RDKit
Open-source cheminformatics and machine learning.
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abstract base class that generates atom-environments from a molecule More...
#include <FingerprintGenerator.h>
Public Member Functions | |
virtual std::vector< AtomEnvironment< OutputType > * > | getEnvironments (const ROMol &mol, FingerprintArguments *arguments, const std::vector< std::uint32_t > *fromAtoms=nullptr, const std::vector< std::uint32_t > *ignoreAtoms=nullptr, const int confId=-1, const AdditionalOutput *additionalOutput=nullptr, const std::vector< std::uint32_t > *atomInvariants=nullptr, const std::vector< std::uint32_t > *bondInvariants=nullptr, const bool hashResults=false) const =0 |
generate and return all atom-envorinments from a molecule | |
virtual std::string | infoString () const =0 |
method that returns information about this /c AtomEnvironmentGenerator and its arguments if any | |
virtual OutputType | getResultSize () const =0 |
Returns the size of the fingerprint based on arguments. | |
virtual | ~AtomEnvironmentGenerator () |
Public Attributes | |
const FingerprintArguments * | dp_fingerprintArguments |
abstract base class that generates atom-environments from a molecule
Definition at line 148 of file FingerprintGenerator.h.
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inlinevirtual |
Definition at line 203 of file FingerprintGenerator.h.
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pure virtual |
generate and return all atom-envorinments from a molecule
mol | molecule to generate the atom-environments from |
arguments | fingerprint type specific molecule independent arguments |
fromAtoms | atoms to be used during environment generation, usage of this parameter depends on the implementation of different fingerprint types |
ignoreAtoms | atoms to be ignored during environment generation, usage of this parameter depends on the implementation of different fingerprint types |
confId | which conformation to use during environment generation, needed for some fingerprint types |
additionalOutput | contains pointers for additional outputs of fingerprinting operation, usage depends on implementation of the fingerprint type |
atomInvariants | atom invariants to be used during environment generation, in some cases some of the hashing can be done during environment generation so it is also passed here |
bondInvariants | bond invariants to be used during environment generation, same as atomInvariants it might be needed |
hashResults | if set results will be ready to be modded |
Implemented in RDKit::AtomPair::AtomPairEnvGenerator< OutputType >, RDKit::MorganFingerprint::MorganEnvGenerator< OutputType >, RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator< OutputType >, and RDKit::RDKitFP::RDKitFPEnvGenerator< OutputType >.
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pure virtual |
Returns the size of the fingerprint based on arguments.
Implemented in RDKit::AtomPair::AtomPairEnvGenerator< OutputType >, RDKit::MorganFingerprint::MorganEnvGenerator< OutputType >, RDKit::RDKitFP::RDKitFPEnvGenerator< OutputType >, and RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator< OutputType >.
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pure virtual |
method that returns information about this /c AtomEnvironmentGenerator and its arguments if any
Implemented in RDKit::AtomPair::AtomPairEnvGenerator< OutputType >, RDKit::MorganFingerprint::MorganEnvGenerator< OutputType >, RDKit::RDKitFP::RDKitFPEnvGenerator< OutputType >, and RDKit::TopologicalTorsion::TopologicalTorsionEnvGenerator< OutputType >.
const FingerprintArguments* RDKit::AtomEnvironmentGenerator< OutputType >::dp_fingerprintArguments |
Definition at line 201 of file FingerprintGenerator.h.