[Bioc-devel] About rcellminerData and rcellminerData new versions

[Elloumi, Fathi (NIH/NCI) [C]]

Thanks Nitesh for you prompt response.

Dear Bioconductor team,

Could please help reset the two packages rcellminer and rcellminerData to a previous commit done on April the 27th (I think version 2.10.0).

Thanks,

Fathi

From: Nitesh Turaga <nturaga.bioc using gmail.com>
Date: Friday, August 21, 2020 at 12:39 PM
To: "Elloumi, Fathi (NIH/NCI) [C]" <fathi.elloumi using nih.gov>
Cc: "Van Twisk, Daniel" <Daniel.VanTwisk using RoswellPark.org>, Hervé Pagès <hpages using fredhutch.org>, Nitesh Turaga <nitesh.turaga using gmail.com>, bioc-devel <bioc-devel using r-project.org>
Subject: Re: About rcellminerData and rcellminerData new versions

Hi,

It is an enhancement. Only bug fixes should go into RELEASE_3_11.

The devel branch is the “master” branch in git, there is no RELEASE_3_12 yet. We will create it in the next release. Push your changes to the “master” branch.

Address your emails to bioc-devel using r-project.org<mailto:bioc-devel using r-project.org>.

Nitesh


On Aug 21, 2020, at 12:34 PM, Elloumi, Fathi (NIH/NCI) [C] <fathi.elloumi using nih.gov<mailto:fathi.elloumi using nih.gov>> wrote:

Dear Bioconductor team,

As mentioned in my previous email (please see below), do you consider adding and cleaning data an enhancement should be only included in the develop branch and NOT in the current release (3_11) branch version but in the new release 3_12?

I followed the instructions at https://bioconductor.org/developers/how-to/git/sync-existing-repositories/<https://secure-web.cisco.com/1wzo1Tbjitl2EN1_GywseAoblHfVez1mpR_8vtKAOR5f0SO5CK8EMPzf8lWYBMwUWDdtVm2grbA7V-FkME7sCxvoM2zAWl4-mKDEVlEBfIUHGG-fKAlYcFyWx5bbHmwP1WZPfm0pV8GFVSuNiWC3uoBSC5-Cn3tupqwknT4r6LZTSWEg0apO9OSaqMbuxDNVA9LhQg_2jkq5BkR6lvEglfR6jT7g7PGZBCto81NotT2sZ4fhV2ebLzDk17p6MMW0tk3NiwkA__fQoJg8zwhAoL4y9mygXWwFtJWtvNCth-SmXGKPmrDO9hDeUWsJeW3fJtGNCcVvHerOGfis4AvhRQ8Qu9-PVlnfShavxSk8gnL4/https%3A%2F%2Fbioconductor.org%2Fdevelopers%2Fhow-to%2Fgit%2Fsync-existing-repositories%2F> with instruction to update on both devel and release branches.
Please advise.

Best,

Fathi

From: "Elloumi, Fathi (NIH/NCI) [C]" <fathi.elloumi using nih.gov<mailto:fathi.elloumi using nih.gov>>
Date: Friday, August 21, 2020 at 10:51 AM
To: "Van Twisk, Daniel" <Daniel.VanTwisk using RoswellPark.org<mailto:Daniel.VanTwisk using RoswellPark.org>>
Subject: About rcellminerData and rcellminerData new versions

Dear Daniel,

This week I pushed new version (2.10.2) for both packages rcellminer and rcellminerData in the release_3_11 adding new drug data and cleaning some “bad” experiments. Do you consider this against your policy here below.

From the Bioconductor paper in 2004
(https://genomebiology.biomedcentral.com/articles/10.1186/gb-2004-5-10-r80<https://secure-web.cisco.com/1VIGZ7EAtIYsfu6Ca661xpkH3USe0M_NVD2dMnpqmIJ-zLYogJiX-cBH9RcpX52D-aC7BLB6FzOEn03TBiMT0pAvlhYMIBhC18-gtN9awFCHYIH3V15aqi49y7yXs-HsjyOe7ybNZVC53ZCqKbOdtIRR773n2VId06RB6IAVxHuk_hhgVIu-4E4ISA5vNuqH3u352mqCz22_nYduC4PpyCSle6oXb5Tn1j0TWVa3Sm9g7xuBa2K8Mr6Nej9LEuMaeGGefdD08Ty8HlFxk3ozUp0K5ykcKsbsddKmN4aZkcz5qGfIIH81qRBv1wx0CQTavgHihm3S-z5BRj7nDFHkHBQ/https%3A%2F%2Fgenomebiology.biomedcentral.com%2Farticles%2F10.1186%2Fgb-2004-5-10-r80>):
The only changes allowed to be made on the release version are bug
fixes and documentation improvements. This ensures that users will not
encounter radical new behaviors in code obtained in the release
version. All other changes such as enhancements or design changes are
carried out on the development branch [34].

Please let me know asap and if needed we will back to previous commit.

Thanks,

-- Fathi

Fathi Elloumi, PhD
Sr. Bioinformatics Software Engineer
Contractor GDIT Inc
Developmental Therapeutics Branch
NIH/NCI/CCR
Phone: 240-760-6601


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