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This is a quick tutorial that explains R package development
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QUESTION
this is CRAN feedback for package release.
I tried to summary the question on r-package-devel
. However, I do not quite understand the problem and wish to figure out what this problem means.
Anyone know what this mean by ** reset to user's options()**? Which of my part cause this problem?
feedback
Please always make sure to reset to user's options(), working directory or par() after you changed it in examples and vignettes and demos. e.g.: old <- options(digits = 3) ... options(old) e.g. vignette.
My vignette code
...ANSWER
Answered 2020-Aug-01 at 14:08The line
QUESTION
I have a package metagam
which is on CRAN, and it passes all of CRAN's automated tests. However, the package depends on the Bioconductor package multtest
through the chain of dependencies metagam
<- metap
<- mutoss
<- multtest
. This is visualized below for the dependencies of the metap
package.
ANSWER
Answered 2020-Jun-20 at 14:40Because Bioconductor has twice-yearly releases, and this differs from CRAN release practices, the 'right' thing to do is to use Bioconductor tools to install your package, so BiocManager::install("metap")
. It does not matter that metap is a CRAN package. BiocManager installs the correct version of the Bioconductor package for the user's version of R.
If this solution isn't palatable, then the next-best right thing to do is to adjust your dependencies to avoid direct or indirect dependencies on Bioconductor packages.
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