Here is a quote from Brian's email to CRAN maintainers: ------------
The set of make programs in use for R is shifting (BSD make seems to be no longer in use by Apple or FreeBSD; dmake and pmake variants are appearing) and we have taken the POSIX standard as the baseline for portability. ------------ It sounds like this is a CRAN-specific requirement. Bioc of course is left to make its own decision on make support. If we absolutely need GNU Make, we can add this to DESCRIPTION: SystemRequirements: GNU make On Fri, Jan 23, 2015 at 6:13 PM, Kevin Ushey <kevinus...@gmail.com> wrote: > On Fri, Jan 23, 2015 at 5:18 PM, Dan Tenenbaum <dtene...@fredhutch.org> wrote: >> >> >> ----- Original Message ----- >>> From: "Kevin Ushey" <kevinus...@gmail.com> >>> To: "Laurent Gatto" <lg...@cam.ac.uk> >>> Cc: "bioc-devel" <bioc-de...@stat.math.ethz.ch> >>> Sent: Friday, January 23, 2015 4:58:40 PM >>> Subject: Re: [Bioc-devel] portable make syntax >>> >>> If I understand correctly, all versions of `make` on the BioC build >>> systems will support GNU extensions to Makefiles, and so it's >>> probably >>> not worth your time to make this 'portable' -- just add the >>> SystemRequirements bit. >>> >> >> BTW, the warning was added in recent versions of R-devel and I don't know >> why it was added. >> It could be that GNU extensions may not be supported in future versions of >> Rtools (the windows >> toolchain maintained by Duncan Murdoch). I really have no idea. But since a >> warning was added, it's probably a good idea to find out why rather than to >> ignore it. So it might be worth a note to R-devel asking about the intention >> of that warning. >> >> Dan > > Very unlikely -- I am really not sure of what the motivation is, > beyond R wanting to support platforms with versions of make that do > not support GNU extensions (whichever those might be... BSD make? AT&T > make on Solaris? See: > http://cran.r-project.org/doc/manuals/r-release/R-exts.html#FOOT51) > > I am guessing that the Windows toolchain will continue to be based off > of MinGW + GCC for the foreseeable future, and hence will continue to > allow GNU extensions. In fact, R-exts specifically prescribes GNU > extensions for Windows makefiles -- from R-exts, > > Since the only viable make for Windows is GNU make, it is > permissible to use GNU extensions in files Makevars.win or > Makefile.win. > > so I really doubt Windows would ever foresake GNU extensions. > > Kevin > >>> However, you could work around this by (following R-exts at >>> http://cran.r-project.org/doc/manuals/r-release/R-exts.html#Writing-portable-packages) >>> wrapping your shell command in backticks, e.g. >>> >>> R_HOME=`if test -z ${R_HOME}; then ...; else ...; fi` >>> >>> or something to that effect. >>> >>> On Fri, Jan 23, 2015 at 4:05 PM, Laurent Gatto <lg...@cam.ac.uk> >>> wrote: >>> > >>> > Dear all, >>> > >>> > I have been using the following in various vignettes/Makefile >>> > >>> > ifeq (${R_HOME},) >>> > R_HOME= $(shell R RHOME) >>> > endif >>> > >>> > This syntax is GNU specific and now results in warnings when >>> > checking >>> > the package: >>> > >>> > * checking for GNU extensions in Makefiles ... WARNING >>> > Found the following file(s) containing GNU extensions: >>> > vignettes/Makefile >>> > Portable Makefiles do not use GNU extensions such as +=, :=, >>> > $(shell), >>> > $(wildcard), ifeq ... endif. See section ‘Writing portable >>> > packages’ in >>> > the ‘Writing R Extensions’ manual. >>> > >>> > I couldn't find anything in R-exts; does anyone know a more >>> > portable >>> > syntax? >>> > >>> > Alternatively, I could add >>> > >>> > SystemRequirements: GNU make >>> > >>> > to my DESCRIPTION file, which however does not seem ideal. >>> > >>> > Any suggestions? >>> > >>> > Thank you very much in advance. >>> > >>> > Laurent >>> > >>> > _______________________________________________ >>> > Bioc-devel@r-project.org mailing list >>> > https://stat.ethz.ch/mailman/listinfo/bioc-devel >>> >>> _______________________________________________ >>> Bioc-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel >>> > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
