[Bioc-devel] Python dependency [EXT]

[Daniele Muraro]

Thank you very much for your feedback, Martin and Hervé

Our goal is to make the package available in R as well for users who are more familiar with this programming language. Python would run behind the scenes, as kindly suggested by Hervé; basilisk seems a very good option.

Thanks again for your availability.

All the best,

Daniele

________________________________
From: Martin Morgan <mtmorgan.bioc using gmail.com>
Sent: 24 March 2020 19:00
To: Daniele Muraro; bioc-devel using r-project.org
Subject: Re: [Bioc-devel] Python dependency [EXT]

It's important to ask 'why Bioconductor?' with the answer partly involving interoperability with other Bioconductor packages and data representations (e.g., https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_developers_how-2Dto_commonMethodsAndClasses_&d=DwIGaQ&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=yCpxU9kUOSglCjD0f9I0mbtqYoQIuEdTmkr8GDGomoU&m=VIVgIcRwU_qiSw0x5ds06-YxaDcd7AlBe9fzHb4AsMA&s=mSXRlT-HCK_hPxX85NvYX68PuTna-LKiTo6sc-Ak9-g&e= ). There wouldn't be much value in making something that is essentially a python package without connection to Bioconductor available in Bioconductor.

Martin

On 3/24/20, 11:59 AM, "Bioc-devel on behalf of Daniele Muraro" <bioc-devel-bounces using r-project.org on behalf of dm19 using sanger.ac.uk> wrote:

    To whom it may concern,

    I would like to upload onto Bioconductor a package which is currently developed in python.
    I was wondering if Bioconductor supports python dependencies or if I should re-program the package in R exclusively. Is calling python from R using the package "reticulate" acceptable for a package submission onto Bioconductor?
    Thank you for your attention.

    All the best,

    Daniele Muraro




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-- 
 The Wellcome Sanger Institute is operated by Genome Research 
 Limited, a charity registered in England with number 1021457 and a 
 company registered in England with number 2742969, whose registered 
 office is 215 Euston Road, London, NW1 2BE.
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