############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL Rdisop ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library' * installing *source* package 'Rdisop' ... ** using staged installation ** libs g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c disop.cpp -o disop.o In file included from ./imslib/src/ims/alphabet.h:8, from disop.cpp:18: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from disop.cpp:22: ./imslib/src/ims/composedelement.h: At global scope: ./imslib/src/ims/composedelement.h:204:58: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 204 | void initializeElements(const Alphabet& alphabet, std::auto_ptr parser) | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\locale_conv.h:41, from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\locale:43, from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\iomanip:43, from disop.cpp:5: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from disop.cpp:26: ./imslib/src/ims/decomp/realmassdecomposer.h:103:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 103 | std::auto_ptr decomposer; | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\locale_conv.h:41, from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\locale:43, from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\iomanip:43, from disop.cpp:5: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from disop.cpp:28: ./imslib/src/ims/decomp/decomputils.h: In function 'std::pair ims::DecompUtils::getMinMaxWeightsRoundingErrors(const DecompositionWeights&)': ./imslib/src/ims/decomp/decomputils.h:92:53: warning: typedef 'weight_type' locally defined but not used [-Wunused-local-typedefs] 92 | typedef typename DecompositionWeights::weight_type weight_type; | ^~~~~~~~~~~ disop.cpp: In function 'bool isValidMyNitrogenRule(const ims::ComposedElement&, int)': disop.cpp:106:8: warning: unused variable 'parityeven' [-Wunused-variable] 106 | bool parityeven = !parityodd; | ^~~~~~~~~~ disop.cpp: In function 'SEXPREC* decomposeIsotopes(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': disop.cpp:228:43: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 228 | for (peaks_container::size_type i = 0; i < abundances.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ disop.cpp:231:43: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 231 | for (peaks_container::size_type i = 0; i < abundances.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ disop.cpp:239:46: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 239 | for (masses_container::size_type mi = 0; mi < masses.size() && mi < abundances.size(); ++mi) { | ~~~^~~~~~~~~~~~~~~ disop.cpp:239:68: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 239 | for (masses_container::size_type mi = 0; mi < masses.size() && mi < abundances.size(); ++mi) { | ~~~^~~~~~~~~~~~~~~~~~~ disop.cpp:191:6: warning: unused variable 'number_molecules_shown' [-Wunused-variable] 191 | int number_molecules_shown = 100; | ^~~~~~~~~~~~~~~~~~~~~~ disop.cpp:169:39: warning: typedef 'mass_type' locally defined but not used [-Wunused-local-typedefs] 169 | typedef distribution_t::mass_type mass_type; | ^~~~~~~~~ disop.cpp:171:47: warning: typedef 'nominal_mass_type' locally defined but not used [-Wunused-local-typedefs] 171 | typedef distribution_t::nominal_mass_type nominal_mass_type; | ^~~~~~~~~~~~~~~~~ disop.cpp:174:42: warning: typedef 'decomposition_type' locally defined but not used [-Wunused-local-typedefs] 174 | typedef decompositions_t::value_type decomposition_type; | ^~~~~~~~~~~~~~~~~~ disop.cpp: In function 'SEXPREC* calculateScore(SEXP, SEXP, SEXP, SEXP)': disop.cpp:390:46: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 390 | for (masses_container::size_type mi = 0; mi < masses.size() && mi < abundances.size(); ++mi) | ~~~^~~~~~~~~~~~~~~ disop.cpp:390:68: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 390 | for (masses_container::size_type mi = 0; mi < masses.size() && mi < abundances.size(); ++mi) | ~~~^~~~~~~~~~~~~~~~~~~ disop.cpp:407:43: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 407 | for (peaks_container::size_type i = 0; i < abundances.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ disop.cpp:410:43: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 410 | for (peaks_container::size_type i = 0; i < abundances.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ disop.cpp:414:46: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 414 | for (masses_container::size_type mi = 0; mi < masses.size() && mi < abundances.size(); ++mi) | ~~~^~~~~~~~~~~~~~~ disop.cpp:414:68: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long long unsigned int'} and 'R_xlen_t' {aka 'long long int'} [-Wsign-compare] 414 | for (masses_container::size_type mi = 0; mi < masses.size() && mi < abundances.size(); ++mi) | ~~~^~~~~~~~~~~~~~~~~~~ disop.cpp:377:40: warning: typedef 'mass_type' locally defined but not used [-Wunused-local-typedefs] 377 | typedef distribution_t::mass_type mass_type; | ^~~~~~~~~ disop.cpp: In function 'SEXPREC* rlistScores(std::multimap >, int)': disop.cpp:626:43: warning: typedef 'scorer_type' locally defined but not used [-Wunused-local-typedefs] 626 | typedef DistributionProbabilityScorer scorer_type; | ^~~~~~~~~~~ disop.cpp: In function 'void initializeCHNOPS(alphabet_t&, int)': disop.cpp:709:32: warning: typedef 'elements_type' locally defined but not used [-Wunused-local-typedefs] 709 | typedef alphabet_t::container elements_type; | ^~~~~~~~~~~~~ disop.cpp: In function 'void initializeAlphabet(SEXP, alphabet_t&, int)': disop.cpp:814:33: warning: typedef 'elements_type' locally defined but not used [-Wunused-local-typedefs] 814 | typedef alphabet_t::container elements_type; | ^~~~~~~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/element.cpp -o imslib/src/ims/element.o In file included from imslib/src/ims/element.cpp:6: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/composedelement.cpp -o imslib/src/ims/composedelement.o In file included from ./imslib/src/ims/composedelement.h:7, from imslib/src/ims/composedelement.cpp:8: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from imslib/src/ims/composedelement.cpp:8: ./imslib/src/ims/composedelement.h: At global scope: ./imslib/src/ims/composedelement.h:204:58: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 204 | void initializeElements(const Alphabet& alphabet, std::auto_ptr parser) | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/composedelement.h:6, from imslib/src/ims/composedelement.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/composedelement.cpp: In constructor 'ims::ComposedElement::ComposedElement(const name_type&, const ims::Alphabet&, unsigned int)': imslib/src/ims/composedelement.cpp:26:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 26 | std::auto_ptr parser; | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/composedelement.h:6, from imslib/src/ims/composedelement.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/composedelement.cpp:28:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 28 | parser = std::auto_ptr(new StandardMoleculeSequenceParser); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/composedelement.h:6, from imslib/src/ims/composedelement.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/composedelement.cpp:30:17: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 30 | parser = std::auto_ptr(new MoleculeSequenceParser); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/composedelement.h:6, from imslib/src/ims/composedelement.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/composedelement.cpp: At global scope: imslib/src/ims/composedelement.cpp:116:73: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 116 | void ComposedElement::initializeElements(const Alphabet& alphabet, std::auto_ptr parser) | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/composedelement.h:6, from imslib/src/ims/composedelement.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/isotopedistribution.cpp -o imslib/src/ims/isotopedistribution.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/alphabet.cpp -o imslib/src/ims/alphabet.o In file included from ./imslib/src/ims/alphabet.h:8, from imslib/src/ims/alphabet.cpp:6: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/weights.cpp -o imslib/src/ims/weights.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/distributedalphabet.cpp -o imslib/src/ims/distributedalphabet.o In file included from ./imslib/src/ims/alphabet.h:8, from ./imslib/src/ims/distributedalphabet.h:7, from imslib/src/ims/distributedalphabet.cpp:7: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/transformation.cpp -o imslib/src/ims/transformation.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/isotopespecies.cpp -o imslib/src/ims/isotopespecies.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/alphabettextparser.cpp -o imslib/src/ims/base/parser/alphabettextparser.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/distributedalphabettextparser.cpp -o imslib/src/ims/base/parser/distributedalphabettextparser.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/massestextparser.cpp -o imslib/src/ims/base/parser/massestextparser.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/moleculesequenceparser.cpp -o imslib/src/ims/base/parser/moleculesequenceparser.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/standardmoleculesequenceparser.cpp -o imslib/src/ims/base/parser/standardmoleculesequenceparser.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/keggligandcompoundsparser.cpp -o imslib/src/ims/base/parser/keggligandcompoundsparser.o imslib/src/ims/base/parser/keggligandcompoundsparser.cpp: In member function 'virtual void ims::KeggLigandCompoundsParser::parse(const sequence_type&)': imslib/src/ims/base/parser/keggligandcompoundsparser.cpp:53:31: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 53 | for (; letter_pos < last_pos && | ~~~~~~~~~~~~~~~~~~~~~~^~ 54 | ( std::isalpha(sequence[letter_pos]) && std::isupper(sequence[letter_pos])) || | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/base/parser/moleculeionchargemodificationparser.cpp -o imslib/src/ims/base/parser/moleculeionchargemodificationparser.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/calib/linepairstabber.cpp -o imslib/src/ims/calib/linepairstabber.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/calib/matchmatrix.cpp -o imslib/src/ims/calib/matchmatrix.o In file included from imslib/src/ims/calib/matchmatrix.cpp:1: ./imslib/src/ims/calib/matchmatrix.h:61:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 61 | std::auto_ptr > countMatches(); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/matchmatrix.h:4, from imslib/src/ims/calib/matchmatrix.cpp:1: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from imslib/src/ims/calib/matchmatrix.cpp:1: ./imslib/src/ims/calib/matchmatrix.h:65:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 65 | std::auto_ptr > countMatchesRestrictive(); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/matchmatrix.h:4, from imslib/src/ims/calib/matchmatrix.cpp:1: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/matchmatrix.cpp:81:6: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 81 | std::auto_ptr > MatchMatrix::countMatches() { | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/matchmatrix.h:4, from imslib/src/ims/calib/matchmatrix.cpp:1: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/matchmatrix.cpp: In member function 'std::auto_ptr > ims::MatchMatrix::countMatches()': imslib/src/ims/calib/matchmatrix.cpp:82:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 82 | std::auto_ptr > m(new std::map); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/matchmatrix.h:4, from imslib/src/ims/calib/matchmatrix.cpp:1: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/matchmatrix.cpp: At global scope: imslib/src/ims/calib/matchmatrix.cpp:102:6: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 102 | std::auto_ptr > MatchMatrix::countMatchesRestrictive() { | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/matchmatrix.h:4, from imslib/src/ims/calib/matchmatrix.cpp:1: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/matchmatrix.cpp: In member function 'std::auto_ptr > ims::MatchMatrix::countMatchesRestrictive()': imslib/src/ims/calib/matchmatrix.cpp:103:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 103 | std::auto_ptr > m(new std::map); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/matchmatrix.h:4, from imslib/src/ims/calib/matchmatrix.cpp:1: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/calib/linearpointsetmatcher.cpp -o imslib/src/ims/calib/linearpointsetmatcher.o In file included from ./imslib/src/ims/calib/linearpointsetmatcher.h:13, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/matchmatrix.h:61:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 61 | std::auto_ptr > countMatches(); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./imslib/src/ims/calib/linearpointsetmatcher.h:13, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/matchmatrix.h:65:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 65 | std::auto_ptr > countMatchesRestrictive(); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/linearpointsetmatcher.h:146:7: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 146 | std::auto_ptr > getMapping() const; | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/linearpointsetmatcher.h:169:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 169 | std::auto_ptr > mapping; | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/linearpointsetmatcher.h: In member function 'void ims::LinearPointSetMatcher::countMatchesOneToOne(RandomAccessIterator, RandomAccessIterator, RandomAccessIterator, RandomAccessIterator, const std::vector&, int, int, float)': ./imslib/src/ims/calib/linearpointsetmatcher.h:281:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 281 | std::auto_ptr > mapping(0); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/linearpointsetmatcher.h: In member function 'int ims::LinearPointSetMatcher::match(RandomAccessIterator, RandomAccessIterator, RandomAccessIterator, RandomAccessIterator)': ./imslib/src/ims/calib/linearpointsetmatcher.h:324:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 324 | results.mapping = std::auto_ptr >(new std::map); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: ./imslib/src/ims/calib/linearpointsetmatcher.h:326:26: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 326 | results.mapping = std::auto_ptr >(0); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/linearpointsetmatcher.cpp: At global scope: imslib/src/ims/calib/linearpointsetmatcher.cpp:84:6: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 84 | std::auto_ptr > LinearPointSetMatcher::getMapping() const { | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/linearpointsetmatcher.cpp: In member function 'std::auto_ptr > ims::LinearPointSetMatcher::getMapping() const': imslib/src/ims/calib/linearpointsetmatcher.cpp:86:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 86 | return std::auto_ptr >(0); // TODO throw sth. instead | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ imslib/src/ims/calib/linearpointsetmatcher.cpp:89:15: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 89 | return std::auto_ptr >(new std::map(*(results.mapping))); | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/calib/linearpointsetmatcher.h:8, from imslib/src/ims/calib/linearpointsetmatcher.cpp:11: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/decomp/realmassdecomposer.cpp -o imslib/src/ims/decomp/realmassdecomposer.o In file included from imslib/src/ims/decomp/realmassdecomposer.cpp:8: ./imslib/src/ims/decomp/realmassdecomposer.h:103:8: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 103 | std::auto_ptr decomposer; | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/decomp/realmassdecomposer.h:5, from imslib/src/ims/decomp/realmassdecomposer.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ In file included from ./imslib/src/ims/alphabet.h:8, from ./imslib/src/ims/decomp/decomputils.h:12, from imslib/src/ims/decomp/realmassdecomposer.cpp:9: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from imslib/src/ims/decomp/realmassdecomposer.cpp:9: ./imslib/src/ims/decomp/decomputils.h: In function 'std::pair ims::DecompUtils::getMinMaxWeightsRoundingErrors(const DecompositionWeights&)': ./imslib/src/ims/decomp/decomputils.h:92:53: warning: typedef 'weight_type' locally defined but not used [-Wunused-local-typedefs] 92 | typedef typename DecompositionWeights::weight_type weight_type; | ^~~~~~~~~~~ imslib/src/ims/decomp/realmassdecomposer.cpp: In constructor 'ims::RealMassDecomposer::RealMassDecomposer(const ims::Weights&)': imslib/src/ims/decomp/realmassdecomposer.cpp:21:20: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 21 | decomposer = std::auto_ptr( | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/decomp/realmassdecomposer.h:5, from imslib/src/ims/decomp/realmassdecomposer.cpp:8: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/utils/distribution.cpp -o imslib/src/ims/utils/distribution.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/distributionprobabilityscorer.cpp -o imslib/src/ims/distributionprobabilityscorer.o g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/characteralphabet.cpp -o imslib/src/ims/characteralphabet.o In file included from ./imslib/src/ims/alphabet.h:8, from ./imslib/src/ims/characteralphabet.h:6, from imslib/src/ims/characteralphabet.cpp:3: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++14 -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.16-bioc/R/library/Rcpp/include' -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include" -I./imslib/src/ -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c imslib/src/ims/nitrogenrulefilter.cpp -o imslib/src/ims/nitrogenrulefilter.o In file included from ./imslib/src/ims/composedelement.h:7, from ./imslib/src/ims/nitrogenrulefilter.h:4, from imslib/src/ims/nitrogenrulefilter.cpp:5: ./imslib/src/ims/element.h: In member function 'ims::Element::mass_type ims::Element::getMass(ims::Element::size_type) const': ./imslib/src/ims/element.h:166:23: warning: comparison of integer expressions of different signedness: 'int' and 'ims::IsotopeDistribution::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 166 | for (int i=0; i < IsotopeDistribution::SIZE; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./imslib/src/ims/nitrogenrulefilter.h:4, from imslib/src/ims/nitrogenrulefilter.cpp:5: ./imslib/src/ims/composedelement.h: At global scope: ./imslib/src/ims/composedelement.h:204:58: warning: 'template class std::auto_ptr' is deprecated [-Wdeprecated-declarations] 204 | void initializeElements(const Alphabet& alphabet, std::auto_ptr parser) | ^~~~~~~~ In file included from c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\memory:83, from ./imslib/src/ims/composedelement.h:6, from ./imslib/src/ims/nitrogenrulefilter.h:4, from imslib/src/ims/nitrogenrulefilter.cpp:5: c:\rtools42\x86_64-w64-mingw32.static.posix\lib\gcc\x86_64-w64-mingw32.static.posix\10.4.0\include\c++\bits\unique_ptr.h:57:28: note: declared here 57 | template class auto_ptr; | ^~~~~~~~ g++ -std=gnu++14 -shared -s -static-libgcc -o Rdisop.dll tmp.def disop.o imslib/src/ims/element.o imslib/src/ims/composedelement.o imslib/src/ims/isotopedistribution.o imslib/src/ims/alphabet.o imslib/src/ims/weights.o imslib/src/ims/distributedalphabet.o imslib/src/ims/transformation.o imslib/src/ims/isotopespecies.o imslib/src/ims/base/parser/alphabettextparser.o imslib/src/ims/base/parser/distributedalphabettextparser.o imslib/src/ims/base/parser/massestextparser.o imslib/src/ims/base/parser/moleculesequenceparser.o imslib/src/ims/base/parser/standardmoleculesequenceparser.o imslib/src/ims/base/parser/keggligandcompoundsparser.o imslib/src/ims/base/parser/moleculeionchargemodificationparser.o imslib/src/ims/calib/linepairstabber.o imslib/src/ims/calib/matchmatrix.o imslib/src/ims/calib/linearpointsetmatcher.o imslib/src/ims/decomp/realmassdecomposer.o imslib/src/ims/utils/distribution.o imslib/src/ims/distributionprobabilityscorer.o imslib/src/ims/characteralphabet.o imslib/src/ims/nitrogenrulefilter.o -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR installing to F:/biocbuild/bbs-3.16-bioc/R/library/00LOCK-Rdisop/00new/Rdisop/libs/x64 ** 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 from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Rdisop)