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

[Vladislav Petyuk]

Yes! Now it works. Thank you!

On Tue, Oct 10, 2017 at 2:01 PM Vladislav Petyuk  wrote:

> Done. Do you see it?
>
> On Tue, Oct 10, 2017 at 1:37 PM Turaga, Nitesh <
> nitesh.tur...@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  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 
>> wrote:
>> > done
>> >
>> > On Tue, Oct 10, 2017 at 1:24 PM Turaga, Nitesh <
>> nitesh.tur...@roswellpark.org> wrote:
>> > Please resubmit.
>> >
>> >
>> > > On Oct 10, 2017, at 4:24 PM, Turaga, Nitesh
>>  wrote:
>> > >
>> > > We do not have a submission with that email.
>> > >
>> > > Nitesh
>> > >
>> > >> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk 
>> wrote:
>> > >>
>> > >> pet...@gmail.com
>> > >>
>> > >> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh <
>> nitesh.tur...@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
>>  wrote:
>> > >>>
>> > >>>
>> > >>>
>> > >>>
>> > >>> 
>> > >>> From: Vladislav Petyuk 
>> > >>> 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 = g...@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.vantw...@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
>> > >>> This form allows Bioconductor developers to submit SSH keys for
>> access to their Bioconductor git repository.
>> > >>>
>> > >>>
>> > >>>
>> > >>> 
>> > >>> From: Vladislav Petyuk >
>> > >>> 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 

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

[Vladislav Petyuk]

Done. Do you see it?

On Tue, Oct 10, 2017 at 1:37 PM Turaga, Nitesh <
nitesh.tur...@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  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 
> wrote:
> > done
> >
> > On Tue, Oct 10, 2017 at 1:24 PM Turaga, Nitesh <
> nitesh.tur...@roswellpark.org> wrote:
> > Please resubmit.
> >
> >
> > > On Oct 10, 2017, at 4:24 PM, Turaga, Nitesh
>  wrote:
> > >
> > > We do not have a submission with that email.
> > >
> > > Nitesh
> > >
> > >> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk 
> wrote:
> > >>
> > >> pet...@gmail.com
> > >>
> > >> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh <
> nitesh.tur...@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
>  wrote:
> > >>>
> > >>>
> > >>>
> > >>>
> > >>> 
> > >>> From: Vladislav Petyuk 
> > >>> 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 = g...@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.vantw...@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
> > >>> This form allows Bioconductor developers to submit SSH keys for
> access to their Bioconductor git repository.
> > >>>
> > >>>
> > >>>
> > >>> 
> > >>> From: Vladislav Petyuk >
> > >>> 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 

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

[Vladislav Petyuk]

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  wrote:

> done
>
> On Tue, Oct 10, 2017 at 1:24 PM Turaga, Nitesh <
> nitesh.tur...@roswellpark.org> wrote:
>
>> Please resubmit.
>>
>>
>> > On Oct 10, 2017, at 4:24 PM, Turaga, Nitesh
>>  wrote:
>> >
>> > We do not have a submission with that email.
>> >
>> > Nitesh
>> >
>> >> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk 
>> wrote:
>> >>
>> >> pet...@gmail.com
>> >>
>> >> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh <
>> nitesh.tur...@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
>>  wrote:
>> >>>
>> >>>
>> >>>
>> >>>
>> >>> 
>> >>> From: Vladislav Petyuk 
>> >>> 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 = g...@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.vantw...@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
>> >>> This form allows Bioconductor developers to submit SSH keys for
>> access to their Bioconductor git repository.
>> >>>
>> >>>
>> >>>
>> >>> 
>> >>> From: Vladislav Petyuk >
>> >>> 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 > > 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 > > 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 

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

[Vladislav Petyuk]

done

On Tue, Oct 10, 2017 at 1:24 PM Turaga, Nitesh <
nitesh.tur...@roswellpark.org> wrote:

> Please resubmit.
>
>
> > On Oct 10, 2017, at 4:24 PM, Turaga, Nitesh
>  wrote:
> >
> > We do not have a submission with that email.
> >
> > Nitesh
> >
> >> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk  wrote:
> >>
> >> pet...@gmail.com
> >>
> >> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh <
> nitesh.tur...@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
>  wrote:
> >>>
> >>>
> >>>
> >>>
> >>> 
> >>> From: Vladislav Petyuk 
> >>> 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 = g...@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.vantw...@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
> >>> This form allows Bioconductor developers to submit SSH keys for access
> to their Bioconductor git repository.
> >>>
> >>>
> >>>
> >>> 
> >>> From: Vladislav Petyuk >
> >>> 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  > 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  > 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 

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

[Turaga, Nitesh]

Please resubmit. 


> On Oct 10, 2017, at 4:24 PM, Turaga, Nitesh  
> wrote:
> 
> We do not have a submission with that email. 
> 
> Nitesh
> 
>> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk  wrote:
>> 
>> pet...@gmail.com
>> 
>> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh 
>>  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 
>>>  wrote:
>>> 
>>> 
>>> 
>>> 
>>> 
>>> From: Vladislav Petyuk 
>>> 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 = g...@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 
>>> > 
>>> 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]
>>> 
>>> Bioconductor SSH 
>>> keys
>>> docs.google.com
>>> This form allows Bioconductor developers to submit SSH keys for access to 
>>> their Bioconductor git repository.
>>> 
>>> 
>>> 
>>> 
>>> From: Vladislav Petyuk >
>>> 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 
>>> > 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 
>>> > 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 
>>> > wrote:
>>> Will try. Thanks for bringing this to my attention, Vlad
>>> 
>>> On Fri, Sep 29, 2017 at 1:01 PM Van Twisk, Daniel 
>>> 

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

[Turaga, Nitesh]

We do not have a submission with that email. 

Nitesh

> On Oct 10, 2017, at 4:10 PM, Vladislav Petyuk  wrote:
> 
> pet...@gmail.com
> 
> On Tue, Oct 10, 2017 at 1:08 PM Turaga, Nitesh 
>  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 
> >  wrote:
> >
> >
> >
> >
> > 
> > From: Vladislav Petyuk 
> > 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 = g...@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 
> > > 
> > 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]
> >
> > Bioconductor SSH 
> > keys
> > docs.google.com
> > This form allows Bioconductor developers to submit SSH keys for access to 
> > their Bioconductor git repository.
> >
> >
> >
> > 
> > From: Vladislav Petyuk >
> > 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 
> > > 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 
> > > 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 
> > > wrote:
> > Will try. Thanks for bringing this to my attention, Vlad
> >
> > On Fri, Sep 29, 2017 at 1:01 PM Van Twisk, Daniel 
> > > 
> > wrote:
> >
> > Hello,
> >
> >
> > I am a member of the Bioconductor core team and am 

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

[Turaga, Nitesh]

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 
>  wrote:
> 
> 
> 
> 
> 
> From: Vladislav Petyuk 
> 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 = g...@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 
> > 
> 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]
> 
> Bioconductor SSH 
> keys
> docs.google.com
> This form allows Bioconductor developers to submit SSH keys for access to 
> their Bioconductor git repository.
> 
> 
> 
> 
> From: Vladislav Petyuk >
> 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 
> > 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 
> > 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 
> > wrote:
> Will try. Thanks for bringing this to my attention, Vlad
> 
> On Fri, Sep 29, 2017 at 1:01 PM Van Twisk, Daniel 
> > 
> 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 

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

[Van Twisk, Daniel]

From: Vladislav Petyuk 
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 = g...@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 
> 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]

Bioconductor SSH 
keys
docs.google.com
This form allows Bioconductor developers to submit SSH keys for access to their 
Bioconductor git repository.




From: Vladislav Petyuk >
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 
> 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 
> 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 
> wrote:
Will try. Thanks for bringing this to my attention, Vlad

On Fri, Sep 29, 2017 at 1:01 PM Van Twisk, Daniel 
> 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