[R-sig-Debian] Problems to compile examples of RInside
David Ibarra Gómez
dibarra at aqualogy.net
Wed Oct 22 16:17:20 CEST 2014
Ok then, I though there were problems with installation.
Thank you.
David Ibarra Gómez
-----Mensaje original-----
De: Dirk Eddelbuettel [mailto:edd at debian.org]
Enviado el: miércoles, 22 de octubre de 2014 13:38
Para: David Ibarra Gómez
CC: r-sig-debian at r-project.org
Asunto: Re: [R-sig-Debian] Problems to compile examples of RInside
On 22 October 2014 at 10:22, David Ibarra Gómez wrote:
| Hello,
|
| I have some problems to migrate to R >3.0 my devel machine (R.2.15.2). So I decided to start from scratch with a brand new virtual machine.
|
| Downloaded latest network install of debian testing, not stable (jessie/sid, SMP Debian 3.16.3-2 (2014-09-20) x86_64 GNU/Linux) installed only with ssh-server and basic utilities (no X).
|
| Then I installed R by:
|
| apt-get install r-base-dev
|
| Then from R, I installed the needed (for me) packages by:
|
| install.packages(c("Rcpp","RInside","forecast", "quadprog", "tseries",
| "fracdiff", "zoo",
| "RcppArmadillo","randomForest","RInside","lubridate","quantmod","nnet"
| ,"caret"),type="source")
|
| Session info extract (Rcpp and RInside libraries loaded):
|
| R version 3.1.1 (2014-07-10)
| Platform: x86_64-pc-linux-gnu (64-bit)
|
| locale:
| [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
| [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
| [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
| [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
| [9] LC_ADDRESS=C LC_TELEPHONE=C
| [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
|
| attached base packages:
| [1] stats graphics grDevices utils datasets methods base
|
| other attached packages:
| [1] RInside_0.2.11 Rcpp_0.11.3
|
| Afterwards I tried to compile RInside examples, by make on
| /usr/local/lib/R/site-library/RInside/examples/standard.
It does not hurt to be explicit as this is the _Debian_ list. I do
edd at max:~$ cd git/rinside/inst/examples/standard/ # my src
edd at max:~/git/rinside/inst/examples/standard(master)$ make
and
| No problem for:
| rinside_sample7,rinside_sample10,rinside_test0,rinside_sample0,rinside_sample14.
I generally manage to build way more ...
| But when it comes to "rinside_module_sample0" I do get the following:
... but not always all. Sources (in Rcpp) change, and we sometimes need to retire examples here.
Right now I get:
edd at max:~/git/rinside/inst/examples/standard(master)$ find . -executable -print | sort .
./cmake
./rinside_axionator
./rinside_callbacks0
./rinside_callbacks1
./rinside_issue178
./rinside_module_sample0
./rinside_sample0
./rinside_sample1
./rinside_sample10
./rinside_sample11
./rinside_sample12
./rinside_sample13
./rinside_sample14
./rinside_sample15
./rinside_sample2
./rinside_sample3
./rinside_sample4
./rinside_sample5
./rinside_sample6
./rinside_sample7
./rinside_sample8
./rinside_sample9
./rinside_slava
./rinside_test0
./rinside_test1
./rinside_test2
./rinside_vertica
edd at max:~/git/rinside/inst/examples/standard(master)$
and this excludes a few example not part of the repo, sources or package because they were just a quick hack in reply to someone on r-sig-debian, StackOverflow or somewhere else.
| In file included from /usr/local/lib/R/site-library/Rcpp/include/Rcpp.h:64:0,
| from /usr/local/lib/R/site-library/RInside/include/RInsideCommon.h:38,
| from /usr/local/lib/R/site-library/RInside/include/RInside.h:26,
| from rinside_module_sample0.cpp:7:
| rinside_module_sample0.cpp: In function int main(int, char**) :
| /usr/local/lib/R/site-library/Rcpp/include/Rcpp/Module.h:451:5: error: Shield was not declared in this scope
| Shield<SEXP> __load_module_call__( Rf_lang2( GET_MODULE_SYM, _rcpp_module_boot_##NAME() ); \
| ^
| rinside_module_sample0.cpp:27:18: note: in expansion of macro LOAD_RCPP_MODULE
| R["bling"] = LOAD_RCPP_MODULE(bling) ;
| ^
| /usr/local/lib/R/site-library/Rcpp/include/Rcpp/Module.h:451:5: note: suggested alternative:
| Shield<SEXP> __load_module_call__( Rf_lang2( GET_MODULE_SYM, _rcpp_module_boot_##NAME() ); \
| ^
| rinside_module_sample0.cpp:27:18: note: in expansion of macro LOAD_RCPP_MODULE
| R["bling"] = LOAD_RCPP_MODULE(bling) ;
| ^
| In file included from /usr/local/lib/R/site-library/Rcpp/include/Rcpp/protection/protection.h:21:0,
| from /usr/local/lib/R/site-library/Rcpp/include/RcppCommon.h:129,
| from /usr/local/lib/R/site-library/Rcpp/include/Rcpp.h:27,
| from /usr/local/lib/R/site-library/RInside/include/RInsideCommon.h:38,
| from /usr/local/lib/R/site-library/RInside/include/RInside.h:26,
| from rinside_module_sample0.cpp:7:
| /usr/local/lib/R/site-library/Rcpp/include/Rcpp/protection/Shield.h:29:11: note: Rcpp::Shield
| class Shield{
| ^
| In file included from /usr/local/lib/R/site-library/Rcpp/include/Rcpp.h:64:0,
| from /usr/local/lib/R/site-library/RInside/include/RInsideCommon.h:38,
| from /usr/local/lib/R/site-library/RInside/include/RInside.h:26,
| from rinside_module_sample0.cpp:7:
| /usr/local/lib/R/site-library/Rcpp/include/Rcpp/Module.h:451:16: error: expected primary-expression before > token
| Shield<SEXP> __load_module_call__( Rf_lang2( GET_MODULE_SYM, _rcpp_module_boot_##NAME() ); \
| ^
| rinside_module_sample0.cpp:27:18: note: in expansion of macro LOAD_RCPP_MODULE
| R["bling"] = LOAD_RCPP_MODULE(bling) ;
| ^
| /usr/local/lib/R/site-library/Rcpp/include/Rcpp/Module.h:451:94: error: expected ) before ; token
| Shield<SEXP> __load_module_call__( Rf_lang2( GET_MODULE_SYM, _rcpp_module_boot_##NAME() ); \
|
| ^
| rinside_module_sample0.cpp:27:18: note: in expansion of macro LOAD_RCPP_MODULE
| R["bling"] = LOAD_RCPP_MODULE(bling) ;
| ^
| /usr/local/lib/R/site-library/Rcpp/include/Rcpp/Module.h:452:13: error: __load_module_call__ was not declared in this scope
| Rf_eval(__load_module_call__), R_GlobalEnv );
| ^
| rinside_module_sample0.cpp:27:18: note: in expansion of macro LOAD_RCPP_MODULE
| R["bling"] = LOAD_RCPP_MODULE(bling) ;
| ^
| <builtin>: recipe for target 'rinside_module_sample0' failed
| make: *** [rinside_module_sample0] Error 1
This example works for me, but only because __we disabled it now__:
edd at max:~/git/rinside/inst/examples/standard(master)$ grep disable rinside_module_sample0.cpp
Rcpp::Rcout << "** rinside_module_sample0 is currently disabled.\n";
edd at max:~/git/rinside/inst/examples/standard(master)$
I think that was discussed just a few weeks ago on rcpp-devel.
| Probably I'm missing something on installation, Could you please provide some advice?
This particular example is currently retired / unsupported.
There is no other Debian question here so if you have _Rcpp-related_ followups the other list may be better.
Dirk
| Regards
|
| David Ibarra
|
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