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[R-pkg-devel] Conditionally use packages from Bioconductor

3 messages · Daniel Lüdecke, Uwe Ligges

#
Dear all,

for a package that is already published on CRAN, we plan to include a
function that relies on the M3C-package, which is on Bioconductor only.
Since this function in M3C is not essential for most other functions of our
package, we thought about adding M3C to the "Suggests" field in the
DESCRIPTION file, and from the "Writing R Extensions" page we found that we
could also add the URL to the "Additional_repositories" field of the
DESCRIPTION file (Additional_repositories:
https://bioconductor.org/packages/release/bioc/html/M3C.html). 

Would this be the correct way to conditionally use a package from
Bioconductor in own packages?

Best
Daniel


--

_____________________________________________________________________

Universit?tsklinikum Hamburg-Eppendorf; K?rperschaft des ?ffentlichen Rechts; Gerichtsstand: Hamburg | www.uke.de
Vorstandsmitglieder: Prof. Dr. Burkhard G?ke (Vorsitzender), Prof. Dr. Dr. Uwe Koch-Gromus, Joachim Pr?l?, Marya Verdel
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#
On 05.02.2020 16:05, Daniel L?decke wrote:
BioC is a standard repository that you do not need to delcare.

Best,
Uwe Ligges
#
Thanks for the quick reply! I was a bit uncertain about this due to the CRAN check notes from this package:
https://cran.r-project.org/web/checks/check_results_BiocManager.html

That made me think that the reason why the packages which are not available for testing are hosted on Bioconductor.

Daniel

-----Urspr?ngliche Nachricht-----
Von: Uwe Ligges [mailto:ligges at statistik.tu-dortmund.de] 
Gesendet: Mittwoch, 5. Februar 2020 16:08
An: Daniel L?decke <d.luedecke at uke.de>; r-package-devel at r-project.org
Betreff: Re: [R-pkg-devel] Conditionally use packages from Bioconductor
On 05.02.2020 16:05, Daniel L?decke wrote:
BioC is a standard repository that you do not need to delcare.

Best,
Uwe Ligges
--

_____________________________________________________________________

Universit?tsklinikum Hamburg-Eppendorf; K?rperschaft des ?ffentlichen Rechts; Gerichtsstand: Hamburg | www.uke.de
Vorstandsmitglieder: Prof. Dr. Burkhard G?ke (Vorsitzender), Prof. Dr. Dr. Uwe Koch-Gromus, Joachim Pr?l?, Marya Verdel
_____________________________________________________________________

SAVE PAPER - THINK BEFORE PRINTING