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

Wed Oct 11 19:10:53 CEST 2017

Yes! Now it works. Thank you!

On Tue, Oct 10, 2017 at 2:01 PM Vladislav Petyuk <petyuk at gmail.com> wrote:

> Done. Do you see it?
>
> On Tue, Oct 10, 2017 at 1:37 PM Turaga, Nitesh <
> Nitesh.Turaga at roswellpark.org> wrote:
>
>> 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
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>> > >>>
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>> > >>>
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>> > >
>> > >
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>> > > _______________________________________________
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>> >
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>>
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>

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