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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL iscream
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘iscream’ ...
** this is package ‘iscream’ version ‘0.99.8’
** using staged installation
*** Configuring for package installation...
**** Trying pkg-config to use system htslib headers...
     Falling back to Rhtslib
     Using Rhtslib cflags and libs for htslib!
**** Using clang
     Apple clang version 15.0.0 (clang-1500.1.0.2.5)
     Target: arm64-apple-darwin22.6.0
     Thread model: posix
     InstalledDir: /Library/Developer/CommandLineTools/usr/bin
     WARNING: Could not find tabix to check for minimum htslib version - make sure its >= 1.17
**** Compilation flags
     Using PKG_CFLAGS=-D_FILE_OFFSET_BITS=64
     Using PKG_LIBS='/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/usrlib/libhts.a' -lcurl -lbz2 -llzma -lz
**** Checking if htslib was compiled with libdeflate
     NOTE: iscream queries may be slower with Rhtslib than with htslib compiled with libdeflate
     See <https://huishenlab.github.io/iscream/articles/htslib.html> for more information
**** Success!
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using C++17
using SDK: ‘MacOSX11.3.1.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c decode_mat.cpp -o decode_mat.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c get_threads.cpp -o get_threads.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c log.cpp -o log.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c parsers.cpp -o parsers.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c query.cpp -o query.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c query_all.cpp -o query_all.o
In file included from query_all.cpp:1:
./query_all.hpp:56:1: warning: unused function 'khmap_destroy' [-Wunused-function]
KHASHL_MAP_INIT(static, khmap_t, khmap, CpG, int, kh_hash_cpg, kh_eq_cpg);
^
./../inst/include/khashl.h:350:13: note: expanded from macro 'KHASHL_MAP_INIT'
        SCOPE void prefix##_destroy(HType *h) { prefix##_m_destroy(h); } \
                   ^
<scratch space>:394:1: note: expanded from here
khmap_destroy
^
In file included from query_all.cpp:1:
./query_all.hpp:56:1: warning: unused function 'khmap_del' [-Wunused-function]
./../inst/include/khashl.h:352:12: note: expanded from macro 'KHASHL_MAP_INIT'
        SCOPE int prefix##_del(HType *h, khint_t k) { return prefix##_m_del(h, k); } \
                  ^
<scratch space>:399:1: note: expanded from here
khmap_del
^
2 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppProgress/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppSpdlog/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/stringfish/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c summarize_regions.cpp -o summarize_regions.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o iscream.so RcppExports.o decode_mat.o get_threads.o log.o parsers.o query.o query_all.o summarize_regions.o /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rhtslib/usrlib/libhts.a -lcurl -lbz2 -llzma -lz -F/Library/Frameworks/R.framework/.. -framework R
installing to /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-iscream/00new/iscream/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (iscream)