[Bioc-devel] RankProd (development) - install and build error in oaxaca

Hervé Pagès hpages at fredhutch.org
Thu Oct 27 07:50:02 CEST 2016

Hi Francesco,

gmp is installed on oaxaca, but not Rmpfr. Both are CRAN packages.
As you can see by visiting several CRAN package landing pages, CRAN
doesn't provide Mac binaries for r-devel yet:


Our Mac and Windows builders always try to install the binary first,
and then, in case this fails, they try the source package.

On oaxaca both attempts failed. The 2nd attempt failed because it
requires compilation and linking against the MPFR library which is
not on the machine.

It's unfortunate that CRAN doesn't provide the Mac binary packages
for r-devel yet. I hope they will soon. None of our Mac or Windows
builders has the MPFR library installed on them. They should not
need it because no Bioconductor package conntains code that needs
to be compiled and linked against it.

I hope we can avoid embarking on the adventure of installing these
libraries on oaxaca that are only needed until CRAN makes Mac binary
packages available for r-devel.

So in the meantime I'd say please ignore that error on oaxaca.

Hope that's ok. Thanks for your comprehension.


On 10/26/2016 05:51 AM, Francesco Del Carratore wrote:
> Hi All,
> I just noticed that there is an error in build report of the development
> version of my package (
> http://bioconductor.org/checkResults/3.5/bioc-LATEST/RankProd/oaxaca-install.html
> ).
> There are no problems for the release version of the package, apparently
> the dependencies "Rmpfr" and "gmp" are not installed in oaxaca.
> Is it possible to add them?
> Many thanks,
> Francesco

Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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