seqbias 1.30.0
Daniel Jones
| Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019) |
| URL: https://git.bioconductor.org/packages/seqbias |
| Branch: RELEASE_3_8 |
| Last Commit: 498bb37 |
| Last Changed Date: 2018-10-30 11:41:47 -0400 (Tue, 30 Oct 2018) |
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | |  |
| merida1 | OS X 10.11.6 El Capitan / x86_64 | [ OK ] | OK | OK | OK | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL seqbias
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘seqbias’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c common.c -o common.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c miscmath.c -o miscmath.o
miscmath.c:21:12: warning: 'finite' is deprecated: first deprecated in macOS 10.9 [-Wdeprecated-declarations]
return finite(a) && 0.0 <= a && a <= 1.0;
^
/usr/include/math.h:757:12: note: 'finite' has been explicitly marked deprecated here
extern int finite(double) __OSX_AVAILABLE_BUT_DEPRECATED(__MAC_10_0, __MAC_10_9, __IPHONE_NA, __IPHONE_NA);
^
miscmath.c:47:9: warning: 'finite' is deprecated: first deprecated in macOS 10.9 [-Wdeprecated-declarations]
if (finite(u)) return x + log1p(-exp(u));
^
/usr/include/math.h:757:12: note: 'finite' has been explicitly marked deprecated here
extern int finite(double) __OSX_AVAILABLE_BUT_DEPRECATED(__MAC_10_0, __MAC_10_9, __IPHONE_NA, __IPHONE_NA);
^
2 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c pos_table.c -o pos_table.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c samtools_extra.c -o samtools_extra.o
samtools_extra.c:36:1: warning: unused function 'kh_init_s' [-Wunused-function]
KHASH_MAP_INIT_STR(s, faidx1_t)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:526:2: note: expanded from macro 'KHASH_MAP_INIT_STR'
KHASH_INIT(name, kh_cstr_t, khval_t, 1, kh_str_hash_func, kh_str_hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:307:2: note: expanded from macro 'KHASH_INIT'
KHASH_INIT2(name, static inline, khkey_t, khval_t, kh_is_map, __hash_func, __hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:168:23: note: expanded from macro 'KHASH_INIT2'
SCOPE kh_##name##_t *kh_init_##name() { \
^
<scratch space>:317:1: note: expanded from here
kh_init_s
^
samtools_extra.c:36:1: warning: unused function 'kh_destroy_s' [-Wunused-function]
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:526:2: note: expanded from macro 'KHASH_MAP_INIT_STR'
KHASH_INIT(name, kh_cstr_t, khval_t, 1, kh_str_hash_func, kh_str_hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:307:2: note: expanded from macro 'KHASH_INIT'
KHASH_INIT2(name, static inline, khkey_t, khval_t, kh_is_map, __hash_func, __hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:171:13: note: expanded from macro 'KHASH_INIT2'
SCOPE void kh_destroy_##name(kh_##name##_t *h) \
^
<scratch space>:322:1: note: expanded from here
kh_destroy_s
^
samtools_extra.c:36:1: warning: unused function 'kh_clear_s' [-Wunused-function]
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:526:2: note: expanded from macro 'KHASH_MAP_INIT_STR'
KHASH_INIT(name, kh_cstr_t, khval_t, 1, kh_str_hash_func, kh_str_hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:307:2: note: expanded from macro 'KHASH_INIT'
KHASH_INIT2(name, static inline, khkey_t, khval_t, kh_is_map, __hash_func, __hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:179:13: note: expanded from macro 'KHASH_INIT2'
SCOPE void kh_clear_##name(kh_##name##_t *h) \
^
<scratch space>:325:1: note: expanded from here
kh_clear_s
^
samtools_extra.c:36:1: warning: unused function 'kh_put_s' [-Wunused-function]
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:526:2: note: expanded from macro 'KHASH_MAP_INIT_STR'
KHASH_INIT(name, kh_cstr_t, khval_t, 1, kh_str_hash_func, kh_str_hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:307:2: note: expanded from macro 'KHASH_INIT'
KHASH_INIT2(name, static inline, khkey_t, khval_t, kh_is_map, __hash_func, __hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:260:16: note: expanded from macro 'KHASH_INIT2'
SCOPE khint_t kh_put_##name(kh_##name##_t *h, khkey_t key, int *ret) \
^
<scratch space>:6:1: note: expanded from here
kh_put_s
^
samtools_extra.c:36:1: warning: unused function 'kh_del_s' [-Wunused-function]
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:526:2: note: expanded from macro 'KHASH_MAP_INIT_STR'
KHASH_INIT(name, kh_cstr_t, khval_t, 1, kh_str_hash_func, kh_str_hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:307:2: note: expanded from macro 'KHASH_INIT'
KHASH_INIT2(name, static inline, khkey_t, khval_t, kh_is_map, __hash_func, __hash_equal)
^
/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include/samtools/khash.h:298:13: note: expanded from macro 'KHASH_INIT2'
SCOPE void kh_del_##name(kh_##name##_t *h, khint_t x) \
^
<scratch space>:11:1: note: expanded from here
kh_del_s
^
5 warnings generated.
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c kmer_matrix.cpp -o kmer_matrix.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c logger.cpp -o logger.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c motif.cpp -o motif.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c seqbias.cpp -o seqbias.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c sequencing_bias.cpp -o sequencing_bias.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c twobitseq.cpp -o twobitseq.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/aliasmanager.cpp -o yaml-cpp/aliasmanager.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/conversion.cpp -o yaml-cpp/conversion.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/directives.cpp -o yaml-cpp/directives.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/emitfromevents.cpp -o yaml-cpp/emitfromevents.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/emitter.cpp -o yaml-cpp/emitter.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/emitterstate.cpp -o yaml-cpp/emitterstate.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/emitterutils.cpp -o yaml-cpp/emitterutils.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/exp.cpp -o yaml-cpp/exp.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/iterator.cpp -o yaml-cpp/iterator.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/nodebuilder.cpp -o yaml-cpp/nodebuilder.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/node.cpp -o yaml-cpp/node.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/nodeownership.cpp -o yaml-cpp/nodeownership.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/null.cpp -o yaml-cpp/null.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/ostream.cpp -o yaml-cpp/ostream.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/parser.cpp -o yaml-cpp/parser.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/regex.cpp -o yaml-cpp/regex.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/scanner.cpp -o yaml-cpp/scanner.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/scanscalar.cpp -o yaml-cpp/scanscalar.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/scantag.cpp -o yaml-cpp/scantag.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/scantoken.cpp -o yaml-cpp/scantoken.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/simplekey.cpp -o yaml-cpp/simplekey.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/singledocparser.cpp -o yaml-cpp/singledocparser.o
In file included from yaml-cpp/singledocparser.cpp:2:
yaml-cpp/collectionstack.h:28:48: warning: unused parameter 'type' [-Wunused-parameter]
void PopCollectionType(CollectionType::value type) { assert(type == GetCurCollectionType()); collectionStack.pop(); }
^
1 warning generated.
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/stream.cpp -o yaml-cpp/stream.o
clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/include" -I/usr/local/include -Wall -Wextra -I. -fPIC -Wall -g -O2 -c yaml-cpp/tag.cpp -o yaml-cpp/tag.o
clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o seqbias.so common.o miscmath.o pos_table.o samtools_extra.o kmer_matrix.o logger.o motif.o seqbias.o sequencing_bias.o twobitseq.o yaml-cpp/aliasmanager.o yaml-cpp/conversion.o yaml-cpp/directives.o yaml-cpp/emitfromevents.o yaml-cpp/emitter.o yaml-cpp/emitterstate.o yaml-cpp/emitterutils.o yaml-cpp/exp.o yaml-cpp/iterator.o yaml-cpp/nodebuilder.o yaml-cpp/node.o yaml-cpp/nodeownership.o yaml-cpp/null.o yaml-cpp/ostream.o yaml-cpp/parser.o yaml-cpp/regex.o yaml-cpp/scanner.o yaml-cpp/scanscalar.o yaml-cpp/scantag.o yaml-cpp/scantoken.o yaml-cpp/simplekey.o yaml-cpp/singledocparser.o yaml-cpp/stream.o yaml-cpp/tag.o /Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/usrlib//libbam.a /Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/usrlib//libbcf.a /Library/Frameworks/R.framework/Versions/3.5/Resources/library/Rsamtools/usrlib//libtabix.a -lz -pthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
clang-4.0: warning: argument unused during compilation: '-pthread' [-Wunused-command-line-argument]
installing to /Library/Frameworks/R.framework/Versions/3.5/Resources/library/seqbias/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (seqbias)