scran 1.16.0
Aaron Lun
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/scran |
| Branch: RELEASE_3_11 |
| Last Commit: 22ab501 |
| Last Changed Date: 2020-04-27 14:56:41 -0400 (Mon, 27 Apr 2020) |
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |  |
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | NA | |
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/scran_1.16.0.tar.gz && rm -rf scran.buildbin-libdir && mkdir scran.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=scran.buildbin-libdir scran_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL scran_1.16.0.zip && rm scran_1.16.0.tar.gz scran_1.16.0.zip
###
##############################################################################
##############################################################################
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 563k 100 563k 0 0 9071k 0 --:--:-- --:--:-- --:--:-- 10.0M
install for i386
* installing *source* package 'scran' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c build_snn.cpp -o build_snn.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c combine_rho.cpp -o combine_rho.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c combine_simes.cpp -o combine_simes.o
combine_simes.cpp: In instantiation of 'size_t instantiate_list(Rcpp::List, std::vector<T>&, std::__cxx11::string) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = unsigned int; Rcpp::List = Rcpp::Vector<19>; std::__cxx11::string = std::__cxx11::basic_string<char>]':
combine_simes.cpp:28:70: required from here
combine_simes.cpp:13:23: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
for (size_t c=0; c<input.size(); ++c) {
~^~~~~~~~~~~~~
combine_simes.cpp: In instantiation of 'size_t instantiate_list(Rcpp::List, std::vector<T>&, std::__cxx11::string) [with V = Rcpp::Vector<13>; size_t = unsigned int; Rcpp::List = Rcpp::Vector<19>; std::__cxx11::string = std::__cxx11::basic_string<char>]':
combine_simes.cpp:145:67: required from here
combine_simes.cpp:13:23: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_blocked_stats.cpp -o compute_blocked_stats.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_residual_stats.cpp -o compute_residual_stats.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_rho_null.cpp -o compute_rho_null.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/apply.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/iter_apply.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/find_if_pred.hpp:14,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find_if.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/contains_impl.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/contains.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/policies/policy.hpp:10,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/fpclassify.hpp:19,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:22,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random.hpp:69,
from rand_custom.h:6,
from compute_rho_null.cpp:4:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_rho_pairs.cpp -o compute_rho_pairs.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cyclone_scores.cpp -o cyclone_scores.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/iterator/iterator_concepts.hpp:10,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/range/concepts.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/range/algorithm.hpp:29,
from cyclone_scores.cpp:6:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fit_linear_model.cpp -o fit_linear_model.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_residuals.cpp -o get_residuals.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_scaled_ranks.cpp -o get_scaled_ranks.o
get_scaled_ranks.cpp: In instantiation of 'SEXPREC* average_ranks_internal(SEXP, SEXP, SEXP, SEXP) [with M = beachmat::lin_matrix<int, Rcpp::Vector<13> >; SEXP = SEXPREC*]':
get_scaled_ranks.cpp:137:100: required from here
get_scaled_ranks.cpp:67:16: warning: unused variable 'accumulated_rank' [-Wunused-variable]
double accumulated_rank=0;
^~~~~~~~~~~~~~~~
get_scaled_ranks.cpp: In instantiation of 'SEXPREC* average_ranks_internal(SEXP, SEXP, SEXP, SEXP) [with M = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; SEXP = SEXPREC*]':
get_scaled_ranks.cpp:139:100: required from here
get_scaled_ranks.cpp:67:16: warning: unused variable 'accumulated_rank' [-Wunused-variable]
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c overlap_exprs.cpp -o overlap_exprs.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c pool_size_factors.cpp -o pool_size_factors.o
pool_size_factors.cpp: In function 'Rcpp::List pool_size_factors(Rcpp::RObject, Rcpp::NumericVector, Rcpp::IntegerVector, Rcpp::IntegerVector)':
pool_size_factors.cpp:36:15: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const unsigned int'} and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
if (ngenes!=pseudo_cell.size()) { throw std::runtime_error("length of pseudo-cell vector is not the same as the number of cells"); }
~~~~~~^~~~~~~~~~~~~~~~~~~~
pool_size_factors.cpp:39:22: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'int'} and 'unsigned int' [-Wsign-compare]
if (order.size() < ncells*2-1) { throw std::runtime_error("ordering vector is too short for number of cells"); }
~~~~~~~~~~~~~^~~~~~~~~~~~
pool_size_factors.cpp:101:37: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
for (auto i=0; i<n; ++i, ++val, ++idx) {
~^~
In file included from pool_size_factors.cpp:4:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include/beachmat/utils/const_column.h: In instantiation of 'Rcpp::traits::storage_type<13>::type* beachmat::const_column<M>::get_indices() [with M = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]':
pool_size_factors.cpp:52:34: required from here
C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include/beachmat/utils/const_column.h:66:29: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
if (ref->get_nrow() > indices.size()) {
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rand_custom.cpp -o rand_custom.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/apply.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/iter_apply.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/find_if_pred.hpp:14,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find_if.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/contains_impl.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/contains.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/policies/policy.hpp:10,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/fpclassify.hpp:19,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:22,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random.hpp:69,
from rand_custom.h:6,
from rand_custom.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c run_dormqr.cpp -o run_dormqr.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c subset_and_divide.cpp -o subset_and_divide.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utils.cpp -o utils.o
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o scran.dll tmp.def RcppExports.o build_snn.o combine_rho.o combine_simes.o compute_blocked_stats.o compute_residual_stats.o compute_rho_null.o compute_rho_pairs.o cyclone_scores.o fit_linear_model.o get_residuals.o get_scaled_ranks.o overlap_exprs.o pool_size_factors.o rand_custom.o run_dormqr.o subset_and_divide.o utils.o -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/scran.buildbin-libdir/00LOCK-scran/00new/scran/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'scran'
finding HTML links ... done
DM html
bootstrapCluster html
finding level-2 HTML links ... done
buildSNNGraph html
cleanSizeFactors html
clusterModularity html
clusterPurity html
clusterSNNGraph html
coassignProb html
combineMarkers html
combinePValues html
combineVar html
computeSpikeFactors html
computeSumFactors html
convertTo html
correlateGenes html
correlateNull html
correlatePairs html
cyclone html
decideTestsPerLabel html
defunct html
denoisePCA html
doubletCells html
doubletCluster html
doubletRecovery html
findMarkers html
fitTrendCV2 html
fitTrendPoisson html
fitTrendVar html
gene_selection html
getClusteredPCs html
getMarkerEffects html
getTopHVGs html
getTopMarkers html
modelGeneCV2 html
modelGeneCV2WithSpikes html
modelGeneVar html
modelGeneVarByPoisson html
modelGeneVarWithSpikes html
multiMarkerStats html
pairwiseBinom html
pairwiseTTests html
pairwiseWilcox html
pseudoBulkDGE html
quickCluster html
quickSubCluster html
sandbag html
scaledColRanks html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'scran' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c build_snn.cpp -o build_snn.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c combine_rho.cpp -o combine_rho.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c combine_simes.cpp -o combine_simes.o
combine_simes.cpp: In instantiation of 'size_t instantiate_list(Rcpp::List, std::vector<T>&, std::__cxx11::string) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; size_t = long long unsigned int; Rcpp::List = Rcpp::Vector<19>; std::__cxx11::string = std::__cxx11::basic_string<char>]':
combine_simes.cpp:28:70: required from here
combine_simes.cpp:13:23: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
for (size_t c=0; c<input.size(); ++c) {
~^~~~~~~~~~~~~
combine_simes.cpp: In instantiation of 'size_t instantiate_list(Rcpp::List, std::vector<T>&, std::__cxx11::string) [with V = Rcpp::Vector<13>; size_t = long long unsigned int; Rcpp::List = Rcpp::Vector<19>; std::__cxx11::string = std::__cxx11::basic_string<char>]':
combine_simes.cpp:145:67: required from here
combine_simes.cpp:13:23: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_blocked_stats.cpp -o compute_blocked_stats.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_residual_stats.cpp -o compute_residual_stats.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_rho_null.cpp -o compute_rho_null.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/apply.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/iter_apply.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/find_if_pred.hpp:14,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find_if.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/contains_impl.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/contains.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/policies/policy.hpp:10,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/fpclassify.hpp:19,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:22,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random.hpp:69,
from rand_custom.h:6,
from compute_rho_null.cpp:4:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c compute_rho_pairs.cpp -o compute_rho_pairs.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cyclone_scores.cpp -o cyclone_scores.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/iterator/iterator_concepts.hpp:10,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/range/concepts.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/range/algorithm.hpp:29,
from cyclone_scores.cpp:6:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fit_linear_model.cpp -o fit_linear_model.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_residuals.cpp -o get_residuals.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_scaled_ranks.cpp -o get_scaled_ranks.o
get_scaled_ranks.cpp: In instantiation of 'SEXPREC* average_ranks_internal(SEXP, SEXP, SEXP, SEXP) [with M = beachmat::lin_matrix<int, Rcpp::Vector<13> >; SEXP = SEXPREC*]':
get_scaled_ranks.cpp:137:100: required from here
get_scaled_ranks.cpp:67:16: warning: unused variable 'accumulated_rank' [-Wunused-variable]
double accumulated_rank=0;
^~~~~~~~~~~~~~~~
get_scaled_ranks.cpp: In instantiation of 'SEXPREC* average_ranks_internal(SEXP, SEXP, SEXP, SEXP) [with M = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; SEXP = SEXPREC*]':
get_scaled_ranks.cpp:139:100: required from here
get_scaled_ranks.cpp:67:16: warning: unused variable 'accumulated_rank' [-Wunused-variable]
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c overlap_exprs.cpp -o overlap_exprs.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c pool_size_factors.cpp -o pool_size_factors.o
pool_size_factors.cpp: In function 'Rcpp::List pool_size_factors(Rcpp::RObject, Rcpp::NumericVector, Rcpp::IntegerVector, Rcpp::IntegerVector)':
pool_size_factors.cpp:36:15: warning: comparison of integer expressions of different signedness: 'const size_t' {aka 'const long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
if (ngenes!=pseudo_cell.size()) { throw std::runtime_error("length of pseudo-cell vector is not the same as the number of cells"); }
~~~~~~^~~~~~~~~~~~~~~~~~~~
pool_size_factors.cpp:39:22: warning: comparison of integer expressions of different signedness: 'R_xlen_t' {aka 'long long int'} and 'long long unsigned int' [-Wsign-compare]
if (order.size() < ncells*2-1) { throw std::runtime_error("ordering vector is too short for number of cells"); }
~~~~~~~~~~~~~^~~~~~~~~~~~
pool_size_factors.cpp:101:37: warning: comparison of integer expressions of different signedness: 'int' and 'long long unsigned int' [-Wsign-compare]
for (auto i=0; i<n; ++i, ++val, ++idx) {
~^~
In file included from pool_size_factors.cpp:4:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include/beachmat/utils/const_column.h: In instantiation of 'Rcpp::traits::storage_type<13>::type* beachmat::const_column<M>::get_indices() [with M = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::Vector<13>::iterator = int*; Rcpp::traits::storage_type<13>::type = int]':
pool_size_factors.cpp:52:34: required from here
C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include/beachmat/utils/const_column.h:66:29: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare]
if (ref->get_nrow() > indices.size()) {
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rand_custom.cpp -o rand_custom.o
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/apply.hpp:24,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/iter_apply.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/find_if_pred.hpp:14,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find_if.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/find.hpp:17,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/aux_/contains_impl.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/contains.hpp:20,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/policies/policy.hpp:10,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/math/special_functions/fpclassify.hpp:19,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:22,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/random.hpp:69,
from rand_custom.h:6,
from rand_custom.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c run_dormqr.cpp -o run_dormqr.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c subset_and_divide.cpp -o subset_and_divide.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utils.cpp -o utils.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o scran.dll tmp.def RcppExports.o build_snn.o combine_rho.o combine_simes.o compute_blocked_stats.o compute_residual_stats.o compute_rho_null.o compute_rho_pairs.o cyclone_scores.o fit_linear_model.o get_residuals.o get_scaled_ranks.o overlap_exprs.o pool_size_factors.o rand_custom.o run_dormqr.o subset_and_divide.o utils.o -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/scran.buildbin-libdir/scran/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'scran' as scran_1.16.0.zip
* DONE (scran)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'scran' successfully unpacked and MD5 sums checked