[Bioc-devel] Compiling a cpp source code while installing package

[Vincent Carey]

On Sun, Nov 8, 2020 at 7:40 AM Alexandru Voda <alexandru.voda using seh.ox.ac.uk>
wrote:

> Thanks for the reply, Martin!
>
> Unfortunately, the C++ software is large (
> https://ctg.cncr.nl/software/magma), not just some feature that can be
> used from R base, CRAN or Bioconductor.
>

just having a quick look at magma source -- which includes boost 1.74.  of
30Mb of text in src, 25Mb are consumed by boost

we would likely want to factor that out and use BH if at all possible


>
> Also, I wouldn't make a separate library for the C++ software because the
> *main* purpose of my package is to wrap them up for R. Other functions are
> just a secondary aim of the package.
>
> Thank you for the recommended packages! I was wondering if there's any
> standard guidance/vignette for how Rhtslib & Rhdf5lib approached this?
> There are numerous Rcpp vignettes that I could find, but couldn't find for
> pure C compiled by R?
> ________________________________
> From: Martin Morgan <mtmorgan.bioc using gmail.com>
> Sent: Saturday, November 7, 2020 3:30 PM
> To: Alexandru Voda <alexandru.voda using seh.ox.ac.uk>; bioc-devel using r-project.org
> <bioc-devel using r-project.org>
> Subject: Re: [Bioc-devel] Compiling a cpp source code while installing
> package
>
> It would probably help to provide additional detail here; there are
> several examples of packages that build C / C++ libraries from source, a
> common pattern is to have a package dedicated to providing the library,
> e.g., Rhtslib or Rhdf5lib, or of building the library as part of the
> software package itself.
>
> It's worth assessing whether the functionality is worth it (e.g., why use
> a random number generator from another package, when one can use the R
> random number generator) or already implemented (e.g., linear algebra in
> RcppArmadillo).
>
> Martin
>
> On 11/7/20, 10:25 AM, "Bioc-devel on behalf of Alexandru Voda" <
> bioc-devel-bounces using r-project.org on behalf of alexandru.voda using seh.ox.ac.uk>
> wrote:
>
>     Hi! I tried to look this up in the FAQ & best practices but couldn't
> find it.
>
>     My in-the-works package needs to call a legacy C++ software from time
> to time.
>
>     Since that C++ software is open-source, is there a way to make my
> package compile the source (during R package installation) I'm going to
> include? That'd make my package's dependency localized and well-controlled,
> but any other alternative is welcome (except Rcpp, which would take too
> many months to rewrite into the legacy C++ software).
>
>     Best wishes,
>     Alexandru
>
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