Error installing uwot into R-4.3.3 of centos-7.9

[dfgao]

Error while installing uwot:

install.packages("~/uwot_0.2.1.tar.gz", repos = NULL, type = "source")

then
`using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 8.3.1 20190311 (Red Hat 8.3.1-3)’
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/dqrng/include' -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/dqrng/include' -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c connected_components.cpp -o connected_components.o
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/dqrng/include' -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c nn_parallel.cpp -o nn_parallel.o
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/dqrng/include' -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c perplexity.cpp -o perplexity.o
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/dqrng/include' -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c r_uwot.cpp -o r_uwot.o
r_uwot.cpp: In member function ‘std::unique_ptruwot::Optimizer UmapFactory::create_optimizer(Rcpp::List)’:
r_uwot.cpp:137:19: error: ‘make_unique’ is not a member of ‘std’
return std::make_uniqueuwot::Adam(alpha, beta1, beta2, eps,
^~~~~~~~~~~
r_uwot.cpp:137:19: note: ‘std::make_unique’ is defined in header ‘’; did you forget to ‘#include ’?
r_uwot.cpp:31:1:
+#include

r_uwot.cpp:137:19:
return std::make_uniqueuwot::Adam(alpha, beta1, beta2, eps,
^~~~~~~~~~~
r_uwot.cpp:137:41: error: expected primary-expression before ‘>’ token
return std::make_uniqueuwot::Adam(alpha, beta1, beta2, eps,
^
r_uwot.cpp:145:19: error: ‘make_unique’ is not a member of ‘std’
return std::make_uniqueuwot::Sgd(alpha);
^~~~~~~~~~~
r_uwot.cpp:145:19: note: ‘std::make_unique’ is defined in header ‘’; did you forget to ‘#include ’?
r_uwot.cpp:145:40: error: expected primary-expression before ‘>’ token
return std::make_uniqueuwot::Sgd(alpha);
^
make: *** [/opt/R/4.3.3/lib/R/etc/Makeconf:198：r_uwot.o] error 1
ERROR: compilation failed for package ‘uwot’

• removing ‘/data/00.software/R/4.3.3/library/uwot’``

installing older version:
install.packages("~/uwot_0.1.15.tar.gz", repos = NULL, type = "source")

then

`** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 8.3.1 20190311 (Red Hat 8.3.1-3)’
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/dqrng/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/dqrng/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c connected_components.cpp -o connected_components.o
g++ -std=gnu++11 -I"/opt/R/4.3.3/lib/R/include" -DNDEBUG -I../inst/include/ -I'/data/00.software/R/4.3.3/library/Rcpp/include' -I'/data/00.software/R/4.3.3/library/RcppProgress/include' -I'/data/00.software/R/4.3.3/library/RcppAnnoy/include' -I'/data/00.software/R/4.3.3/library/dqrng/include' -I/usr/local/include -DRCPP_NO_RTTI -fpic -g -O2 -c nn_parallel.cpp -o nn_parallel.o
In file included from nn_parallel.cpp:6:
nn_parallel.h:92:3: error: ‘AnnoyIndex’ does not name a type; did you mean ‘Annoy’?
AnnoyIndex<typename UwotAnnoyDistance::S, typename UwotAnnoyDistance::T,
^~~~~~~~~~
Annoy
nn_parallel.h: In constructor ‘NNWorker::NNWorker(const string&, const std::vector&, std::size_t, std::size_t, std::size_t)’:
nn_parallel.h:101:65: error: class ‘NNWorker’ does not have any field named ‘index’
idx(nrow * n_neighbors, -1), dists(nrow * n_neighbors), index(ncol) {
^~~~~
nn_parallel.h:102:11: error: overloaded function with no contextual type information
index.load(index_name.c_str());
^~~~
nn_parallel.h: In destructor ‘NNWorker::~NNWorker()’:
nn_parallel.h:105:23: error: overloaded function with no contextual type information
~NNWorker() { index.unload(); }
^~~~~~
nn_parallel.h: In member function ‘void NNWorker::operator()(std::size_t, std::size_t)’:
nn_parallel.h:117:13: error: overloaded function with no contextual type information
index.get_nns_by_vector(fv.data(), n_neighbors, search_k, &result,
^~~~~~~~~~~~~~~~~
make: *** [/opt/R/4.3.3/lib/R/etc/Makeconf:198：nn_parallel.o] error 1
ERROR: compilation failed for package ‘uwot’

• removing ‘/data/00.software/R/4.3.3/library/uwot’`

I tried to use gcc8.3.1, gcc9.3.1 and gcc10.2.1 to install every version after uwot-v0.1.10, but they all failed.

how can i solve this problem 😭

[jlmelville]

The compiler needs to be using at least C++14, but the std=gnu++11 says you are getting only C++11. Try adding CXX_STD=CXX14 to your ~/.R/Makevars file.