[Bioc-devel] [EXT] Bioconductor package DeMixT

[Kern, Lori]

Yes just making the change on the devel branch is fine. Thank you.




Lori Shepherd

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Yang,Peng <PYang7 using mdanderson.org>
Sent: Tuesday, August 10, 2021 4:12 PM
To: Kern, Lori <Lori.Shepherd using RoswellPark.org>
Cc: Cao,Shaolong <SCao using mdanderson.org>; bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: Re: [EXT] Bioconductor package DeMixT


Hi Lori,



Thank you very much for noticing us.



I have added the �rmarkdown� as the dependency package and pushed it into devel brunch with a version bump.  I saw there is no error appears on release brunch, so may I double check all we need to do is correct the error messege in devel brunch?



Thanks,

Peng



From: "Kern, Lori" <Lori.Shepherd using RoswellPark.org>
Date: Tuesday, July 27, 2021 at 12:07 PM
To: "Cao,Shaolong" <SCao using mdanderson.org>, "Yang,Peng" <PYang7 using mdanderson.org>
Subject: [EXT] Bioconductor package DeMixT



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Hello Package Maintainer,



We would like to inform you your package is failing on the devel builders of

Bioconductor



bioconductor.org/checkResults/devel/bioc-LATEST/



The ERROR is the result of a change in knitr as announced on the mailing list

back in June.

https://stat.ethz.ch/pipermail/bioc-devel/2021-June/018223.html<https://secure-web.cisco.com/1b43fILhvRYcx3Q33BisdWvLv6MpBJ1cuEZ63MaKf0ZVz6d3v5sSZtnhaMoGVfArmgXy2vO2Ni0kX2io0xGjcE2nOTOeVNN7_221k11m3Sb96GdreUchK6dY8ZbBJ4jpL7yR3azHiBlxqwDGckzH9KjuDw2lRnmPFxP7ssyqUfbAipgqrMhkEQW21qpPmisoMFafNYnJYrjwfsGmNkgKd6l2uYi2mizqTdTghOrtkTajIttnQWsSQO1oixFC9RaSSz_pA2K_JmLBghviTewLztCCBolZViZfEZa6kIORGtJ577x4bJbmv4QJZkwNulq21/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2Fstat.ethz.ch%2Fpipermail%2Fbioc-devel%2F2021-June%2F018223.html__%3B%21%21PfbeBCCAmug%21yd_pRRmDghsCKTQjIQbkSlzvM2GRtF4X0m2fDfdDUEYKoTYQStDCsb85pKW8ch_i7Q%24>



The ERROR is real and needs to be corrected. Please see the build report for your

package as the ERROR produced provides explicit instructions for how to

fix. Please remember to always do a version bump in the DESCRIPTION when making

changes to your package and to push to git.bioconductor.org.



If the ERROR is not corrected in the next month we will deprecate your package

until the ERROR is resolved with the intention of removing the package in the

next release if the package remains broken.



We appreciate your quick attention to this matter. If you have further questions

or concerns please ask at bioc-devel using r-project.org



Cheers



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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