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RfastOfficial / Rfast2

A collection of Rfast2 functions for data analysis. Note 1: The vast majority of the functions accept matrices only, not data.frames. Note 2: Do not have matrices or vectors with have missing data (i.e NAs). We do no check about them and C++ internally transforms them into zeros (0), so you may get wrong results. Note 3: In general, make sure you give the correct input, in order to get the correct output. We do no checks and this is one of the many reasons we are fast.
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Installation failed #25

Closed joonlee3 closed 8 months ago

joonlee3 commented 1 year ago

Hi,

I failed to install Rfast2. It seems to be associated with parallel.h.

  • installing source package ‘Rfast2’ ... package ‘Rfast2’ successfully unpacked and MD5 sums checked using staged installation ** libs using C compiler: ‘gcc (GCC) 8.3.1 20190311 (Red Hat 8.3.1-3)’ using C++ compiler: ‘g++ (GCC) 8.3.1 20190311 (Red Hat 8.3.1-3)’ using C++17 /opt/rh/devtoolset-8/root/usr/bin/g++ -std=gnu++17 -I"/opt/R-shared/4.3.0/lib64/R/include" -DNDEBUG -I../inst/include -I'/cloud-home/I0180769/R/x86_64-pc-linux-gnu-library/4.3.0/Rcpp/include' -I'/cloud-home/I0180769/R/x86_64-pc-linux-gnu-library/4.3.0/RcppArmadillo/include' -I'/opt/R/site_lib/RLib_Common/4.3.0/RcppParallel/include' -I/usr/local/include -fopenmp -fpic -g -O2 -c Eval.cpp -o Eval.o In file included from ../inst/include/Rfast2/templates.h:10, from Eval.cpp:7: ../inst/include/Rfast2/parallel.h:20:10: fatal error: execution: No such file or directory

    include 

      ^~~~~~~~~~~

    compilation terminated. make: *** [Eval.o] Error 1 ERROR: compilation failed for package ‘Rfast2’

  • removing ‘/cloud-home/I0180769/R/x86_64-pc-linux-gnu-library/4.3.0/Rfast2’ Warning in install.packages : installation of package ‘Rfast2’ had non-zero exit status

If you have any suggestions, please let me know. Thank you.

Best, Joon

ruizederick commented 11 months ago

Hi,

The compiler your using (g++ version 8.3) doesn't support \<execution> library, you should use g++ version 9 or higher .

sudo yum install gcc-toolset-9
export PATH=/opt/rh/gcc-toolset-9/root/bin/:$PATH

This should solve the problem.