[Bioc-devel] How to change the name of R package that is already published on Bioconductor?

[Junpeng Zhang]

Thanks, Herve for your reminding.
I have further improved the mentioned two packages (miRspongeR and miRSM).
Regards,
Junpeng ZhangSchool of Engineering, Dali UniversityWebsite: https://www.researchgate.net/profile/Junpeng_Zhang3 

    On Friday, April 19, 2019, 1:30:25 PM GMT+8, Pages, Herve <hpages using fredhutch.org> wrote:  
 
 Hi Juanpeng,

I notice that the new miRspongeR package also displays the package 
startup message explaining the name change from miRsponge to 
miRspongeR.. Note that you only need to have this message in the old 
miRsponge package (which is now officially deprecated in BioC 3.9). 
Having the message in the new miRspongeR package is not needed and might 
only confuse your users.

Also the miRSM package now should import miRspongeR instead of miRsponge.

Thanks,

H.


On 3/6/19 16:06, Junpeng Zhang via Bioc-devel wrote:
> Thanks, Nitesh.
> Regards,
> Junpeng ZhangSchool of Engineering, Dali UniversityWebsite: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.researchgate.net_profile_Junpeng-5FZhang3&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=cbx6n5EQdF8XyDXsfl8jAn23rMl0Wr_KlygZJlotE68&s=raF3P8uAjLTGnVSrMUOXE0XtnN5LLclAD-PrragYPbI&e=
>
>      On Wednesday, March 6, 2019, 11:30:23 PM GMT+8, Turaga, Nitesh <Nitesh.Turaga using RoswellPark.org> wrote:
>  
>  Hi Juanpeng,
> You should now have access to miRspongeR on git.bioconductor.org. Before making any changes, please make sure to “sync” the GitHub andgit.bioconductor.org repositories for miRspongeR.
> Link to instructions: https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_developers_how-2Dto_git_sync-2Dexisting-2Drepositories_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=cbx6n5EQdF8XyDXsfl8jAn23rMl0Wr_KlygZJlotE68&s=n4sbuqwWP6Osif_UEZSHjwpzATAjhuMO7-_a7tIV3dE&e=
> Best,
> Nitesh
>
>
> On Mar 5, 2019, at 8:19 PM, Junpeng Zhang <zhangjunpeng_411 using yahoo.com> wrote:
> Hi Nitesh,
> Sorry for this thing.
> I have added the .onLoad function in the zzz.R file. Please check the commits both today and yesterday.
> If you have further issues, please let me know. Thanks.
> Regards,
> Junpeng ZhangSchool of Engineering, Dali UniversityWebsite: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.researchgate.net_profile_Junpeng-5FZhang3&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=cbx6n5EQdF8XyDXsfl8jAn23rMl0Wr_KlygZJlotE68&s=raF3P8uAjLTGnVSrMUOXE0XtnN5LLclAD-PrragYPbI&e=
>
> On Wednesday, March 6, 2019, 4:11:52 AM GMT+8, Turaga, Nitesh <Nitesh.Turaga using RoswellPark.org> wrote:
>
> Hi Junpeng,
> Yes it is possible to do this.
> 1. We will first deprecate your package miRsponge in the devel version of Bioconductor.
> a) You will need to add .onLoad function, which points users to the new package ‘miRspongeR’.
> The .onLoad function goes in the zzz.R file, and it will throw a package deprecation message point users to the new package.
> b) Push these changes to the package ongit.bioconductor.org
>
> 2. Once these changes are pushed, please reply to this email, and we’ll give you access to the new package miRspongeR.
> NOTE: Make sure you make only deprecation commits to miRsponge from this point forth. All package development you want to actually take forward will go in the new package (which you will get access to)
> Best,
> Nitesh
>
>
> On Mar 5, 2019, at 9:33 AM, Junpeng Zhang via Bioc-devel <bioc-devel using r-project.org> wrote:
> Dear Bioconductor developers,
>
> I am maintaining an R/Bioconductor package called miRsponge.  However, the name miRsponge is very similar with an existing database (miRSponge, https://urldefense.proofpoint.com/v2/url?u=http-3A__www.bio-2Dbigdata.net_miRSponge_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=cbx6n5EQdF8XyDXsfl8jAn23rMl0Wr_KlygZJlotE68&s=lTEZY9DTTECbF_gakiLXba-WAOWPyrGKtseOi_mSDek&e=). To make the package more distinct, I want to change the the name of package into miRspongeR. The name miRspongeR will be more distinct.
> Is it possible to change the the name of R package that is already published on Bioconductor?
> Sorry for this thing. Thanks in advance!
> Regards,
> Junpeng ZhangSchool of Engineering, Dali UniversityWebsite: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.researchgate.net_profile_Junpeng-5FZhang3&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=cbx6n5EQdF8XyDXsfl8jAn23rMl0Wr_KlygZJlotE68&s=raF3P8uAjLTGnVSrMUOXE0XtnN5LLclAD-PrragYPbI&e=
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-- 
Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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