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Rcpp installation fails on Cygwin: Rcpp::Timer not supported by your OS.
- From: Enrico Ferrero <enricoferrero86 at gmail dot com>
- To: edd at debian dot org
- Cc: marco atzeri <marco dot atzeri at gmail dot com>, cygwin at cygwin dot com
- Date: Wed, 31 Jul 2013 18:37:43 +0100
- Subject: Rcpp installation fails on Cygwin: Rcpp::Timer not supported by your OS.
Hi Dirk,
When trying to install your Rcpp R package from CRAN on Cygwin,
compilation aborts with the following error:
Timer.cpp:35:6: error: #error "Rcpp::Timer not supported by your OS."
A simple Google search brought up this bug on the Debian bug tracking
system: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=697032
The full log from the R console is below:
#################################
> install.packages("Rcpp")
Installing package into ‘/usr/lib/R/site-library’
(as ‘lib’ is unspecified)
trying URL 'http://cran.ma.imperial.ac.uk/src/contrib/Rcpp_0.10.4.tar.gz'
Content type 'application/gz' length 2397813 bytes (2.3 Mb)
opened URL
==================================================
downloaded 2.3 Mb
Bioconductor version 2.12 (BiocInstaller 1.10.3), ?biocLite for help
Welcome to R!
* installing *source* package ‘Rcpp’ ...
** package ‘Rcpp’ successfully unpacked and MD5 sums checked
** libs
g++ -I/usr/lib/R/include -DNDEBUG -I../inst/include/ -ggdb -O2
-pipe -fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/build=/usr/src/debug/R-3.0.1-1
-fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/src/R-3.0.1=/usr/src/debug/R-3.0.1-1
-c Date.cpp -o Date.o
g++ -I/usr/lib/R/include -DNDEBUG -I../inst/include/ -ggdb -O2
-pipe -fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/build=/usr/src/debug/R-3.0.1-1
-fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/src/R-3.0.1=/usr/src/debug/R-3.0.1-1
-c Module.cpp -o Module.o
gcc -I/usr/lib/R/include -DNDEBUG -I../inst/include/ -ggdb -O2
-pipe -std=gnu99
-fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/build=/usr/src/debug/R-3.0.1-1
-fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/src/R-3.0.1=/usr/src/debug/R-3.0.1-1
-c Rcpp_init.c -o Rcpp_init.o
g++ -I/usr/lib/R/include -DNDEBUG -I../inst/include/ -ggdb -O2
-pipe -fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/build=/usr/src/debug/R-3.0.1-1
-fdebug-prefix-map=/pub/devel/R/R-3.0.1-1/src/R-3.0.1=/usr/src/debug/R-3.0.1-1
-c Timer.cpp -o Timer.o
Timer.cpp:35:6: error: #error "Rcpp::Timer not supported by your OS."
Timer.cpp:94:6: error: #error "Rcpp::Benchmark::Timer not supported by your OS."
/usr/lib/R/etc/Makeconf:132: recipe for target `Timer.o' failed
make: *** [Timer.o] Error 1
ERROR: compilation failed for package ‘Rcpp’
* removing ‘/usr/lib/R/site-library/Rcpp’
The downloaded source packages are in
‘/tmp/RtmpHnCW28/downloaded_packages’
Warning message:
In install.packages("Rcpp") :
installation of package ‘Rcpp’ had non-zero exit status
> sessionInfo()
R version 3.0.1 (2013-05-16)
Platform: i686-pc-cygwin (32-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] BiocInstaller_1.10.3
#################################
Is there anything I can do to get it to work?
Thank you.
Best,
--
Enrico Ferrero
PhD Student
Steve Russell Lab - Department of Genetics
FlyChip - Cambridge Systems Biology Centre
University of Cambridge
e.ferrero@gen.cam.ac.uk
http://flypress.gen.cam.ac.uk/
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