SHOGUN
v3.2.0
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class CTwoStateModel class for the internal two-state representation used in the CHMSVMModel.
Definition at line 24 of file TwoStateModel.h.
Public Member Functions | |
CTwoStateModel () | |
virtual | ~CTwoStateModel () |
virtual SGMatrix< float64_t > | loss_matrix (CSequence *label_seq) |
virtual float64_t | loss (CSequence *label_seq_lhs, CSequence *label_seq_rhs) |
virtual void | reshape_emission_params (SGVector< float64_t > &emission_weights, SGVector< float64_t > w, int32_t num_feats, int32_t num_obs) |
virtual void | reshape_emission_params (CDynamicObjectArray *plif_matrix, SGVector< float64_t > w, int32_t num_feats, int32_t num_plif_nodes) |
virtual void | reshape_transmission_params (SGMatrix< float64_t > &transmission_weights, SGVector< float64_t > w) |
virtual SGVector< int32_t > | labels_to_states (CSequence *label_seq) const |
virtual CSequence * | states_to_labels (SGVector< int32_t > state_seq) const |
virtual void | weights_to_vector (SGVector< float64_t > &psi, SGMatrix< float64_t > transmission_weights, SGVector< float64_t > emission_weights, int32_t num_feats, int32_t num_obs) const |
virtual SGVector< float64_t > | weights_to_vector (SGMatrix< float64_t > transmission_weights, SGVector< float64_t > emission_weights, int32_t num_feats, int32_t num_obs) const |
virtual SGVector< int32_t > | get_monotonicity (int32_t num_free_states, int32_t num_feats) const |
virtual const char * | get_name () const |
int32_t | get_num_states () const |
int32_t | get_num_transmission_params () const |
SGVector< float64_t > | get_start_states () const |
SGVector< float64_t > | get_stop_states () const |
virtual CSGObject * | shallow_copy () const |
virtual CSGObject * | deep_copy () const |
virtual bool | is_generic (EPrimitiveType *generic) const |
template<class T > | |
void | set_generic () |
void | unset_generic () |
virtual void | print_serializable (const char *prefix="") |
virtual bool | save_serializable (CSerializableFile *file, const char *prefix="", int32_t param_version=Version::get_version_parameter()) |
virtual bool | load_serializable (CSerializableFile *file, const char *prefix="", int32_t param_version=Version::get_version_parameter()) |
DynArray< TParameter * > * | load_file_parameters (const SGParamInfo *param_info, int32_t file_version, CSerializableFile *file, const char *prefix="") |
DynArray< TParameter * > * | load_all_file_parameters (int32_t file_version, int32_t current_version, CSerializableFile *file, const char *prefix="") |
void | map_parameters (DynArray< TParameter * > *param_base, int32_t &base_version, DynArray< const SGParamInfo * > *target_param_infos) |
void | set_global_io (SGIO *io) |
SGIO * | get_global_io () |
void | set_global_parallel (Parallel *parallel) |
Parallel * | get_global_parallel () |
void | set_global_version (Version *version) |
Version * | get_global_version () |
SGStringList< char > | get_modelsel_names () |
void | print_modsel_params () |
char * | get_modsel_param_descr (const char *param_name) |
index_t | get_modsel_param_index (const char *param_name) |
void | build_gradient_parameter_dictionary (CMap< TParameter *, CSGObject * > *dict) |
virtual bool | update_parameter_hash () |
virtual bool | equals (CSGObject *other, float64_t accuracy=0.0) |
virtual CSGObject * | clone () |
Static Public Member Functions | |
static CHMSVMModel * | simulate_data (int32_t num_exm, int32_t exm_len, int32_t num_features, int32_t num_noise_features) |
Public Attributes | |
SGIO * | io |
Parallel * | parallel |
Version * | version |
Parameter * | m_parameters |
Parameter * | m_model_selection_parameters |
Parameter * | m_gradient_parameters |
ParameterMap * | m_parameter_map |
uint32_t | m_hash |
Protected Member Functions | |
virtual TParameter * | migrate (DynArray< TParameter * > *param_base, const SGParamInfo *target) |
virtual void | one_to_one_migration_prepare (DynArray< TParameter * > *param_base, const SGParamInfo *target, TParameter *&replacement, TParameter *&to_migrate, char *old_name=NULL) |
virtual void | load_serializable_pre () throw (ShogunException) |
virtual void | load_serializable_post () throw (ShogunException) |
virtual void | save_serializable_pre () throw (ShogunException) |
virtual void | save_serializable_post () throw (ShogunException) |
Protected Attributes | |
int32_t | m_num_states |
int32_t | m_num_transmission_params |
SGMatrix< float64_t > | m_state_loss_mat |
SGVector< float64_t > | m_p |
SGVector< float64_t > | m_q |
CTwoStateModel | ( | ) |
default constructor
Definition at line 18 of file TwoStateModel.cpp.
~CTwoStateModel | ( | ) | [virtual] |
destructor
Definition at line 43 of file TwoStateModel.cpp.
void build_gradient_parameter_dictionary | ( | CMap< TParameter *, CSGObject * > * | dict | ) | [inherited] |
Builds a dictionary of all parameters in SGObject as well of those of SGObjects that are parameters of this object. Dictionary maps parameters to the objects that own them.
dict | dictionary of parameters to be built. |
Definition at line 1156 of file SGObject.cpp.
Creates a clone of the current object. This is done via recursively traversing all parameters, which corresponds to a deep copy. Calling equals on the cloned object always returns true although none of the memory of both objects overlaps.
Definition at line 1273 of file SGObject.cpp.
A deep copy. All the instance variables will also be copied.
Definition at line 126 of file SGObject.h.
Recursively compares the current SGObject to another one. Compares all registered numerical parameters, recursion upon complex (SGObject) parameters. Does not compare pointers!
May be overwritten but please do with care! Should not be necessary in most cases.
other | object to compare with |
accuracy | accuracy to use for comparison (optional) |
Definition at line 1177 of file SGObject.cpp.
SGIO * get_global_io | ( | ) | [inherited] |
Parallel * get_global_parallel | ( | ) | [inherited] |
Version * get_global_version | ( | ) | [inherited] |
SGStringList< char > get_modelsel_names | ( | ) | [inherited] |
Definition at line 1060 of file SGObject.cpp.
char * get_modsel_param_descr | ( | const char * | param_name | ) | [inherited] |
Returns description of a given parameter string, if it exists. SG_ERROR otherwise
param_name | name of the parameter |
Definition at line 1084 of file SGObject.cpp.
index_t get_modsel_param_index | ( | const char * | param_name | ) | [inherited] |
Returns index of model selection parameter with provided index
param_name | name of model selection parameter |
Definition at line 1097 of file SGObject.cpp.
SGVector< int32_t > get_monotonicity | ( | int32_t | num_free_states, |
int32_t | num_feats | ||
) | const [virtual] |
specify monotonicity constraints for feature scoring functions. The elements of the vector returned can take one of three values:
see CStateModel::get_monotonicity
num_free_states | number of states whose parameters are learnt |
num_feats | number of features |
Reimplemented from CStateModel.
Definition at line 234 of file TwoStateModel.cpp.
virtual const char* get_name | ( | ) | const [virtual] |
Reimplemented from CStateModel.
Definition at line 172 of file TwoStateModel.h.
int32_t get_num_states | ( | ) | const [inherited] |
Definition at line 24 of file StateModel.cpp.
int32_t get_num_transmission_params | ( | ) | const [inherited] |
Definition at line 29 of file StateModel.cpp.
SGVector< float64_t > get_start_states | ( | ) | const [inherited] |
return the distribution of start states, i.e. the specification of which states may appear in the start of a state sequence and which may not. The elements of the vector returned can take one out of two values:
The distrubtion of start states m_p must be initialized in the constructor of CStateModel's child classes.
Definition at line 56 of file StateModel.cpp.
SGVector< float64_t > get_stop_states | ( | ) | const [inherited] |
return the distribution of stop states, i.e. the specification of which states may appear in the end of a state sequence and which may not. The elements of the vector returned can take one out of two values:
The distrubtion of stop states m_q must be initialized in the constructor of CStateModel's child classes.
Definition at line 61 of file StateModel.cpp.
bool is_generic | ( | EPrimitiveType * | generic | ) | const [virtual, inherited] |
If the SGSerializable is a class template then TRUE will be returned and GENERIC is set to the type of the generic.
generic | set to the type of the generic if returning TRUE |
Definition at line 228 of file SGObject.cpp.
SGVector< int32_t > labels_to_states | ( | CSequence * | label_seq | ) | const [virtual] |
translates label sequence to state sequence
label_seq | label sequence |
Implements CStateModel.
Definition at line 75 of file TwoStateModel.cpp.
DynArray< TParameter * > * load_all_file_parameters | ( | int32_t | file_version, |
int32_t | current_version, | ||
CSerializableFile * | file, | ||
const char * | prefix = "" |
||
) | [inherited] |
maps all parameters of this instance to the provided file version and loads all parameter data from the file into an array, which is sorted (basically calls load_file_parameter(...) for all parameters and puts all results into a sorted array)
file_version | parameter version of the file |
current_version | version from which mapping begins (you want to use Version::get_version_parameter() for this in most cases) |
file | file to load from |
prefix | prefix for members |
Definition at line 633 of file SGObject.cpp.
DynArray< TParameter * > * load_file_parameters | ( | const SGParamInfo * | param_info, |
int32_t | file_version, | ||
CSerializableFile * | file, | ||
const char * | prefix = "" |
||
) | [inherited] |
loads some specified parameters from a file with a specified version The provided parameter info has a version which is recursively mapped until the file parameter version is reached. Note that there may be possibly multiple parameters in the mapping, therefore, a set of TParameter instances is returned
param_info | information of parameter |
file_version | parameter version of the file, must be <= provided parameter version |
file | file to load from |
prefix | prefix for members |
Definition at line 474 of file SGObject.cpp.
bool load_serializable | ( | CSerializableFile * | file, |
const char * | prefix = "" , |
||
int32_t | param_version = Version::get_version_parameter() |
||
) | [virtual, inherited] |
Load this object from file. If it will fail (returning FALSE) then this object will contain inconsistent data and should not be used!
file | where to load from |
prefix | prefix for members |
param_version | (optional) a parameter version different to (this is mainly for testing, better do not use) |
Definition at line 305 of file SGObject.cpp.
void load_serializable_post | ( | ) | throw (ShogunException) [protected, virtual, inherited] |
Can (optionally) be overridden to post-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::LOAD_SERIALIZABLE_POST is called.
ShogunException | Will be thrown if an error occurres. |
Reimplemented in CKernel, CWeightedDegreePositionStringKernel, CList, CAlphabet, CLinearHMM, CGaussianKernel, CInverseMultiQuadricKernel, CCircularKernel, and CExponentialKernel.
Definition at line 989 of file SGObject.cpp.
void load_serializable_pre | ( | ) | throw (ShogunException) [protected, virtual, inherited] |
Can (optionally) be overridden to pre-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::LOAD_SERIALIZABLE_PRE is called.
ShogunException | Will be thrown if an error occurres. |
Reimplemented in CDynamicArray< T >, CDynamicArray< float64_t >, CDynamicArray< float32_t >, CDynamicArray< int32_t >, CDynamicArray< char >, CDynamicArray< bool >, and CDynamicObjectArray.
Definition at line 984 of file SGObject.cpp.
computes the loss between two sequences of labels using the Hamming loss and the state loss matrix
label_seq_lhs | one label sequence |
label_seq_rhs | other label sequence |
Implements CStateModel.
Definition at line 61 of file TwoStateModel.cpp.
SGMatrix< float64_t > loss_matrix | ( | CSequence * | label_seq | ) | [virtual] |
computes a loss matrix with m_num_states rows and number of columns equal to the length of label_seq. This matrix can be added directly to the emission matrix used in Viterbi decoding during training to form the loss-augmented emission matrix
label_seq | label sequence (normally the true label sequence) |
Implements CStateModel.
Definition at line 47 of file TwoStateModel.cpp.
void map_parameters | ( | DynArray< TParameter * > * | param_base, |
int32_t & | base_version, | ||
DynArray< const SGParamInfo * > * | target_param_infos | ||
) | [inherited] |
Takes a set of TParameter instances (base) with a certain version and a set of target parameter infos and recursively maps the base level wise to the current version using CSGObject::migrate(...). The base is replaced. After this call, the base version containing parameters should be of same version/type as the initial target parameter infos. Note for this to work, the migrate methods and all the internal parameter mappings have to match
param_base | set of TParameter instances that are mapped to the provided target parameter infos |
base_version | version of the parameter base |
target_param_infos | set of SGParamInfo instances that specify the target parameter base |
Definition at line 671 of file SGObject.cpp.
TParameter * migrate | ( | DynArray< TParameter * > * | param_base, |
const SGParamInfo * | target | ||
) | [protected, virtual, inherited] |
creates a new TParameter instance, which contains migrated data from the version that is provided. The provided parameter data base is used for migration, this base is a collection of all parameter data of the previous version. Migration is done FROM the data in param_base TO the provided param info Migration is always one version step. Method has to be implemented in subclasses, if no match is found, base method has to be called.
If there is an element in the param_base which equals the target, a copy of the element is returned. This represents the case when nothing has changed and therefore, the migrate method is not overloaded in a subclass
param_base | set of TParameter instances to use for migration |
target | parameter info for the resulting TParameter |
Definition at line 878 of file SGObject.cpp.
void one_to_one_migration_prepare | ( | DynArray< TParameter * > * | param_base, |
const SGParamInfo * | target, | ||
TParameter *& | replacement, | ||
TParameter *& | to_migrate, | ||
char * | old_name = NULL |
||
) | [protected, virtual, inherited] |
This method prepares everything for a one-to-one parameter migration. One to one here means that only ONE element of the parameter base is needed for the migration (the one with the same name as the target). Data is allocated for the target (in the type as provided in the target SGParamInfo), and a corresponding new TParameter instance is written to replacement. The to_migrate pointer points to the single needed TParameter instance needed for migration. If a name change happened, the old name may be specified by old_name. In addition, the m_delete_data flag of to_migrate is set to true. So if you want to migrate data, the only thing to do after this call is converting the data in the m_parameter fields. If unsure how to use - have a look into an example for this. (base_migration_type_conversion.cpp for example)
param_base | set of TParameter instances to use for migration |
target | parameter info for the resulting TParameter |
replacement | (used as output) here the TParameter instance which is returned by migration is created into |
to_migrate | the only source that is used for migration |
old_name | with this parameter, a name change may be specified |
Definition at line 818 of file SGObject.cpp.
void print_modsel_params | ( | ) | [inherited] |
prints all parameter registered for model selection and their type
Definition at line 1036 of file SGObject.cpp.
void print_serializable | ( | const char * | prefix = "" | ) | [virtual, inherited] |
prints registered parameters out
prefix | prefix for members |
Definition at line 240 of file SGObject.cpp.
void reshape_emission_params | ( | SGVector< float64_t > & | emission_weights, |
SGVector< float64_t > | w, | ||
int32_t | num_feats, | ||
int32_t | num_obs | ||
) | [virtual] |
arranges the emission parameterss of the weight vector into a vector adding zero elements for the states whose parameters are not learnt. This vector is suitable to iterate through when constructing the emission matrix used in Viterbi decoding
emission_weights | emission parameters outputted |
w | the weight vector |
num_feats | number of features |
num_obs | number of emission scores per feature and state |
Implements CStateModel.
Definition at line 120 of file TwoStateModel.cpp.
void reshape_emission_params | ( | CDynamicObjectArray * | plif_matrix, |
SGVector< float64_t > | w, | ||
int32_t | num_feats, | ||
int32_t | num_plif_nodes | ||
) | [virtual] |
arranges the emission parameters of the weight vector into a matrix of PLiFs adding zero elements for the states whose parameters are not learnt.
plif_matrix | matrix of PLiFs outputted |
w | the weight vector |
num_feats | number of features |
num_plif_nodes | number of nodes in the PLiFs |
Implements CStateModel.
Definition at line 147 of file TwoStateModel.cpp.
void reshape_transmission_params | ( | SGMatrix< float64_t > & | transmission_weights, |
SGVector< float64_t > | w | ||
) | [virtual] |
arranges the transmission parameters of the weight vector into a matrix adding zero elements for the states whose parameters are not learnt. This matrix is suitable to iterate during Viterbi decoding
transmission_weights | transmission parameters outputted |
w | the weight vector |
Implements CStateModel.
Definition at line 169 of file TwoStateModel.cpp.
bool save_serializable | ( | CSerializableFile * | file, |
const char * | prefix = "" , |
||
int32_t | param_version = Version::get_version_parameter() |
||
) | [virtual, inherited] |
Save this object to file.
file | where to save the object; will be closed during returning if PREFIX is an empty string. |
prefix | prefix for members |
param_version | (optional) a parameter version different to (this is mainly for testing, better do not use) |
Definition at line 246 of file SGObject.cpp.
void save_serializable_post | ( | ) | throw (ShogunException) [protected, virtual, inherited] |
Can (optionally) be overridden to post-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::SAVE_SERIALIZABLE_POST is called.
ShogunException | Will be thrown if an error occurres. |
Reimplemented in CKernel.
Definition at line 999 of file SGObject.cpp.
void save_serializable_pre | ( | ) | throw (ShogunException) [protected, virtual, inherited] |
Can (optionally) be overridden to pre-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::SAVE_SERIALIZABLE_PRE is called.
ShogunException | Will be thrown if an error occurres. |
Reimplemented in CKernel, CDynamicArray< T >, CDynamicArray< float64_t >, CDynamicArray< float32_t >, CDynamicArray< int32_t >, CDynamicArray< char >, CDynamicArray< bool >, and CDynamicObjectArray.
Definition at line 994 of file SGObject.cpp.
void set_generic< complex128_t > | ( | ) | [inherited] |
set generic type to T
Definition at line 41 of file SGObject.cpp.
void set_global_io | ( | SGIO * | io | ) | [inherited] |
void set_global_parallel | ( | Parallel * | parallel | ) | [inherited] |
set the parallel object
parallel | parallel object to use |
Definition at line 180 of file SGObject.cpp.
void set_global_version | ( | Version * | version | ) | [inherited] |
set the version object
version | version object to use |
Definition at line 215 of file SGObject.cpp.
virtual CSGObject* shallow_copy | ( | ) | const [virtual, inherited] |
A shallow copy. All the SGObject instance variables will be simply assigned and SG_REF-ed.
Reimplemented in CGaussianKernel.
Definition at line 117 of file SGObject.h.
CHMSVMModel * simulate_data | ( | int32_t | num_exm, |
int32_t | exm_len, | ||
int32_t | num_features, | ||
int32_t | num_noise_features | ||
) | [static] |
generates simulated data. The features are generated from the label sequence swapping some of the labels and adding noise
num_exm | number of sample pairs (sequence of features, sequence of labels) to generate |
exm_len | length of each sample sequence |
num_features | features dimension |
num_noise_features | number of features to be pure noise |
Definition at line 249 of file TwoStateModel.cpp.
CSequence * states_to_labels | ( | SGVector< int32_t > | state_seq | ) | const [virtual] |
translates state sequence to label sequence
state_seq | state sequence |
Implements CStateModel.
Definition at line 98 of file TwoStateModel.cpp.
void unset_generic | ( | ) | [inherited] |
unset generic type
this has to be called in classes specializing a template class
Definition at line 235 of file SGObject.cpp.
bool update_parameter_hash | ( | ) | [virtual, inherited] |
Updates the hash of current parameter combination.
Definition at line 187 of file SGObject.cpp.
void weights_to_vector | ( | SGVector< float64_t > & | psi, |
SGMatrix< float64_t > | transmission_weights, | ||
SGVector< float64_t > | emission_weights, | ||
int32_t | num_feats, | ||
int32_t | num_obs | ||
) | const [virtual] |
reshapes the transition and emission weights into a vector (the joint feature vector so it will be possible to take the dot product with the weight vector). Version with the joint feature vector as parameter by reference
psi | output vector |
transmission_weights | counts of the state transitions for a state sequence |
emission_weights | counts of the emission scores for a state sequence and a feature vector |
num_feats | number of features |
num_obs | number of emission scores per feature and state |
Implements CStateModel.
Definition at line 193 of file TwoStateModel.cpp.
SGVector< float64_t > weights_to_vector | ( | SGMatrix< float64_t > | transmission_weights, |
SGVector< float64_t > | emission_weights, | ||
int32_t | num_feats, | ||
int32_t | num_obs | ||
) | const [virtual] |
reshapes the transition and emission weights into a vector (the joint feature vector so it will be possible to take the dot product with the weight vector). Version returning the joint feature vector
transmission_weights | counts of the state transitions for a state sequence |
emission_weights | counts of the emission scores for a state sequence and a feature vector |
num_feats | number of features |
num_obs | number of emission scores per feature and state |
Implements CStateModel.
Definition at line 224 of file TwoStateModel.cpp.
io
Definition at line 473 of file SGObject.h.
Parameter* m_gradient_parameters [inherited] |
parameters wrt which we can compute gradients
Definition at line 488 of file SGObject.h.
uint32_t m_hash [inherited] |
Hash of parameter values
Definition at line 494 of file SGObject.h.
Parameter* m_model_selection_parameters [inherited] |
model selection parameters
Definition at line 485 of file SGObject.h.
int32_t m_num_states [protected, inherited] |
the number of states
Definition at line 217 of file StateModel.h.
int32_t m_num_transmission_params [protected, inherited] |
the number of transmission parameters
Definition at line 220 of file StateModel.h.
the distribution of start states
Definition at line 226 of file StateModel.h.
ParameterMap* m_parameter_map [inherited] |
map for different parameter versions
Definition at line 491 of file SGObject.h.
Parameter* m_parameters [inherited] |
parameters
Definition at line 482 of file SGObject.h.
the distribution of stop states
Definition at line 229 of file StateModel.h.
SGMatrix< float64_t > m_state_loss_mat [protected, inherited] |
state loss matrix, loss for every pair of states
Definition at line 223 of file StateModel.h.
parallel
Definition at line 476 of file SGObject.h.
version
Definition at line 479 of file SGObject.h.