[Bioc-devel] Bioconductor package InterMineR

[Nitesh Turaga]

Hi,

Going back in time like this will cause major breaks in the way Bioconductor does releases and also just in general for users of the InterMineR package.

I think a better way is to just copy the changes from your earlier version during �Release 3.10� and apply them to your �devel� branch as a simple commit.

Also, I�d like you to think if making such a drastic change is needed for a �release� version. �Release 3.12� or any release is meant to fix high priority bugs only, and with Release 3.13 coming in about one month, is it worth it? Please think about this.

Best,

Nitesh

From: Kern, Lori <Lori.Shepherd using RoswellPark.org>
Date: Thursday, April 15, 2021 at 8:27 AM
To: rachel using intermine.org <rachel using intermine.org>, Nitesh Turaga <nturaga.bioc using gmail.com>
Subject: Re: Bioconductor package InterMineR
Looping one of our better git experts in for an opinion on this.

Nitesh, advise on reverting to previous version that won't cause conflicting issues?




Lori Shepherd

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: rachel using intermine.org <rachel using intermine.org>
Sent: Thursday, April 15, 2021 6:40 AM
To: Kern, Lori <Lori.Shepherd using RoswellPark.org>
Subject: Re: Bioconductor package InterMineR

Hi Lori,

Apologies for this.  I thought I had fixed a minor issue only to
introduce some more major errors.  I think I will need to go back to our
release 3.10 version so that we can then work on the errors now in the
3_12 version.  We had student work on this package but it seems we need
to fix a few things before we can submit their updates.

I have a question though - if I submit our 3.10 version to the
Bioconductor 3.12 release, should I sync with Bioconductor first? Or
would this re-introduce our current errors into our 3_10 version?

Many thanks,

Rachel.



On 2021-04-12 15:47, Kern, Lori wrote:
> The package has been failing since January. The package continues to
> fail.  This needs to be resolved to avoid deprecation.
>
> Lori Shepherd
>
> Bioconductor Core Team
>
> Roswell Park Comprehensive Cancer Center
>
> Department of Biostatistics & Bioinformatics
>
> Elm & Carlton Streets
>
> Buffalo, New York 14263
>
> -------------------------
>
> FROM: rachel using intermine.org <rachel using intermine.org>
> SENT: Friday, February 26, 2021 7:20 AM
> TO: Kern, Lori <Lori.Shepherd using RoswellPark.org>
> SUBJECT: Re: Bioconductor package InterMineR
>
> Hi Lori,
>
> Apologies, this is taking a little longer than I anticipated to sort
> out
> - but please be assured that we are working towards fixing the problem
>
> and hope to have it resolved by the end of next week,
>
> Best wishes,
>
> Rachel.
>
> On 2021-02-08 16:16, Kern, Lori wrote:
>> We would like to bring to your attention that your package is
> failing
>> to build
>> or check on our release and devel build machines:
>>
>> Devel:
>> bioconductor.org/checkResults/devel/bioc-LATEST/InterMineR
>>
>> Release:
>> bioconductor.org/checkResults/release/bioc-LATEST/InterMineR
>>
>> Would you mind taking a look at this? Don't hesitate to ask on the
>> bioc-devel mailing list if you have any question or need help.
>>
>>  This is very problematic.   If no action is taken over the next few
>> weeks we will begin the deprecation process for your package.  Thank
>> you for your time and effort
>>
>> Lori Shepherd
>>
>> Bioconductor Core Team
>>
>> Roswell Park Comprehensive Cancer Center
>>
>> Department of Biostatistics & Bioinformatics
>>
>> Elm & Carlton Streets
>>
>> Buffalo, New York 14263
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