R CMD check dependency simplification

[Paul Gilbert]

I am trying to re-organizing my Makefile for testing my R packages and I
am having trouble finding a structure I like. The problem seems to be
that "R CMD check", which does wonderful things, does not allow
dependency information to flow through very gracefully. That is, since
everything is copied into the pkg.Rcheck directory, it is difficult to
make any changes to source files without having to completely re-do "R
CMD check pkg". 

For example, I would like to be able to make changes to
src/pkg1/man/foo.Rd and have dependencies that indicate only codoc and
examples need to be re-run, not tests and vignettes. (R CMD check can to
do this, the problem is moving the appropriate new pieces, in the
appropriate way, into the pkg1.Rcheck directory.)

The difficulty is exacerbated for me because I have pkg3 depends on pkg2
depends on pkg1. If I make a change to src/pkg1/inst/doc/guide.tex then
I really should only need to re-do the vignettes for pkg1, but instead I
have to re-do the whole "R CMD check" for pkg1, pkg2, and pkg3.

Suggestions would be appreciated.

Thanks,
Paul Gilbert
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