- Generated on Fri Jul 19 2024 11:49:23 for bpp-phyl3 by
1.9.1
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bpp-phyl3
3.0.0
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This is the complete list of members for bpp::ExtendedNewick, including all inherited members.
| AbstractIMultiPhyloDAG() | bpp::AbstractIMultiPhyloDAG | inline |
| AbstractIPhyloDAG() | bpp::AbstractIPhyloDAG | inline |
| AbstractOMultiPhyloDAG() | bpp::AbstractOMultiPhyloDAG | inline |
| AbstractOPhyloDAG() | bpp::AbstractOPhyloDAG | inline |
| allowComments_ | bpp::ExtendedNewick | protected |
| dagToParenthesis(const PhyloDAG &dag, bool writeId=false) const | bpp::ExtendedNewick | protected |
| dagToParenthesis(const PhyloDAG &dag) const | bpp::ExtendedNewick | protected |
| ExtendedNewick(bool allowComments=false, bool writeId=false, bool verbose=false) | bpp::ExtendedNewick | inline |
| getDataType() const | bpp::IODAG | inlinevirtual |
| getElement(const std::string &elt) const override | bpp::ExtendedNewick | protectedvirtual |
| getFormatDescription() const override | bpp::ExtendedNewick | virtual |
| getFormatName() const override | bpp::ExtendedNewick | virtual |
| IMultiPhyloDAG() | bpp::IMultiPhyloDAG | inline |
| IODAG() | bpp::IODAG | inline |
| IOFormat() | bpp::IOFormat | |
| IPhyloDAG() | bpp::IPhyloDAG | inline |
| nodeToParenthesis(const PhyloDAG &dag, std::shared_ptr< PhyloNode > node, bool writeId=false) const | bpp::ExtendedNewick | protected |
| OMultiPhyloDAG() | bpp::OMultiPhyloDAG | inline |
| OPhyloDAG() | bpp::OPhyloDAG | inline |
| parenthesisToNode(PhyloDAG &dag, std::shared_ptr< PhyloNode > father, const std::string &description, unsigned int &nodeCounter, unsigned int &branchCounter, map< str::string, shared_ptr< PhyloNode > > &mapEvent, bool withId, bool verbose) const | bpp::ExtendedNewick | private |
| parenthesisToPhyloDAG(const std::string &description, bool withId, bool verbose=false) const | bpp::ExtendedNewick | |
| readPhyloDAG(std::istream &in) const override | bpp::ExtendedNewick | virtual |
| readPhyloDAG(std::istream &in) const override=0 | bpp::ExtendedNewick | |
| readPhyloDAG(const std::string &path) const override | bpp::ExtendedNewick | inline |
| bpp::AbstractIPhyloDAG::readPhyloDAG(const std::string &path) const override | bpp::AbstractIPhyloDAG | inlinevirtual |
| readPhyloDAGs(std::istream &in, std::vector< std::unique_ptr< PhyloDAG >> &dags) const override | bpp::ExtendedNewick | virtual |
| readPhyloDAGs(std::istream &in, std::vector< std::unique_ptr< PhyloDAG >> &dags) const override=0 | bpp::ExtendedNewick | |
| readPhyloDAGs(const std::string &path, std::vector< std::unique_ptr< PhyloDAG >> &dags) const override | bpp::ExtendedNewick | inline |
| bpp::AbstractIMultiPhyloDAG::readPhyloDAGs(const std::string &path, std::vector< std::unique_ptr< PhyloDAG >> &dags) const override | bpp::AbstractIMultiPhyloDAG | inlinevirtual |
| verbose_ | bpp::ExtendedNewick | protected |
| write_(const PhyloDAG &tree, std::ostream &out) const | bpp::ExtendedNewick | protected |
| write_(const std::vector< const PhyloDAG * > &dags, std::ostream &out) const | bpp::ExtendedNewick | protected |
| writeId_ | bpp::ExtendedNewick | protected |
| writePhyloDAG(const PhyloDAG &dag, std::ostream &out) const override | bpp::ExtendedNewick | inlinevirtual |
| writePhyloDAG(const PhyloDAG &dag, std::ostream &out) const=0 | bpp::ExtendedNewick | |
| writePhyloDAG(const PhyloDAG &dag, const std::string &path, bool overwrite) const | bpp::ExtendedNewick | inline |
| bpp::AbstractOPhyloDAG::writePhyloDAG(const PhyloDAG &dag, const std::string &path, bool overwrite) const | bpp::AbstractOPhyloDAG | inlinevirtual |
| writePhyloDAGs(const std::vector< const PhyloDAG * > &dags, std::ostream &out) const override | bpp::ExtendedNewick | inlinevirtual |
| writePhyloDAGs(const std::vector< const PhyloDAG * > &dags, std::ostream &out) const=0 | bpp::ExtendedNewick | |
| writePhyloDAGs(const std::vector< const PhyloDAG * > &dags, const std::string &path, bool overwrite) const | bpp::ExtendedNewick | inline |
| bpp::AbstractOMultiPhyloDAG::writePhyloDAGs(const std::vector< const PhyloDAG * > &dags, const std::string &path, bool overwrite) const | bpp::AbstractOMultiPhyloDAG | inlinevirtual |
| ~AbstractIMultiPhyloDAG() | bpp::AbstractIMultiPhyloDAG | inlinevirtual |
| ~AbstractIPhyloDAG() | bpp::AbstractIPhyloDAG | inlinevirtual |
| ~AbstractOMultiPhyloDAG() | bpp::AbstractOMultiPhyloDAG | inlinevirtual |
| ~AbstractOPhyloDAG() | bpp::AbstractOPhyloDAG | inlinevirtual |
| ~ExtendedNewick() | bpp::ExtendedNewick | inlinevirtual |
| ~IMultiPhyloDAG() | bpp::IMultiPhyloDAG | inlinevirtual |
| ~IODAG() | bpp::IODAG | inlinevirtual |
| ~IOFormat() | bpp::IOFormat | virtual |
| ~IPhyloDAG() | bpp::IPhyloDAG | inlinevirtual |
| ~OMultiPhyloDAG() | bpp::OMultiPhyloDAG | inlinevirtual |
| ~OPhyloDAG() | bpp::OPhyloDAG | inlinevirtual |
1.9.1