Petyuk <petyuk at gmail.com> wrote:
> done
> 
> On Tue, Oct 10, 2017 at 1:24 PM Turaga, Nitesh <Nitesh.Turaga at roswellpark.org> wrote:
> Please resubmit.
> 
> 
> > On Oct 10, 2017, at 4:24 PM, Turaga, Nitesh <Nitesh.Turaga at RoswellPark.org> wrote:
> >
> > We do not have a submission with that email.
> >
> > Nitesh
> >
> >> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk <petyuk at gmail.com> wrote:
> >>
> >> petyuk at gmail.com
> >>
> >> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh <Nitesh.Turaga at roswellpark.org> wrote:
> >> Hi,
> >>
> >> What is the email you submitted with? So that I can check your submission.
> >>
> >> Nitesh
> >>
> >>
> >>> On Oct 10, 2017, at 3:57 PM, Van Twisk, Daniel <Daniel.VanTwisk at RoswellPark.org> wrote:
> >>>
> >>>
> >>>
> >>>
> >>> ________________________________
> >>> From: Vladislav Petyuk <petyuk at gmail.com>
> >>> Sent: Tuesday, October 10, 2017 2:56 PM
> >>> To: Van Twisk, Daniel
> >>> Subject: EXTERNAL: Re: MSnID failing on release and devel
> >>>
> >>>
> >>> I submitted my SSH RSA key back on Friday evening.
> >>>
> >>> made sure that I have upstream in .git/config
> >>>
> >>> [remote "upstream"]
> >>>
> >>> url = git at git.bioconductor.org:packages/MSnID.git
> >>>
> >>> fetch = +refs/heads/*:refs/remotes/upstream/*
> >>>
> >>>
> >>> But still can't fetch "upstream". What am I missing (if anything)?
> >>>
> >>>
> >>> WE33801:MSnID d3m629$ git fetch --all
> >>>
> >>> Fetching origin
> >>>
> >>> Fetching upstream
> >>>
> >>> Permission denied (publickey).
> >>>
> >>> fatal: Could not read from remote repository.
> >>>
> >>>
> >>> Please make sure you have the correct access rights
> >>>
> >>> and the repository exists.
> >>>
> >>> error: Could not fetch upstream
> >>>
> >>> WE33801:MSnID d3m629$
> >>>
> >>> On Fri, Oct 6, 2017 at 7:15 AM Van Twisk, Daniel <Daniel.VanTwisk at roswellpark.org<mailto:Daniel.VanTwisk at roswellpark.org>> wrote:
> >>>
> >>> MSnID is a package that has been on Biocondcutor for three years, so there is no reason to set up a webhook as described in the "adding-a-web-hook" section in contributions.  The Bioconductor Mirror that you referred to (https://github.com/Bioconductor-mirror/MSnID) is deprecated and will no longer reflect further changes to your package.  I can see that you've recently made new commits to your package on your github repository.  To push the changes on the Bioconductor git server, you must first complete this Google form, if you have not already done so, so that you can have write access to your package on the BIoconductor git server (https://docs.google.com/forms/d/e/1FAIpQLSdYJ86-qpStdbbcPzFFXO4_XWnN8DvF2dOgNLE_iWNd0J-g8g/viewform).  Once this is done, you need to follow the instructions at this link to sync your existing git repository to the server's https://master.bioconductor.org/developers/how-to/git/sync-existing-repositories/.
> >>>
> >>> [https://lh4.googleusercontent.com/aw68Dl1RAj_x7Ub4askJuRpQYDopphhllaweY9qUhJUjm2rblsz_BOrqXW1Zk_lQUcA=w1200-h630-p]<https://docs.google.com/forms/d/e/1FAIpQLSdYJ86-qpStdbbcPzFFXO4_XWnN8DvF2dOgNLE_iWNd0J-g8g/viewform>
> >>>
> >>> Bioconductor SSH keys<https://docs.google.com/forms/d/e/1FAIpQLSdYJ86-qpStdbbcPzFFXO4_XWnN8DvF2dOgNLE_iWNd0J-g8g/viewform>
> >>> docs.google.com<http://docs.google.com>
> >>> This form allows Bioconductor developers to submit SSH keys for access to their Bioconductor git repository.
> >>>
> >>>
> >>>
> >>> ________________________________
> >>> From: Vladislav Petyuk <petyuk at gmail.com<mailto:petyuk at gmail.com>>
> >>> Sent: Friday, October 6, 2017 2:56:05 AM
> >>> To: Van Twisk, Daniel
> >>> Subject: Re: MSnID failing on release and devel
> >>>
> >>> Daniel, could you help to sort out the following problem?
> >>> I created webhook as described here
> >>> https://github.com/Bioconductor/Contributions#adding-a-web-hook
> >>> However, the test delivery didn't do through.
> >>> https://github.com/vladpetyuk/MSnID/settings/hooks/16670279#delivery-response
> >>> It says "400 Bad Request"
> >>>
> >>> I'd appreciated any pointers,
> >>> Vlad
> >>>
> >>> On Thu, Oct 5, 2017 at 12:59 PM Vladislav Petyuk <petyuk at gmail.com<mailto:petyuk at gmail.com>> wrote:
> >>> I believe before it was set though webhook. Now it is a bit different.  I'll try to sort it out
> >>> http://master.bioconductor.org/developers/how-to/git/maintain-github-bioc/
> >>>
> >>> On Thu, Oct 5, 2017 at 12:45 PM Vladislav Petyuk <petyuk at gmail.com<mailto:petyuk at gmail.com>> wrote:
> >>> The problem is fixed.
> >>> I apologize if I lost track how Bioconductor packages are updated.  It used to be that once the commit pushed to GitHub it is propagated to Bioconductor's GitHub.
> >>> The code is updated on my account, but not on Bioconductors (after 30 min wait time).
> >>> https://github.com/vladpetyuk/MSnID
> >>> https://github.com/Bioconductor-mirror/MSnID
> >>> Please suggest how to make sure the code fix gets into Bioconductor repo.
> >>> Thanks,
> >>> Vlad
> >>>
> >>>
> >>> On Fri, Sep 29, 2017 at 1:05 PM Vladislav Petyuk <petyuk at gmail.com<mailto:petyuk at gmail.com>> wrote:
> >>> Will try. Thanks for bringing this to my attention, Vlad
> >>>
> >>> On Fri, Sep 29, 2017 at 1:01 PM Van Twisk, Daniel <Daniel.VanTwisk at roswellpark.org<mailto:Daniel.VanTwisk at roswellpark.org>> wrote:
> >>>
> >>> Hello,
> >>>
> >>>
> >>> I am a member of the Bioconductor core team and am emailing you to notify you that a package you are maintaining, MSnID, is failing on our release and devel single package builders: https://www.bioconductor.org/checkResults/release/bioc-LATEST/MSnID/veracruz2-buildsrc.html & https://www.bioconductor.org/checkResults/devel/bioc-LATEST/MSnID/veracruz1-buildsrc.html.  Version 3.6 of Bioconductor is coming soon and we would like the release to be free of errors.  In addition, If your package is failing on the release branch, these failures will be cemented into version 3.5 of Bioconductor.  For these reasons, we ask you make the fixes to your package by mid-October.  If you have any question, please don't hesitate to reply.
> >>>
> >>>
> >>> Thank you.
> >>>
> >>>
> >>> 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.
> >>>
> >>> 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.
> >>>
> >>>
> >>> 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.
> >>>      [[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 e-mail and delete this email message from your computer. Thank you.
> >
> >
> >
> > 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 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 e-mail and delete this email message from your computer. Thank you.

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.