[Bioc-devel] Updates not affected

Oghabian, Ali ali.oghabian at helsinki.fi
Thu Feb 8 21:55:49 CET 2018 

So the release version was updated now. I guess it is affected with a bit of delay.
Cheers!
--

Ali Oghabian
Bioinformatics,

RNA-splicing laboratory (Room 4024B),
Institute of Biotechnology,
P.O.Box 56 (Viikinkaari 5),
00014 University of Helsinki
Finland.

Email: ali.oghabian at helsinki.fi
Phone: +358 50 4484569
________________________________
From: Oghabian, Ali
Sent: 08 February 2018 22:35:37
To: Martin Morgan; Turaga, Nitesh; bioc-devel
Subject: Re: [Bioc-devel] Updates not affected


Thank you for the information. No actually I`m downloading the Bioc-devel now however I assume this is related to the devel version of the packages? How about the Release version?

My git commits have not been affected in the release version either.

Cheers,

Ali
--

Ali Oghabian
Bioinformatics,

RNA-splicing laboratory (Room 4024B),
Institute of Biotechnology,
P.O.Box 56 (Viikinkaari 5),
00014 University of Helsinki
Finland.

Email: ali.oghabian at helsinki.fi
Phone: +358 50 4484569
________________________________
From: Martin Morgan <martin.morgan at roswellpark.org>
Sent: 08 February 2018 20:38:04
To: Oghabian, Ali; Turaga, Nitesh; bioc-devel
Subject: Re: [Bioc-devel] Updates not affected

remember that Bioconductor has _nightly_ builds, so commits today won't
be reflected until tomorrow's build. See

   http://bioconductor.org/checkResults/
   http://bioconductor.org/checkResults/3.7/bioc-LATEST/

http://bioconductor.org/checkResults/3.7/bioc-LATEST/IntEREst/malbec2-buildsrc.html

Note the information in the left top of the above, Snapshot Date ad Last
Commit for information on when the last completed builds started.

Looks like this commit

commit c28e2aafa6311d1eaebbf96d87b241574558f35f
Author: Ali Oghabian <oghabian at introni.biocenter.helsinki.fi>
Date:   Wed Feb 7 12:09:13 2018 +0200

     Add psi() function + improve annotateU12() and referencePrepare() +
Remove eBayesInterest + Improve vignette

did not build without error, and this commit

commit 555f3fc33ac167e95ea7cf36fb5e8259d803c39f
Author: Ali Oghabian <oghabian at introni.biocenter.helsinki.fi>
Date:   Thu Feb 8 12:23:04 2018 +0200

     Improve vignette and correct DESCRITPTION

has not yet built.

Did you build and check your package (with R-devel and current
Bioc-devel packages) before pushing your commits?

Martin Morgan

On 02/08/2018 01:31 PM, Oghabian, Ali wrote:
> Hi again!
>
> Ok, from now on I'll send to the email list.
>
>
> git remote -v
> origin  https://github.com/gacatag/IntEREst.git (fetch)
> origin  https://github.com/gacatag/IntEREst.git (push)
> upstream        git at git.bioconductor.org:packages/IntEREst (fetch)
> upstream        git at git.bioconductor.org:packages/IntEREst (push)
>
>
> I made extensive changes to both devel and release.
>
> As an example I increased the z in the (x.y.z) version:
>
>
> The release version should be at 1.2.2 (not 1.2.0 !) (https://bioconductor.org/packages/release/bioc/html/IntEREst.html)
>
> The devel version should be at 1.3.2 (not 1.3.0 !)
>
> (https://www.bioconductor.org/packages/3.7/bioc/html/IntEREst.html<https://www.bioconductor.org/packages/3.7/bioc/html/IntEREst.html>)
>
>
> Cheers,
>
>
> Ali
>
>
> --
>
> Ali Oghabian
> Bioinformatics,
>
> RNA-splicing laboratory (Room 4024B),
>
> Institute of Biotechnology,
> P.O.Box 56 (Viikinkaari 5),
> 00014 University of Helsinki
> Finland.
>
> Email: ali.oghabian at helsinki.fi<https://webmail.helsinki.fi/horde/imp/dynamic.php?page=mailbox#>
> Phone: +358 50 4484569
>
> ________________________________
> From: Turaga, Nitesh <Nitesh.Turaga at RoswellPark.org>
> Sent: 08 February 2018 20:11:38
> To: Oghabian, Ali; bioc-devel
> Subject: Re: Updates not affected
>
> Hi Ali,
>
> Please send all these queries to the bioc-devel mailing list. There are other people on the team/developer community who can help you with these questions in the event there is no response from us.
>
> I need more information to check the your package,
>
>          git remote -v (so that I can see that your git repo is set up correctly)
>
> What commits are the ones you are expecting to see in the bioconductor git repo?
>
> We have started an RSS feed which is updated every 20 mins, https://stat.ethz.ch/pipermail/bioc-devel/2018-January/012577.html. Please follow that if you want to see if your changes are in effect.
>
> Best,
>
> Nitesh
>
>
>> On Feb 8, 2018, at 12:58 PM, Oghabian, Ali <ali.oghabian at helsinki.fi> wrote:
>>
>> Dear Nitesh Hello.
>>
>> Few hours ago I pushed several commits to the develop and release version of our package IntEREst. It has not yet been affected though and the updates are not shown in Bioconductor website. Could you kindly check the situation of the updates?
>>
>> To update release version I ran:
>> git push origin RELEASE_3_6
>> and
>> git push upstream RELEASE_3_6
>>
>> To update develop version I ran:
>> git push origin
>> and
>> git push upstream
>>
>> The changes have already been affected in github.
>>
>> cheers,
>>
>> Ali
>>
>> --
>>
>> Ali Oghabian
>> Bioinformatics,
>>
>> RNA-splicing laboratory (Room 4024B),
>> Institute of Biotechnology,
>> P.O.Box 56 (Viikinkaari 5),
>> 00014 University of Helsinki
>> Finland.
>>
>> Email: ali.oghabian at helsinki.fi
>> Phone: +358 50 4484569
>
>
>
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