Closed martin-g closed 1 year ago
Hello,
We are working on adding support for Linux ARM64 for Bioconductor and we faced the following build problem:
### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SAIGEgds ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘SAIGEgds’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.17-bioc/R/library/RcppParallel/include' -I/usr/local/include -fPIC -g -O2 -Wall -c SPATest.cpp -o SPATest.o SPATest.cpp:42:15: error: ‘COREARRAY_TARGET_CLONES’ does not name a type 42 | inline static COREARRAY_TARGET_CLONES | ^~~~~~~~~~~~~~~~~~~~~~~ SPATest.cpp:56:15: error: ‘COREARRAY_TARGET_CLONES’ does not name a type 56 | inline static COREARRAY_TARGET_CLONES | ^~~~~~~~~~~~~~~~~~~~~~~ SPATest.cpp:71:15: error: ‘COREARRAY_TARGET_CLONES’ does not name a type 71 | inline static COREARRAY_TARGET_CLONES | ^~~~~~~~~~~~~~~~~~~~~~~ SPATest.cpp:93:9: error: expected initializer before ‘getroot_K1’ 93 | getroot_K1(const double g_pos, const double g_neg, | ^~~~~~~~~~ SPATest.cpp:140:9: error: expected initializer before ‘getroot_K1_fast’ 140 | getroot_K1_fast(const double g_pos, const double g_neg, double &root, | ^~~~~~~~~~~~~~~ SPATest.cpp:189:9: error: expected initializer before ‘get_saddle_prob’ 189 | get_saddle_prob(double t, size_t n_g, const double mu[], const double g[], | ^~~~~~~~~~~~~~~ SPATest.cpp:212:9: error: expected initializer before ‘get_saddle_prob_fast’ 212 | get_saddle_prob_fast(double t, size_t n_nonzero, const double mu[], | ^~~~~~~~~~~~~~~~~~~~ SPATest.cpp:238:9: error: expected initializer before ‘Saddle_Prob’ 238 | Saddle_Prob(double q, double m1, double var1, size_t n_g, const double mu[], | ^~~~~~~~~~~ SPATest.cpp:300:9: error: expected initializer before ‘Saddle_Prob_Fast’ 300 | Saddle_Prob_Fast(double q, double m1, double var1, size_t n_g, | ^~~~~~~~~~~~~~~~ make: *** [/home/biocbuild/bbs-3.17-bioc/R/etc/Makeconf:198: SPATest.o] Error 1 ERROR: compilation failed for package ‘SAIGEgds’ * removing ‘/home/biocbuild/bbs-3.17-bioc/R/library/SAIGEgds’
https://yikun.github.io/bioconductor-0208/report/SAIGEgds/kunpeng1-buildsrc.html
Any idea what might be the problem ?
I'll send a PR soon!
Hello,
We are working on adding support for Linux ARM64 for Bioconductor and we faced the following build problem:
https://yikun.github.io/bioconductor-0208/report/SAIGEgds/kunpeng1-buildsrc.html
Any idea what might be the problem ?