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

Tue Oct 10 22:28:36 CEST 2017

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.
>

	[[alternative HTML version deleted]]