/usr/include/Bpp/Phyl/Model/ is in libbpp-phyl-dev 2.0.3-1.
This file is owned by root:root, with mode 0o755.
..
/usr/include/Bpp/Phyl/Model/AbstractBiblioMixedSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractBiblioSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractCodonDistanceSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractCodonFrequenciesSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractCodonPhaseFrequenciesSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractCodonSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractMixedSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/AbstractWordSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/BinarySubstitutionModel.h
/usr/include/Bpp/Phyl/Model/CodonDistanceFrequenciesSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/CodonDistancePhaseFrequenciesSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/CodonDistanceSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/CodonRateFrequenciesSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/CodonRateSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/CodonSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/DSO78.h
/usr/include/Bpp/Phyl/Model/F84.h
/usr/include/Bpp/Phyl/Model/FrequenciesSet.h
/usr/include/Bpp/Phyl/Model/G2001.h
/usr/include/Bpp/Phyl/Model/GTR.h
/usr/include/Bpp/Phyl/Model/GY94.h
/usr/include/Bpp/Phyl/Model/HKY85.h
/usr/include/Bpp/Phyl/Model/JCnuc.h
/usr/include/Bpp/Phyl/Model/JCprot.h
/usr/include/Bpp/Phyl/Model/JTT92.h
/usr/include/Bpp/Phyl/Model/K80.h
/usr/include/Bpp/Phyl/Model/L95.h
/usr/include/Bpp/Phyl/Model/LG08.h
/usr/include/Bpp/Phyl/Model/LLG08_EHO.h
/usr/include/Bpp/Phyl/Model/LLG08_EX2.h
/usr/include/Bpp/Phyl/Model/LLG08_EX3.h
/usr/include/Bpp/Phyl/Model/LLG08_UL2.h
/usr/include/Bpp/Phyl/Model/LLG08_UL3.h
/usr/include/Bpp/Phyl/Model/MG94.h
/usr/include/Bpp/Phyl/Model/MarkovModulatedSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/MixedSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/MixedSubstitutionModelSet.h
/usr/include/Bpp/Phyl/Model/MixtureOfASubstitutionModel.h
/usr/include/Bpp/Phyl/Model/MixtureOfSubstitutionModels.h
/usr/include/Bpp/Phyl/Model/NucleotideSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/ProteinSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/RE08.h
/usr/include/Bpp/Phyl/Model/RN95.h
/usr/include/Bpp/Phyl/Model/RN95s.h
/usr/include/Bpp/Phyl/Model/RateDistributionFactory.h
/usr/include/Bpp/Phyl/Model/SSR.h
/usr/include/Bpp/Phyl/Model/SubstitutionModel.h
/usr/include/Bpp/Phyl/Model/SubstitutionModelFactory.h
/usr/include/Bpp/Phyl/Model/SubstitutionModelSet.h
/usr/include/Bpp/Phyl/Model/SubstitutionModelSetTools.h
/usr/include/Bpp/Phyl/Model/T92.h
/usr/include/Bpp/Phyl/Model/TN93.h
/usr/include/Bpp/Phyl/Model/TS98.h
/usr/include/Bpp/Phyl/Model/TripletSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/UserProteinSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/WAG01.h
/usr/include/Bpp/Phyl/Model/WordSubstitutionModel.h
/usr/include/Bpp/Phyl/Model/YN98.h
/usr/include/Bpp/Phyl/Model/YNGKP_M1.h
/usr/include/Bpp/Phyl/Model/YNGKP_M2.h
/usr/include/Bpp/Phyl/Model/YNGKP_M3.h
/usr/include/Bpp/Phyl/Model/YNGKP_M7.h
/usr/include/Bpp/Phyl/Model/YNGKP_M8.h
/usr/include/Bpp/Phyl/Model/YpR.h