* installing *source* package ‘bayestransmission’ ... ** this is package ‘bayestransmission’ version ‘0.1.0’ ** package ‘bayestransmission’ successfully unpacked and MD5 sums checked ** using staged installation ** libs specified C++17 using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ using C++17 make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/bayestransmission/src' g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c CodeToEvent.cpp -o CodeToEvent.o In file included from infect/../util/util.h:15, from infect/infect.h:16, from CodeToEvent.cpp:1: infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from infect/infect.h:29: infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_AbxCoding.cpp -o infect/infect_AbxCoding.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_AbxCoding.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_AbxLocationState.cpp -o infect/infect_AbxLocationState.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_AbxLocationState.cpp:2: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_AbxPatientState.cpp -o infect/infect_AbxPatientState.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_AbxPatientState.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_CountLocationState.cpp -o infect/infect_CountLocationState.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_CountLocationState.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_Episode.cpp -o infect/infect_Episode.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_Episode.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_EpisodeHistory.cpp -o infect/infect_EpisodeHistory.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_EpisodeHistory.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_Event.cpp -o infect/infect_Event.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_Event.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_Facility.cpp -o infect/infect_Facility.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_Facility.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_HistoryLink.cpp -o infect/infect_HistoryLink.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_HistoryLink.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_LocationState.cpp -o infect/infect_LocationState.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_LocationState.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_Model.cpp -o infect/infect_Model.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_Model.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_Patient.cpp -o infect/infect_Patient.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_Patient.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_PatientState.cpp -o infect/infect_PatientState.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_PatientState.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_RawEvent.cpp -o infect/infect_RawEvent.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_RawEvent.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_Sampler.cpp -o infect/infect_Sampler.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_Sampler.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_SetLocationState.cpp -o infect/infect_SetLocationState.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_SetLocationState.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_State.cpp -o infect/infect_State.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_State.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_System.cpp -o infect/infect_System.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_System.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_SystemEpisodeHistory.cpp -o infect/infect_SystemEpisodeHistory.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_SystemEpisodeHistory.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_SystemHistory.cpp -o infect/infect_SystemHistory.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_SystemHistory.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c infect/infect_UnitEpisodeHistory.cpp -o infect/infect_UnitEpisodeHistory.o In file included from ./infect/../util/util.h:15, from ./infect/infect.h:16, from infect/infect_UnitEpisodeHistory.cpp:1: ./infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./infect/infect.h:29: ./infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LinearAbxICP2.cpp -o lognormal/lognormal_LinearAbxICP2.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LinearAbxICP2.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LinearAbxICP.cpp -o lognormal/lognormal_LinearAbxICP.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LinearAbxICP.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LinearAbxModel2.cpp -o lognormal/lognormal_LinearAbxModel2.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LinearAbxModel2.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LinearAbxModel.cpp -o lognormal/lognormal_LinearAbxModel.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LinearAbxModel.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LogNormalAbxICP.cpp -o lognormal/lognormal_LogNormalAbxICP.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LogNormalAbxICP.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LogNormalICP.cpp -o lognormal/lognormal_LogNormalICP.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LogNormalICP.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LogNormalMassAct.cpp -o lognormal/lognormal_LogNormalMassAct.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LogNormalMassAct.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_LogNormalModel.cpp -o lognormal/lognormal_LogNormalModel.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_LogNormalModel.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_MixedICP.cpp -o lognormal/lognormal_MixedICP.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_MixedICP.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c lognormal/lognormal_MultiUnitAbxICP.cpp -o lognormal/lognormal_MultiUnitAbxICP.o In file included from ./lognormal/../util/util.h:15, from ./lognormal/lognormal.h:16, from lognormal/lognormal_MultiUnitAbxICP.cpp:1: ./lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./lognormal/../infect/infect.h:29, from ./lognormal/lognormal.h:17: ./lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./lognormal/../modeling/modeling.h:20, from ./lognormal/lognormal.h:18: ./lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./lognormal/../modeling/modeling.h:21: ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./lognormal/../modeling/modeling.h:23: ./lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Markov.cpp -o Markov.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/modeling_Parameters.cpp -o modeling/modeling_Parameters.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/modeling_Parameters.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/modeling_TestParams.cpp -o modeling/modeling_TestParams.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/modeling_TestParams.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_AbxParams.cpp -o modeling/models_AbxParams.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_AbxParams.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_ConstrainedSimulator.cpp -o modeling/models_ConstrainedSimulator.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_ConstrainedSimulator.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_DummyModel.cpp -o modeling/models_DummyModel.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_DummyModel.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_ForwardSimulator.cpp -o modeling/models_ForwardSimulator.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_ForwardSimulator.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_InsituParams.cpp -o modeling/models_InsituParams.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_InsituParams.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_MassActionICP.cpp -o modeling/models_MassActionICP.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_MassActionICP.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_MassActionModel.cpp -o modeling/models_MassActionModel.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_MassActionModel.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_Options.cpp -o modeling/models_Options.o In file included from ./modeling/../infect/../util/util.h:15, from ./modeling/../infect/infect.h:16, from ./modeling/Options.h:4, from modeling/models_Options.cpp:1: ./modeling/../infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_OutColParams.cpp -o modeling/models_OutColParams.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_OutColParams.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_RandomTestParams.cpp -o modeling/models_RandomTestParams.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_RandomTestParams.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_TestParamsAbx.cpp -o modeling/models_TestParamsAbx.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_TestParamsAbx.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c modeling/models_UnitLinkedModel.cpp -o modeling/models_UnitLinkedModel.o In file included from ./modeling/../util/util.h:15, from ./modeling/modeling.h:15, from modeling/models_UnitLinkedModel.cpp:1: ./modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from ./modeling/../infect/infect.h:29, from ./modeling/modeling.h:16: ./modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from ./modeling/modeling.h:20: ./modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from ./modeling/modeling.h:21: ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ ./modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ ./modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ ./modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ ./modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from ./modeling/modeling.h:23: ./modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Module.cpp -o Module.o In file included from infect/../util/util.h:15, from infect/infect.h:16, from Module.cpp:1: infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from infect/infect.h:29: infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from lognormal/../modeling/modeling.h:20, from lognormal/lognormal.h:18, from Module.cpp:4: lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from lognormal/../modeling/modeling.h:21: lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from lognormal/../modeling/modeling.h:23: lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Module-Infect.cpp -o Module-Infect.o In file included from infect/../util/util.h:15, from infect/infect.h:16, from Module-Infect.cpp:1: infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from infect/infect.h:29: infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from modeling/modeling.h:20, from wrap.h:9, from Module-Infect.cpp:4: modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from modeling/modeling.h:21: modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:23: modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Module-Infect-System.cpp -o Module-Infect-System.o In file included from infect/../util/util.h:15, from infect/infect.h:16, from Module-Infect-System.cpp:1: infect/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from infect/infect.h:29: infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from modeling/modeling.h:20, from wrap.h:9, from Module-Infect-System.cpp:4: modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from modeling/modeling.h:21: modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:23: modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Module-lognormal.cpp -o Module-lognormal.o In file included from lognormal/../util/util.h:15, from lognormal/lognormal.h:16, from Module-lognormal.cpp:2: lognormal/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from lognormal/../infect/infect.h:29, from lognormal/lognormal.h:17: lognormal/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from lognormal/../modeling/modeling.h:20, from lognormal/lognormal.h:18: lognormal/../modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from lognormal/../modeling/modeling.h:21: lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ lognormal/../modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ lognormal/../modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ lognormal/../modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ lognormal/../modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from lognormal/../modeling/modeling.h:23: lognormal/../modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Module-models.cpp -o Module-models.o In file included from modeling/../util/util.h:15, from modeling/modeling.h:15, from Module-models.cpp:2: modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from modeling/../infect/infect.h:29, from modeling/modeling.h:16: modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from modeling/modeling.h:20: modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:21: modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:23: modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Module-utils.cpp -o Module-utils.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c Random.cpp -o Random.o In file included from modeling/../util/util.h:15, from modeling/modeling.h:15, from Module-utils.cpp:2: modeling/../util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from modeling/../infect/infect.h:29, from modeling/modeling.h:16: modeling/../infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from modeling/modeling.h:20: modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from modeling/modeling.h:21: modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:23: modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c RRandom.cpp -o RRandom.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c runMCMC.cpp -o runMCMC.o In file included from util/util.h:15, from runMCMC.cpp:5: util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from infect/infect.h:29, from runMCMC.cpp:6: infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from modeling/modeling.h:20, from runMCMC.cpp:7: modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ In file included from modeling/modeling.h:21: modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:23: modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c util/util.cc -o util/util.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c util/util_Integer.cpp -o util/util_Integer.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c util/util_List.cpp -o util/util_List.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c util/util_Object.cpp -o util/util_Object.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c util/util_Vector.cpp -o util/util_Vector.o g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I. -I./infect -I./lognormal -I./modeling -I./util -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c wrap.cpp -o wrap.o In file included from util/util.h:15, from wrap.h:7, from wrap.cpp:1: util/Object.h:25:21: warning: ‘virtual int util::Object::compare(util::Object*)’ was hidden [-Woverloaded-virtual=] 25 | virtual int compare(Object *y); | ^~~~~~~ In file included from infect/infect.h:29, from wrap.h:8: infect/RawEvent.h:23:13: note: by ‘int infect::RawEvent::compare(const util::Object*) const’ 23 | int compare (Object const * const e) const; | ^~~~~~~ In file included from modeling/modeling.h:20, from wrap.h:9: modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:21: modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:54:22: warning: ‘virtual void models::TestParams::set(int, double, int, double, double)’ was hidden [-Woverloaded-virtual=] 54 | virtual void set(int i, double value, int update, double prival, double prin); | ^~~ modeling/TestParamsAbx.h:27:22: note: by ‘virtual void models::TestParamsAbx::set(int, int, double)’ 27 | virtual void set(int i, int j, double value) | ^~~ modeling/TestParams.h:45:24: warning: ‘virtual double models::TestParams::logProb(infect::HistoryLink*)’ was hidden [-Woverloaded-virtual=] 45 | virtual double logProb(infect::HistoryLink *h) override; | ^~~~~~~ modeling/TestParamsAbx.h:49:24: note: by ‘virtual double models::TestParamsAbx::logProb(infect::HistoryLink*) const’ 49 | virtual double logProb(infect::HistoryLink *const h) const; | ^~~~~~~ modeling/TestParams.h:26:22: warning: ‘virtual void models::TestParams::set(int, double)’ was hidden [-Woverloaded-virtual=] 26 | virtual void set(int i, double value) | ^~~ In file included from modeling/modeling.h:23: modeling/RandomTestParams.h:56:22: note: by ‘virtual void models::RandomTestParams::set(int, double, int, double, double)’ 56 | virtual void set(int i, double value, int update, double prival, double prin) override; | ^~~ g++ -std=gnu++17 -shared -L/usr/local/lib64 -o bayestransmission.so CodeToEvent.o infect/infect_AbxCoding.o infect/infect_AbxLocationState.o infect/infect_AbxPatientState.o infect/infect_CountLocationState.o infect/infect_Episode.o infect/infect_EpisodeHistory.o infect/infect_Event.o infect/infect_Facility.o infect/infect_HistoryLink.o infect/infect_LocationState.o infect/infect_Model.o infect/infect_Patient.o infect/infect_PatientState.o infect/infect_RawEvent.o infect/infect_Sampler.o infect/infect_SetLocationState.o infect/infect_State.o infect/infect_System.o infect/infect_SystemEpisodeHistory.o infect/infect_SystemHistory.o infect/infect_UnitEpisodeHistory.o lognormal/lognormal_LinearAbxICP2.o lognormal/lognormal_LinearAbxICP.o lognormal/lognormal_LinearAbxModel2.o lognormal/lognormal_LinearAbxModel.o lognormal/lognormal_LogNormalAbxICP.o lognormal/lognormal_LogNormalICP.o lognormal/lognormal_LogNormalMassAct.o lognormal/lognormal_LogNormalModel.o lognormal/lognormal_MixedICP.o lognormal/lognormal_MultiUnitAbxICP.o Markov.o modeling/modeling_Parameters.o modeling/modeling_TestParams.o modeling/models_AbxParams.o modeling/models_ConstrainedSimulator.o modeling/models_DummyModel.o modeling/models_ForwardSimulator.o modeling/models_InsituParams.o modeling/models_MassActionICP.o modeling/models_MassActionModel.o modeling/models_Options.o modeling/models_OutColParams.o modeling/models_RandomTestParams.o modeling/models_TestParamsAbx.o modeling/models_UnitLinkedModel.o Module.o Module-Infect.o Module-Infect-System.o Module-lognormal.o Module-models.o Module-utils.o Random.o RcppExports.o RRandom.o runMCMC.o util/util.o util/util_Integer.o util/util_List.o util/util_Object.o util/util_Vector.o wrap.o -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath -lstdc++ make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/bayestransmission/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/bayestransmission/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/bayestransmission/src' installing to /data/gannet/ripley/R/packages/tests-devel/bayestransmission.Rcheck/00LOCK-bayestransmission/00new/bayestransmission/libs ** R ** data *** moving datasets to lazyload DB ** 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 ** 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 (bayestransmission)