[Bioc-devel] about deprecate package DNABarcode
Hi everyone, I updated/fixed the package some time ago and DNABarcodes builds and tests successfully on all Bioconductor platforms. I have a working setup to continue working on any problems with the package. Therefore, I would like to request the package to be un-deprecated. Regards, Tilo
On 27.03.24 15:27, Kern, Lori wrote:
You'll have to remind them to request un-deprecation here or on the
emails they were reached out to.? We will not un-deprecate until the
package is fixed and they request the package not be deprecated to
prove they have an active email.
Lori Shepherd - Kern
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
------------------------------------------------------------------------
*From:* Pedro S?nchez S?nchez <bio.pedro.technology at gmail.com>
*Sent:* Wednesday, March 27, 2024 10:23 AM
*To:* Sun Wenjie <wenjie.sun at curie.fr>
*Cc:* Kern, Lori <Lori.Shepherd at RoswellPark.org>;
bioc-devel at r-project.org <bioc-devel at r-project.org>;
buschmann at b-n-w.org <buschmann at b-n-w.org>
*Subject:* Re: [Bioc-devel] about deprecate package DNABarcode
Hi Sun,
Yes! I was about to write the same to you hahaha
It's great news!
Best,
Pedro
On Wed, Mar 27, 2024, 15:18 Sun Wenjie <wenjie.sun at curie.fr> wrote:
Hi Pedro,
Tilo has responded and is currently updating the DNABarcode package.
Best,
Wenjie
________________________________________
From: Pedro S?nchez S?nchez <bio.pedro.technology at gmail.com>
Sent: Wednesday, March 20, 2024 1:58 PM
To: Kern, Lori
Cc: Sun Wenjie; bioc-devel at r-project.org
Subject: Re: [Bioc-devel] about deprecate package DNABarcode
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Hi all,
I also tried to contact the author on the available email contacts
(waiting for response from
tilo.buschmann.ac at gmail.com<mailto:tilo.buschmann.ac at gmail.com>;
depreciated email
tilo.buschmann at izi.fraunhofer.de<mailto:tilo.buschmann at izi.fraunhofer.de>)
I found on the internet. If I get a response, I'll let you know.
It will be a pity if DNABarcodes is depreciated for lacking of
maintenance.
Just in case, it is helpful for someone, I just want to mention
there is an apparently similar repository on GitHub with the same
goal as DNABarcodes, by other developers and written in
Python/Jupyter Notebooks: https://github.com/feldman4/dna-barcodes
<https://secure-web.cisco.com/1apD5NMnNtMjEjs9vEqX18MVGxCO8MShxqR-qjMPFVhSwyP0pu91zeYne0Xke-0sY4TwWe9k6enUSTxs7T7NzRPMaF1o7X7Sudv_yBcA7MyqU4Rkr0JysgcZi4NDH-DGNG5NwCWYDuFYcwAZvo3PJxFsYoUs3DuuzjNCF6LTZUCwYx7HbDkI5egJHxtvLW3nLHHxCraI2tTk0Nr9bYwXfbDppHD_2urEZfSlOFri_PBHFt7_j8p0a5YHO-CyIfqLkIee405IJadEV36I3bVHk95UIDY9NfAda54OGyE2Fw8m_4ybIp_Djhw8BEGvmX2f6/https%3A%2F%2Fgithub.com%2Ffeldman4%2Fdna-barcodes>.
Best,
Pedro
El mar, 12 mar 2024 a las 13:18, Kern, Lori via Bioc-devel
(<bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>>)
escribi?:
The package is deprecated in devel.? It will remain listed in the
next Bioc 3.19 release, but deprecated, and removed from
anticipated 3.20.? The package will have up until the fall release
(generally late Oct / early Nov) to reinstate before it will be
removed.
Cheers,
Lori Shepherd - Kern
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
________________________________
From: Bioc-devel
<bioc-devel-bounces at r-project.org<mailto:bioc-devel-bounces at r-project.org>>
on behalf of Sun Wenjie
<wenjie.sun at curie.fr<mailto:wenjie.sun at curie.fr>>
Sent: Tuesday, March 12, 2024 8:07 AM
To: bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>
<bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>>
Subject: [Bioc-devel] about deprecate package DNABarcode
Hi Bioconductor core team,
I saw the package of DNABarcode is listed as to be deprecated.
I am trying to reach the author. Do you know when will be the
deadline?
Best,
Wenjie
------------------------------------------
Wenjie SUN
Postdoctoral researcher
UMR168, Curie Institute
E-mail: wenjie.sun at curie.fr<mailto:wenjie.sun at curie.fr>
Address: batiment Curie, RDC.13A
11 rue Pierre et Marie Curie, 75005 Paris
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