Hello,
as far as I understood the R library generic compilation mechanism,
compilation of C//C++ sources is controlde
1) at system level by the ocntentos RHOME/etc/Makeconf
2) at user level by the content of ~/.R/Makevars
3) at package level by the content of src/Makevars
Problem I have is that src/Makevars is ignored
see following example:
R is compiled and use the following CC and CFLAGS definition
bigmess:epactsR/src > R CMD config CC
gcc -std=gnu99
bigmess:epactsR/src > R CMD config CFLAGS
-Wall -g
so building C sources lead to the following
bigmess:epactsR/src > R CMD SHLIB index.c
gcc -std=gnu99 -I/local/gensoft2/adm/lib64/R/include -DNDEBUG
-I/usr/local/include -fpic -Wall -g -c index.c -o index.o
normal, it uses defintion from RHOME/etc/Makeconf
when I set upp a ~/.R/Makevars that overwrite CC and CFLAGS definition.
bigmess:epactsR/src > cat ~/.R/Makevars
CC=gcc
CFLAGS=-O3
bigmess:epactsR/src > R CMD SHLIB index.c
gcc -I/local/gensoft2/adm/lib64/R/include -DNDEBUG -I/usr/local/include
-fpic -O3 -c index.c -o index.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o index.so index.o
OK CC and CFLAGS are honored and set accordingly to ~/.R/Makevars
but when I try to use src/Makevars, it is ignored
bigmess:epactsR/src > cat ~/.R/Makevars
cat: /home/edeveaud/.R/Makevars: No such file or directory
bigmess:epactsR/src > cat ./Makevars
CC = gcc
CFLAGS=-O3
bigmess:epactsR/src > R CMD SHLIB index.c
gcc -std=gnu99 -I/local/gensoft2/adm/lib64/R/include -DNDEBUG
-I/usr/local/include -fpic -Wall -g -c index.c -o index.o
what I have missed or is there something wrong ?
PS I tested the ssame behaviour with various version of R from R/2.15 to
R/3.3
best regards
Eric
You failed to read the Posting Guide, which would have told you which mailing list to post this question to. (Hint: not this one.) -- Sent from my phone. Please excuse my brevity. On September 26, 2016 4:46:06 AM PDT, Eric Deveaud <edeveaud at pasteur.fr> wrote:> > > Hello, > >as far as I understood the R library generic compilation mechanism, >compilation of C//C++ sources is controlde > >1) at system level by the ocntentos RHOME/etc/Makeconf >2) at user level by the content of ~/.R/Makevars >3) at package level by the content of src/Makevars > >Problem I have is that src/Makevars is ignored > > >see following example: > >R is compiled and use the following CC and CFLAGS definition > >bigmess:epactsR/src > R CMD config CC >gcc -std=gnu99 >bigmess:epactsR/src > R CMD config CFLAGS >-Wall -g > >so building C sources lead to the following > >bigmess:epactsR/src > R CMD SHLIB index.c >gcc -std=gnu99 -I/local/gensoft2/adm/lib64/R/include -DNDEBUG >-I/usr/local/include -fpic -Wall -g -c index.c -o index.o > >normal, it uses defintion from RHOME/etc/Makeconf > > >when I set upp a ~/.R/Makevars that overwrite CC and CFLAGS definition. > >bigmess:epactsR/src > cat ~/.R/Makevars >CC=gcc >CFLAGS=-O3 >bigmess:epactsR/src > R CMD SHLIB index.c >gcc -I/local/gensoft2/adm/lib64/R/include -DNDEBUG >-I/usr/local/include > -fpic -O3 -c index.c -o index.o >gcc -std=gnu99 -shared -L/usr/local/lib64 -o index.so index.o > > >OK CC and CFLAGS are honored and set accordingly to ~/.R/Makevars > > >but when I try to use src/Makevars, it is ignored > >bigmess:epactsR/src > cat ~/.R/Makevars >cat: /home/edeveaud/.R/Makevars: No such file or directory >bigmess:epactsR/src > cat ./Makevars >CC = gcc >CFLAGS=-O3 >bigmess:epactsR/src > R CMD SHLIB index.c >gcc -std=gnu99 -I/local/gensoft2/adm/lib64/R/include -DNDEBUG >-I/usr/local/include -fpic -Wall -g -c index.c -o index.o > > >what I have missed or is there something wrong ? > > >PS I tested the ssame behaviour with various version of R from R/2.15 >to >R/3.3 > > best regards > > Eric > >______________________________________________ >R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see >https://stat.ethz.ch/mailman/listinfo/r-help >PLEASE do read the posting guide >http://www.R-project.org/posting-guide.html >and provide commented, minimal, self-contained, reproducible code.
On 09/26/2016 07:46 AM, Eric Deveaud wrote:> > > Hello, > > as far as I understood the R library generic compilation mechanism, > compilation of C//C++ sources is controlde > > 1) at system level by the ocntentos RHOME/etc/Makeconf > 2) at user level by the content of ~/.R/Makevars > 3) at package level by the content of src/Makevars > > Problem I have is that src/Makevars is ignored > > > see following example: > > R is compiled and use the following CC and CFLAGS definition > > bigmess:epactsR/src > R CMD config CC > gcc -std=gnu99 > bigmess:epactsR/src > R CMD config CFLAGS > -Wall -g > > so building C sources lead to the following > > bigmess:epactsR/src > R CMD SHLIB index.c > gcc -std=gnu99 -I/local/gensoft2/adm/lib64/R/include -DNDEBUG > -I/usr/local/include -fpic -Wall -g -c index.c -o index.o > > normal, it uses defintion from RHOME/etc/Makeconf > > > when I set upp a ~/.R/Makevars that overwrite CC and CFLAGS definition. > > bigmess:epactsR/src > cat ~/.R/Makevars > CC=gcc > CFLAGS=-O3 > bigmess:epactsR/src > R CMD SHLIB index.c > gcc -I/local/gensoft2/adm/lib64/R/include -DNDEBUG -I/usr/local/include > -fpic -O3 -c index.c -o index.o > gcc -std=gnu99 -shared -L/usr/local/lib64 -o index.so index.o > > > OK CC and CFLAGS are honored and set accordingly to ~/.R/Makevars > > > but when I try to use src/Makevars, it is ignored > > bigmess:epactsR/src > cat ~/.R/Makevars > cat: /home/edeveaud/.R/Makevars: No such file or directory > bigmess:epactsR/src > cat ./Makevars > CC = gcc > CFLAGS=-O3 > bigmess:epactsR/src > R CMD SHLIB index.c > gcc -std=gnu99 -I/local/gensoft2/adm/lib64/R/include -DNDEBUG > -I/usr/local/include -fpic -Wall -g -c index.c -o index.o > > > what I have missed or is there something wrong ?Use PKG_CFLAGS instead of CFLAGS; CC cannot be changed in Makevars. See https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Using-Makevars Martin Morgan> > > PS I tested the ssame behaviour with various version of R from R/2.15 to > R/3.3 > > best regards > > Eric > > ______________________________________________ > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code.This email message may contain legally privileged and/or...{{dropped:2}}