SHOGUN  3.2.1
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CWeightedDegreePositionStringKernel类 参考

详细描述

The Weighted Degree Position String kernel (Weighted Degree kernel with shifts).

The WD-shift kernel of order d compares two sequences \({\bf x}\) and \({\bf x'}\) of length L by summing all contributions of k-mer matches of lengths \(k\in\{1,\dots,d\}\), weighted by coefficients \(\beta_k\) allowing for a positional tolerance of up to shift s.

It is formally defined as

\begin{eqnarray*} &&\!\!\!\!\!\!\!k({\bf x}_i,{\bf x}_j)=\sum_{k=1}^d\beta_k\sum_{l=1}^{\!\!\!\!L-k+1\!\!\!\!}\gamma_l\sum_{\begin{array}{c}s=0\\ \!\!\!\!s+l\leq L\!\!\!\!\end{array}}^{S(l)} \delta_s\;\mu_{k,l,s,{{\bf x}_i},{{\bf x}_j}},\\ &&\!\!\!\!\!\!\!\!\!\! {\footnotesize \mu_{k,l,s,{{\bf x}_i},{{\bf x}_j}}\!\!\! =\!\! I({\bf u}_{k,l+s}({\bf x}_i)\! =\!{\bf u}_{k,l}({\bf x}_j))\! +\!I({\bf u}_{k,l}({\bf x}_i)\! =\!{\bf u}_{k,l+s}({\bf x}_j))},\nonumber \end{eqnarray*}

where \(\beta_j\) are the weighting coefficients of the j-mers, \(\gamma_l\) is a weighting over the position in the sequence, \(\delta_s=1/(2(s+1))\) is the weight assigned to shifts (in either direction) of extent s, and S(l) determines the shift range at position l.

在文件 WeightedDegreePositionStringKernel.h48 行定义.

类 CWeightedDegreePositionStringKernel 继承关系图:
Inheritance graph
[图例]

Public 成员函数

 CWeightedDegreePositionStringKernel ()
 
 CWeightedDegreePositionStringKernel (int32_t size, int32_t degree, int32_t max_mismatch=0, int32_t mkl_stepsize=1)
 
 CWeightedDegreePositionStringKernel (int32_t size, SGVector< float64_t > weights, int32_t degree, int32_t max_mismatch, SGVector< int32_t > shifts, int32_t mkl_stepsize=1)
 
 CWeightedDegreePositionStringKernel (CStringFeatures< char > *l, CStringFeatures< char > *r, int32_t degree)
 
virtual ~CWeightedDegreePositionStringKernel ()
 
virtual bool init (CFeatures *l, CFeatures *r)
 
virtual void cleanup ()
 
virtual EKernelType get_kernel_type ()
 
virtual const char * get_name () const
 
virtual bool init_optimization (int32_t p_count, int32_t *IDX, float64_t *alphas)
 
virtual bool init_optimization (int32_t count, int32_t *IDX, float64_t *alphas, int32_t tree_num, int32_t upto_tree=-1)
 
virtual bool delete_optimization ()
 
virtual float64_t compute_optimized (int32_t idx)
 
virtual void compute_batch (int32_t num_vec, int32_t *vec_idx, float64_t *target, int32_t num_suppvec, int32_t *IDX, float64_t *alphas, float64_t factor=1.0)
 
virtual void clear_normal ()
 
virtual void add_to_normal (int32_t idx, float64_t weight)
 
virtual int32_t get_num_subkernels ()
 
void compute_by_subkernel (int32_t idx, float64_t *subkernel_contrib)
 
const float64_tget_subkernel_weights (int32_t &num_weights)
 
virtual void set_subkernel_weights (SGVector< float64_t > w)
 
float64_tcompute_abs_weights (int32_t &len)
 
bool is_tree_initialized ()
 
int32_t get_max_mismatch ()
 
int32_t get_degree ()
 
float64_tget_degree_weights (int32_t &d, int32_t &len)
 
float64_tget_weights (int32_t &num_weights)
 
float64_tget_position_weights (int32_t &len)
 
void set_shifts (SGVector< int32_t > shifts)
 
bool set_weights (SGMatrix< float64_t > new_weights)
 
virtual bool set_wd_weights ()
 
virtual void set_position_weights (SGVector< float64_t > pws)
 
bool set_position_weights_lhs (float64_t *pws, int32_t len, int32_t num)
 
bool set_position_weights_rhs (float64_t *pws, int32_t len, int32_t num)
 
bool init_block_weights ()
 
bool init_block_weights_from_wd ()
 
bool init_block_weights_from_wd_external ()
 
bool init_block_weights_const ()
 
bool init_block_weights_linear ()
 
bool init_block_weights_sqpoly ()
 
bool init_block_weights_cubicpoly ()
 
bool init_block_weights_exp ()
 
bool init_block_weights_log ()
 
bool delete_position_weights ()
 
bool delete_position_weights_lhs ()
 
bool delete_position_weights_rhs ()
 
virtual float64_t compute_by_tree (int32_t idx)
 
virtual void compute_by_tree (int32_t idx, float64_t *LevelContrib)
 
float64_tcompute_scoring (int32_t max_degree, int32_t &num_feat, int32_t &num_sym, float64_t *target, int32_t num_suppvec, int32_t *IDX, float64_t *weights)
 
char * compute_consensus (int32_t &num_feat, int32_t num_suppvec, int32_t *IDX, float64_t *alphas)
 
float64_textract_w (int32_t max_degree, int32_t &num_feat, int32_t &num_sym, float64_t *w_result, int32_t num_suppvec, int32_t *IDX, float64_t *alphas)
 
float64_tcompute_POIM (int32_t max_degree, int32_t &num_feat, int32_t &num_sym, float64_t *poim_result, int32_t num_suppvec, int32_t *IDX, float64_t *alphas, float64_t *distrib)
 
void prepare_POIM2 (SGMatrix< float64_t > distrib)
 
void compute_POIM2 (int32_t max_degree, CSVM *svm)
 
SGVector< float64_tget_POIM2 ()
 
void cleanup_POIM2 ()
 cleanup POIM2 更多...
 
virtual EFeatureClass get_feature_class ()
 
virtual EFeatureType get_feature_type ()
 
float64_t kernel (int32_t idx_a, int32_t idx_b)
 
SGMatrix< float64_tget_kernel_matrix ()
 
template<class T >
SGMatrix< T > get_kernel_matrix ()
 
SGVector< float64_tget_kernel_diagonal (SGVector< float64_t > preallocated=SGVector< float64_t >())
 
virtual SGVector< float64_tget_kernel_col (int32_t j)
 
virtual SGVector< float64_tget_kernel_row (int32_t i)
 
virtual bool set_normalizer (CKernelNormalizer *normalizer)
 
virtual CKernelNormalizerget_normalizer ()
 
virtual bool init_normalizer ()
 
void load (CFile *loader)
 
void save (CFile *writer)
 
CFeaturesget_lhs ()
 
CFeaturesget_rhs ()
 
virtual int32_t get_num_vec_lhs ()
 
virtual int32_t get_num_vec_rhs ()
 
virtual bool has_features ()
 
bool get_lhs_equals_rhs ()
 
virtual void remove_lhs_and_rhs ()
 
virtual void remove_rhs ()
 takes all necessary steps if the rhs is removed from kernel 更多...
 
void set_cache_size (int32_t size)
 
int32_t get_cache_size ()
 
void list_kernel ()
 
bool has_property (EKernelProperty p)
 
EOptimizationType get_optimization_type ()
 
virtual void set_optimization_type (EOptimizationType t)
 
bool get_is_initialized ()
 
bool init_optimization_svm (CSVM *svm)
 
float64_t get_combined_kernel_weight ()
 
void set_combined_kernel_weight (float64_t nw)
 
virtual SGVector< float64_tget_subkernel_weights ()
 
virtual SGMatrix< float64_tget_parameter_gradient (const TParameter *param, index_t index=-1)
 
virtual CSGObjectshallow_copy () const
 
virtual CSGObjectdeep_copy () const
 
virtual bool is_generic (EPrimitiveType *generic) const
 
template<class T >
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
void set_generic ()
 
template<>
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)
 
SGIOget_global_io ()
 
void set_global_parallel (Parallel *parallel)
 
Parallelget_global_parallel ()
 
void set_global_version (Version *version)
 
Versionget_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 void update_parameter_hash ()
 
virtual bool parameter_hash_changed ()
 
virtual bool equals (CSGObject *other, float64_t accuracy=0.0, bool tolerant=false)
 
virtual CSGObjectclone ()
 

静态 Public 成员函数

static void * compute_batch_helper (void *p)
 
static CKernelobtain_from_generic (CSGObject *kernel)
 

Public 属性

SGIOio
 
Parallelparallel
 
Versionversion
 
Parameterm_parameters
 
Parameterm_model_selection_parameters
 
Parameterm_gradient_parameters
 
ParameterMapm_parameter_map
 
uint32_t m_hash
 

Protected 成员函数

void create_empty_tries ()
 
virtual void add_example_to_tree (int32_t idx, float64_t weight)
 
void add_example_to_single_tree (int32_t idx, float64_t weight, int32_t tree_num)
 
virtual float64_t compute (int32_t idx_a, int32_t idx_b)
 
float64_t compute_with_mismatch (char *avec, int32_t alen, char *bvec, int32_t blen)
 
float64_t compute_without_mismatch (char *avec, int32_t alen, char *bvec, int32_t blen)
 
float64_t compute_without_mismatch_matrix (char *avec, int32_t alen, char *bvec, int32_t blen)
 
float64_t compute_without_mismatch_position_weights (char *avec, float64_t *posweights_lhs, int32_t alen, char *bvec, float64_t *posweights_rhs, int32_t blen)
 
virtual void remove_lhs ()
 
virtual void load_serializable_post () throw (ShogunException)
 
void set_property (EKernelProperty p)
 
void unset_property (EKernelProperty p)
 
void set_is_initialized (bool p_init)
 
int32_t compute_row_start (int64_t offs, int32_t n, bool symmetric)
 
virtual void save_serializable_pre () throw (ShogunException)
 
virtual void save_serializable_post () throw (ShogunException)
 
virtual void register_params ()
 
virtual TParametermigrate (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)
 

静态 Protected 成员函数

template<class T >
static void * get_kernel_matrix_helper (void *p)
 

Protected 属性

float64_tweights
 
int32_t weights_degree
 
int32_t weights_length
 
float64_tposition_weights
 
int32_t position_weights_len
 
float64_tposition_weights_lhs
 
int32_t position_weights_lhs_len
 
float64_tposition_weights_rhs
 
int32_t position_weights_rhs_len
 
bool * position_mask
 
float64_tweights_buffer
 
int32_t mkl_stepsize
 
int32_t degree
 
int32_t length
 
int32_t max_mismatch
 
int32_t seq_length
 
int32_t * shift
 
int32_t shift_len
 
int32_t max_shift
 
bool block_computation
 
float64_tblock_weights
 
EWDKernType type
 
int32_t which_degree
 
CTrie< DNATrie > tries
 
CTrie< POIMTrie > poim_tries
 
bool tree_initialized
 
bool use_poim_tries
 
float64_tm_poim_distrib
 
float64_tm_poim
 
int32_t m_poim_num_sym
 
int32_t m_poim_num_feat
 
int32_t m_poim_result_len
 
CAlphabetalphabet
 
int32_t cache_size
 cache_size in MB 更多...
 
KERNELCACHE_ELEMkernel_matrix
 
CFeatureslhs
 feature vectors to occur on left hand side 更多...
 
CFeaturesrhs
 feature vectors to occur on right hand side 更多...
 
bool lhs_equals_rhs
 lhs 更多...
 
int32_t num_lhs
 number of feature vectors on left hand side 更多...
 
int32_t num_rhs
 number of feature vectors on right hand side 更多...
 
float64_t combined_kernel_weight
 
bool optimization_initialized
 
EOptimizationType opt_type
 
uint64_t properties
 
CKernelNormalizernormalizer
 

构造及析构函数说明

default constructor

在文件 WeightedDegreePositionStringKernel.cpp52 行定义.

CWeightedDegreePositionStringKernel ( int32_t  size,
int32_t  degree,
int32_t  max_mismatch = 0,
int32_t  mkl_stepsize = 1 
)

constructor

参数
sizecache size
degreedegree
max_mismatchmaximum mismatch
mkl_stepsizeMKL stepsize

在文件 WeightedDegreePositionStringKernel.cpp59 行定义.

CWeightedDegreePositionStringKernel ( int32_t  size,
SGVector< float64_t weights,
int32_t  degree,
int32_t  max_mismatch,
SGVector< int32_t >  shifts,
int32_t  mkl_stepsize = 1 
)

constructor

参数
sizecache size
weightsweights
degreedegree
max_mismatchmaximum mismatch
shiftsposition shifts
mkl_stepsizeMKL stepsize

在文件 WeightedDegreePositionStringKernel.cpp76 行定义.

CWeightedDegreePositionStringKernel ( CStringFeatures< char > *  l,
CStringFeatures< char > *  r,
int32_t  degree 
)

constructor

参数
lfeatures of left-hand side
rfeatures of right-hand side
degreedegree

在文件 WeightedDegreePositionStringKernel.cpp100 行定义.

在文件 WeightedDegreePositionStringKernel.cpp119 行定义.

成员函数说明

void add_example_to_single_tree ( int32_t  idx,
float64_t  weight,
int32_t  tree_num 
)
protected

add example to single tree

参数
idxindex
weightweight
tree_numwhich tree

在文件 WeightedDegreePositionStringKernel.cpp695 行定义.

void add_example_to_tree ( int32_t  idx,
float64_t  weight 
)
protectedvirtual

add example to tree

参数
idxindex
weightweight

在文件 WeightedDegreePositionStringKernel.cpp644 行定义.

virtual void add_to_normal ( int32_t  idx,
float64_t  weight 
)
virtual

add to normal

参数
idxwhere to add
weightwhat to add

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h210 行定义.

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.

参数
dictdictionary of parameters to be built.

在文件 SGObject.cpp1174 行定义.

void cleanup ( )
virtual

clean up kernel

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.cpp227 行定义.

void cleanup_POIM2 ( )

cleanup POIM2

在文件 WeightedDegreePositionStringKernel.cpp1867 行定义.

virtual void clear_normal ( )
virtual

clear normal subkernel functionality

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h184 行定义.

CSGObject * clone ( )
virtualinherited

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.

返回
an identical copy of the given object, which is disjoint in memory. NULL if the clone fails. Note that the returned object is SG_REF'ed

在文件 SGObject.cpp1291 行定义.

float64_t compute ( int32_t  idx_a,
int32_t  idx_b 
)
protectedvirtual

compute kernel function for features a and b idx_{a,b} denote the index of the feature vectors in the corresponding feature object

参数
idx_aindex a
idx_bindex b
返回
computed kernel function at indices a,b

实现了 CKernel.

在文件 WeightedDegreePositionStringKernel.cpp608 行定义.

float64_t * compute_abs_weights ( int32_t &  len)

compute abs weights

参数
lenlen
返回
computed abs weights

在文件 WeightedDegreePositionStringKernel.cpp831 行定义.

void compute_batch ( int32_t  num_vec,
int32_t *  vec_idx,
float64_t target,
int32_t  num_suppvec,
int32_t *  IDX,
float64_t alphas,
float64_t  factor = 1.0 
)
virtual

compute batch

参数
num_vecnumber of vectors
vec_idxvector index
targettarget
num_suppvecnumber of support vectors
IDXIDX
alphasalphas
factorfactor

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.cpp1230 行定义.

void * compute_batch_helper ( void *  p)
static

helper for compute batch

参数
pthread parameter

在文件 WeightedDegreePositionStringKernel.cpp1172 行定义.

void compute_by_subkernel ( int32_t  idx,
float64_t subkernel_contrib 
)
virtual

compute by subkernel

参数
idxindex
subkernel_contribsubkernel contribution

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h234 行定义.

float64_t compute_by_tree ( int32_t  idx)
virtual

compute by tree

参数
idxindex
返回
computed value

在文件 WeightedDegreePositionStringKernel.cpp749 行定义.

void compute_by_tree ( int32_t  idx,
float64_t LevelContrib 
)
virtual

compute by tree

参数
idxindex
LevelContriblevel contribution

在文件 WeightedDegreePositionStringKernel.cpp788 行定义.

char * compute_consensus ( int32_t &  num_feat,
int32_t  num_suppvec,
int32_t *  IDX,
float64_t alphas 
)

compute consensus string

参数
num_featnumber of features
num_suppvecnumber of support vectors
IDXIDX
alphasalphas
返回
consensus string

在文件 WeightedDegreePositionStringKernel.cpp1499 行定义.

virtual float64_t compute_optimized ( int32_t  idx)
virtual

compute optimized

参数
idxindex to compute
返回
optimized value at given index

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h152 行定义.

float64_t * compute_POIM ( int32_t  max_degree,
int32_t &  num_feat,
int32_t &  num_sym,
float64_t poim_result,
int32_t  num_suppvec,
int32_t *  IDX,
float64_t alphas,
float64_t distrib 
)

compute POIM

参数
max_degreemaximum degree
num_featnumber of features
num_symnumber of symbols
poim_resultpoim
num_suppvecnumber of support vectors
IDXIDX
alphasalphas
distribdistribution
返回
computed POIMs

在文件 WeightedDegreePositionStringKernel.cpp1679 行定义.

void compute_POIM2 ( int32_t  max_degree,
CSVM svm 
)

compute POIM2

参数
max_degreemaximum degree
svmSVM

在文件 WeightedDegreePositionStringKernel.cpp1826 行定义.

int32_t compute_row_start ( int64_t  offs,
int32_t  n,
bool  symmetric 
)
protectedinherited

compute row start offset for parallel kernel matrix computation

参数
offsoffset
nnumber of columns
symmetricwhether matrix is symmetric

在文件 Kernel.h630 行定义.

float64_t * compute_scoring ( int32_t  max_degree,
int32_t &  num_feat,
int32_t &  num_sym,
float64_t target,
int32_t  num_suppvec,
int32_t *  IDX,
float64_t weights 
)

compute positional scoring function, which assigns a weight per position, per symbol in the sequence

参数
max_degreemaximum degree
num_featnumber of features
num_symnumber of symbols
targettarget
num_suppvecnumber of support vectors
IDXIDX
weightsweights
返回
computed scores

在文件 WeightedDegreePositionStringKernel.cpp1343 行定义.

float64_t compute_with_mismatch ( char *  avec,
int32_t  alen,
char *  bvec,
int32_t  blen 
)
protected

compute with mismatch

参数
avecvector a
alenlength of vector a
bvecvector b
blenlength of vector b
返回
computed value

在文件 WeightedDegreePositionStringKernel.cpp318 行定义.

float64_t compute_without_mismatch ( char *  avec,
int32_t  alen,
char *  bvec,
int32_t  blen 
)
protected

compute without mismatch

参数
avecvector a
alenlength of vector a
bvecvector b
blenlength of vector b
返回
computed value

在文件 WeightedDegreePositionStringKernel.cpp398 行定义.

float64_t compute_without_mismatch_matrix ( char *  avec,
int32_t  alen,
char *  bvec,
int32_t  blen 
)
protected

compute without mismatch matrix

参数
avecvector a
alenlength of vector a
bvecvector b
blenlength of vector b
返回
computed value

在文件 WeightedDegreePositionStringKernel.cpp464 行定义.

float64_t compute_without_mismatch_position_weights ( char *  avec,
float64_t posweights_lhs,
int32_t  alen,
char *  bvec,
float64_t posweights_rhs,
int32_t  blen 
)
protected

compute without mismatch position weights

参数
avecvector a
posweights_lhsposition weights left-hand side
alenlength of vector a
bvecvector b
posweights_rhsposition weights right-hand side
blenlength of vector b
返回
computed value

在文件 WeightedDegreePositionStringKernel.cpp528 行定义.

void create_empty_tries ( )
protected

create emtpy tries

在文件 WeightedDegreePositionStringKernel.cpp159 行定义.

virtual CSGObject* deep_copy ( ) const
virtualinherited

A deep copy. All the instance variables will also be copied.

在文件 SGObject.h126 行定义.

bool delete_optimization ( )
virtual

delete optimization

返回
if deleting was successful

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.cpp293 行定义.

bool delete_position_weights ( )

delete position weights

返回
if deleting was successful

在文件 WeightedDegreePositionStringKernel.h473 行定义.

bool delete_position_weights_lhs ( )

delete position weights left-hand side

返回
if deleting was successful

在文件 WeightedDegreePositionStringKernel.h484 行定义.

bool delete_position_weights_rhs ( )

delete position weights right-hand side

返回
if deleting was successful

在文件 WeightedDegreePositionStringKernel.h495 行定义.

bool equals ( CSGObject other,
float64_t  accuracy = 0.0,
bool  tolerant = false 
)
virtualinherited

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.

参数
otherobject to compare with
accuracyaccuracy to use for comparison (optional)
tolerantallows linient check on float equality (within accuracy)
返回
true if all parameters were equal, false if not

在文件 SGObject.cpp1195 行定义.

float64_t * extract_w ( int32_t  max_degree,
int32_t &  num_feat,
int32_t &  num_sym,
float64_t w_result,
int32_t  num_suppvec,
int32_t *  IDX,
float64_t alphas 
)

extract w

参数
max_degreemaximum degree
num_featnumber of features
num_symnumber of symbols
w_resultw
num_suppvecnumber of support vectors
IDXIDX
alphasalphas
返回
w

在文件 WeightedDegreePositionStringKernel.cpp1616 行定义.

int32_t get_cache_size ( )
inherited

return the size of the kernel cache

返回
size of kernel cache

在文件 Kernel.h435 行定义.

float64_t get_combined_kernel_weight ( )
inherited

get combined kernel weight

返回
combined kernel weight

在文件 Kernel.h526 行定义.

int32_t get_degree ( )

get degree

返回
the degree

在文件 WeightedDegreePositionStringKernel.h328 行定义.

float64_t* get_degree_weights ( int32_t &  d,
int32_t &  len 
)

get degree weights

参数
ddegree weights will be stored here
lennumber of degree weights will be stored here

在文件 WeightedDegreePositionStringKernel.h335 行定义.

virtual EFeatureClass get_feature_class ( )
virtualinherited

return feature class the kernel can deal with

返回
feature class STRING

实现了 CKernel.

在文件 StringKernel.h69 行定义.

virtual EFeatureType get_feature_type ( )
virtualinherited

return feature type the kernel can deal with

返回
templated feature type

实现了 CKernel.

SGIO * get_global_io ( )
inherited

get the io object

返回
io object

在文件 SGObject.cpp174 行定义.

Parallel * get_global_parallel ( )
inherited

get the parallel object

返回
parallel object

在文件 SGObject.cpp215 行定义.

Version * get_global_version ( )
inherited

get the version object

返回
version object

在文件 SGObject.cpp228 行定义.

bool get_is_initialized ( )
inherited

check if optimization is initialized

返回
if optimization is initialized

在文件 Kernel.h477 行定义.

virtual SGVector<float64_t> get_kernel_col ( int32_t  j)
virtualinherited

get column j

返回
the jth column of the kernel matrix

在文件 Kernel.h256 行定义.

SGVector<float64_t> get_kernel_diagonal ( SGVector< float64_t preallocated = SGVector<float64_t>())
inherited
返回
Vector with diagonal elements of the kernel matrix. Note that left- and right-handside features must be set and of equal size
参数
preallocatedvector with space for results

在文件 Kernel.h222 行定义.

template SGMatrix< float32_t > get_kernel_matrix< float32_t > ( )
inherited

get kernel matrix

返回
computed kernel matrix (needs to be cleaned up)

在文件 Kernel.h211 行定义.

SGMatrix< T > get_kernel_matrix ( )
inherited

get kernel matrix (templated)

返回
the kernel matrix

在文件 Kernel.cpp573 行定义.

template void * get_kernel_matrix_helper< float32_t > ( void *  p)
staticprotectedinherited

helper for computing the kernel matrix in a parallel way

参数
pthread parameters

在文件 Kernel.cpp522 行定义.

virtual SGVector<float64_t> get_kernel_row ( int32_t  i)
virtualinherited

get row i

返回
the ith row of the kernel matrix

在文件 Kernel.h273 行定义.

virtual EKernelType get_kernel_type ( )
virtual

return what type of kernel we are

返回
kernel type WEIGHTEDDEGREEPOS

实现了 CStringKernel< char >.

在文件 WeightedDegreePositionStringKernel.h105 行定义.

CFeatures* get_lhs ( )
inherited

get left-hand side of features used in kernel

返回
features of left-hand side

在文件 Kernel.h343 行定义.

bool get_lhs_equals_rhs ( )
inherited

test whether features on lhs and rhs are the same

返回
true if features are the same

在文件 Kernel.h382 行定义.

int32_t get_max_mismatch ( )

get maximum mismatch

返回
maximum mismatch

在文件 WeightedDegreePositionStringKernel.h322 行定义.

SGStringList< char > get_modelsel_names ( )
inherited
返回
vector of names of all parameters which are registered for model selection

在文件 SGObject.cpp1066 行定义.

char * get_modsel_param_descr ( const char *  param_name)
inherited

Returns description of a given parameter string, if it exists. SG_ERROR otherwise

参数
param_namename of the parameter
返回
description of the parameter

在文件 SGObject.cpp1090 行定义.

index_t get_modsel_param_index ( const char *  param_name)
inherited

Returns index of model selection parameter with provided index

参数
param_namename of model selection parameter
返回
index of model selection parameter with provided name, -1 if there is no such

在文件 SGObject.cpp1103 行定义.

virtual const char* get_name ( ) const
virtual

return the kernel's name

返回
name WeightedDegreePos

重载 CStringKernel< char > .

在文件 WeightedDegreePositionStringKernel.h111 行定义.

CKernelNormalizer * get_normalizer ( )
virtualinherited

obtain the current kernel normalizer

返回
the kernel normalizer

在文件 Kernel.cpp136 行定义.

virtual int32_t get_num_subkernels ( )
virtual

get number of subkernels

返回
number of subkernels

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h220 行定义.

virtual int32_t get_num_vec_lhs ( )
virtualinherited

get number of vectors of lhs features

返回
number of vectors of left-hand side

CCustomKernel 重载.

在文件 Kernel.h355 行定义.

virtual int32_t get_num_vec_rhs ( )
virtualinherited

get number of vectors of rhs features

返回
number of vectors of right-hand side

CCustomKernel 重载.

在文件 Kernel.h364 行定义.

EOptimizationType get_optimization_type ( )
inherited

get optimization type

返回
optimization type

在文件 Kernel.h465 行定义.

virtual SGMatrix<float64_t> get_parameter_gradient ( const TParameter param,
index_t  index = -1 
)
virtualinherited

return derivative with respect to specified parameter

参数
paramthe parameter
indexthe index of the element if parameter is a vector
返回
gradient with respect to parameter

CCombinedKernel, CProductKernel, CGaussianKernel, CLinearARDKernel , 以及 CGaussianARDKernel 重载.

在文件 Kernel.h574 行定义.

SGVector< float64_t > get_POIM2 ( )

get POIM2

返回
poim

在文件 WeightedDegreePositionStringKernel.cpp1861 行定义.

float64_t* get_position_weights ( int32_t &  len)

get position weights

参数
lennumber of position weights will be stored here
返回
position weights

在文件 WeightedDegreePositionStringKernel.h366 行定义.

CFeatures* get_rhs ( )
inherited

get right-hand side of features used in kernel

返回
features of right-hand side

在文件 Kernel.h349 行定义.

const float64_t* get_subkernel_weights ( int32_t &  num_weights)
virtual

get subkernel weights

参数
num_weightsnumber of weights will be stored here
返回
subkernel weights

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h251 行定义.

SGVector< float64_t > get_subkernel_weights ( )
virtualinherited

get subkernel weights (swig compatible)

返回
subkernel weights

CCombinedKernel 重载.

在文件 Kernel.cpp378 行定义.

float64_t* get_weights ( int32_t &  num_weights)

get weights

参数
num_weightsnumber of weights will be stored here
返回
weights

在文件 WeightedDegreePositionStringKernel.h347 行定义.

virtual bool has_features ( )
virtualinherited

test whether features have been assigned to lhs and rhs

返回
true if features are assigned

CCustomKernel, CCombinedKernel , 以及 CProductKernel 重载.

在文件 Kernel.h373 行定义.

bool has_property ( EKernelProperty  p)
inherited

check if kernel has given property

参数
pkernel property
返回
if kernel has given property

在文件 Kernel.h447 行定义.

bool init ( CFeatures l,
CFeatures r 
)
virtual

initialize kernel

参数
lfeatures of left-hand side
rfeatures of right-hand side
返回
if initializing was successful

重载 CStringKernel< char > .

在文件 WeightedDegreePositionStringKernel.cpp178 行定义.

bool init_block_weights ( )

initialize block weights

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1146 行定义.

bool init_block_weights_const ( )

initialize block weights constant

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1050 行定义.

bool init_block_weights_cubicpoly ( )

initialize block weights cubic polynomial

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1095 行定义.

bool init_block_weights_exp ( )

initialize block weights exponential

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1112 行定义.

bool init_block_weights_from_wd ( )

initialize block weights from weighted degree

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1002 行定义.

bool init_block_weights_from_wd_external ( )

initialize block weights from external weighted degree

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1022 行定义.

bool init_block_weights_linear ( )

initialize block weights linear

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1064 行定义.

bool init_block_weights_log ( )

initialize block weights logarithmic

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1129 行定义.

bool init_block_weights_sqpoly ( )

initialize block weights squared polynomial

返回
if initialization was successful

在文件 WeightedDegreePositionStringKernel.cpp1078 行定义.

bool init_normalizer ( )
virtualinherited

initialize the current kernel normalizer

返回
if init was successful

在文件 Kernel.cpp142 行定义.

virtual bool init_optimization ( int32_t  p_count,
int32_t *  IDX,
float64_t alphas 
)
virtual

initialize optimization

参数
p_countcount
IDXindex
alphasalphas
返回
if initializing was successful

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h120 行定义.

bool init_optimization ( int32_t  count,
int32_t *  IDX,
float64_t alphas,
int32_t  tree_num,
int32_t  upto_tree = -1 
)
virtual

initialize optimization do initialization for tree_num up to upto_tree, use tree_num=-1 to construct all trees

参数
countcount
IDXIDX
alphasalphas
tree_numwhich tree
upto_treeup to this tree
返回
if initializing was successful

在文件 WeightedDegreePositionStringKernel.cpp247 行定义.

bool init_optimization_svm ( CSVM svm)
inherited

initialize optimization

参数
svmsvm model
返回
if initializing was successful

在文件 Kernel.cpp408 行定义.

bool is_generic ( EPrimitiveType *  generic) const
virtualinherited

If the SGSerializable is a class template then TRUE will be returned and GENERIC is set to the type of the generic.

参数
genericset to the type of the generic if returning TRUE
返回
TRUE if a class template.

在文件 SGObject.cpp234 行定义.

bool is_tree_initialized ( )

check if tree is initialized

返回
if tree is initialized

在文件 WeightedDegreePositionStringKernel.h316 行定义.

float64_t kernel ( int32_t  idx_a,
int32_t  idx_b 
)
inherited

get kernel function for lhs feature vector a and rhs feature vector b

参数
idx_aindex of feature vector a
idx_bindex of feature vector b
返回
computed kernel function

在文件 Kernel.h198 行定义.

void list_kernel ( )
inherited

list kernel

在文件 Kernel.cpp210 行定义.

void load ( CFile loader)
inherited

load the kernel matrix

参数
loaderFile object via which to load data

在文件 Kernel.cpp154 行定义.

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)

参数
file_versionparameter version of the file
current_versionversion from which mapping begins (you want to use Version::get_version_parameter() for this in most cases)
filefile to load from
prefixprefix for members
返回
(sorted) array of created TParameter instances with file data

在文件 SGObject.cpp639 行定义.

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

参数
param_infoinformation of parameter
file_versionparameter version of the file, must be <= provided parameter version
filefile to load from
prefixprefix for members
返回
new array with TParameter instances with the attached data

在文件 SGObject.cpp480 行定义.

bool load_serializable ( CSerializableFile file,
const char *  prefix = "",
int32_t  param_version = Version::get_version_parameter() 
)
virtualinherited

Load this object from file. If it will fail (returning FALSE) then this object will contain inconsistent data and should not be used!

参数
filewhere to load from
prefixprefix for members
param_version(optional) a parameter version different to (this is mainly for testing, better do not use)
返回
TRUE if done, otherwise FALSE

在文件 SGObject.cpp311 行定义.

void load_serializable_post ( )
throw (ShogunException
)
protectedvirtual

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.

异常
ShogunExceptionWill be thrown if an error occurres.

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.cpp1878 行定义.

void load_serializable_pre ( )
throw (ShogunException
)
protectedvirtualinherited

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.

异常
ShogunExceptionWill be thrown if an error occurres.

CDynamicArray< T >, CDynamicArray< float64_t >, CDynamicArray< float32_t >, CDynamicArray< int32_t >, CDynamicArray< char >, CDynamicArray< bool > , 以及 CDynamicObjectArray 重载.

在文件 SGObject.cpp990 行定义.

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

参数
param_baseset of TParameter instances that are mapped to the provided target parameter infos
base_versionversion of the parameter base
target_param_infosset of SGParamInfo instances that specify the target parameter base

在文件 SGObject.cpp677 行定义.

TParameter * migrate ( DynArray< TParameter * > *  param_base,
const SGParamInfo target 
)
protectedvirtualinherited

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

参数
param_baseset of TParameter instances to use for migration
targetparameter info for the resulting TParameter
返回
a new TParameter instance with migrated data from the base of the type which is specified by the target parameter

在文件 SGObject.cpp884 行定义.

CKernel * obtain_from_generic ( CSGObject kernel)
staticinherited

Obtains a kernel from a generic SGObject with error checking. Note that if passing NULL, result will be NULL

参数
kernelObject to cast to CKernel, is not SG_REFed
返回
object casted to CKernel, NULL if not possible

在文件 Kernel.cpp394 行定义.

void one_to_one_migration_prepare ( DynArray< TParameter * > *  param_base,
const SGParamInfo target,
TParameter *&  replacement,
TParameter *&  to_migrate,
char *  old_name = NULL 
)
protectedvirtualinherited

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)

参数
param_baseset of TParameter instances to use for migration
targetparameter info for the resulting TParameter
replacement(used as output) here the TParameter instance which is returned by migration is created into
to_migratethe only source that is used for migration
old_namewith this parameter, a name change may be specified

在文件 SGObject.cpp824 行定义.

bool parameter_hash_changed ( )
virtualinherited
返回
whether parameter combination has changed since last update

在文件 SGObject.cpp200 行定义.

void prepare_POIM2 ( SGMatrix< float64_t distrib)

prepare POIM2

参数
distribdistribution

在文件 WeightedDegreePositionStringKernel.cpp1815 行定义.

void print_modsel_params ( )
inherited

prints all parameter registered for model selection and their type

在文件 SGObject.cpp1042 行定义.

void print_serializable ( const char *  prefix = "")
virtualinherited

prints registered parameters out

参数
prefixprefix for members

在文件 SGObject.cpp246 行定义.

void register_params ( )
protectedvirtualinherited

Separate the function of parameter registration This can be the first stage of a general framework for cross-validation or other parameter-based operations

CSpectrumMismatchRBFKernel, CSNPStringKernel, CANOVAKernel, CSubsequenceStringKernel, CGaussianMatchStringKernel, CGaussianShortRealKernel, CTensorProductPairKernel, CDistanceKernel , 以及 CHistogramIntersectionKernel 重载.

在文件 Kernel.cpp449 行定义.

void remove_lhs ( )
protectedvirtual

remove lhs from kernel

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.cpp148 行定义.

void remove_lhs_and_rhs ( )
virtualinherited

remove lhs and rhs from kernel

CCombinedKernel , 以及 CProductKernel 重载.

在文件 Kernel.cpp168 行定义.

void remove_rhs ( )
virtualinherited

takes all necessary steps if the rhs is removed from kernel

remove rhs from kernel

CCombinedKernel, CCommUlongStringKernel , 以及 CProductKernel 重载.

在文件 Kernel.cpp197 行定义.

void save ( CFile writer)
inherited

save kernel matrix

参数
writerFile object via which to save data

在文件 Kernel.cpp160 行定义.

bool save_serializable ( CSerializableFile file,
const char *  prefix = "",
int32_t  param_version = Version::get_version_parameter() 
)
virtualinherited

Save this object to file.

参数
filewhere to save the object; will be closed during returning if PREFIX is an empty string.
prefixprefix for members
param_version(optional) a parameter version different to (this is mainly for testing, better do not use)
返回
TRUE if done, otherwise FALSE

在文件 SGObject.cpp252 行定义.

void save_serializable_post ( )
throw (ShogunException
)
protectedvirtualinherited

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.

异常
ShogunExceptionWill be thrown if an error occurres.

重载 CSGObject .

在文件 Kernel.cpp441 行定义.

void save_serializable_pre ( )
throw (ShogunException
)
protectedvirtualinherited

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.

异常
ShogunExceptionWill be thrown if an error occurres.

重载 CSGObject .

在文件 Kernel.cpp433 行定义.

void set_cache_size ( int32_t  size)
inherited

set the size of the kernel cache

参数
sizeof kernel cache

在文件 Kernel.h425 行定义.

void set_combined_kernel_weight ( float64_t  nw)
inherited

set combined kernel weight

参数
nwnew combined kernel weight

在文件 Kernel.h532 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp41 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp46 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp51 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp56 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp61 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp66 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp71 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp76 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp81 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp86 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp91 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp96 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp101 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp106 行定义.

void set_generic ( )
inherited

在文件 SGObject.cpp111 行定义.

void set_generic ( )
inherited

set generic type to T

void set_global_io ( SGIO io)
inherited

set the io object

参数
ioio object to use

在文件 SGObject.cpp167 行定义.

void set_global_parallel ( Parallel parallel)
inherited

set the parallel object

参数
parallelparallel object to use

在文件 SGObject.cpp180 行定义.

void set_global_version ( Version version)
inherited

set the version object

参数
versionversion object to use

在文件 SGObject.cpp221 行定义.

void set_is_initialized ( bool  p_init)
protectedinherited

set is initialized

参数
p_initif optimization shall be set to initialized

在文件 Kernel.h610 行定义.

bool set_normalizer ( CKernelNormalizer normalizer)
virtualinherited

set the current kernel normalizer

返回
if successful

CWeightedDegreeStringKernel 重载.

在文件 Kernel.cpp124 行定义.

virtual void set_optimization_type ( EOptimizationType  t)
virtualinherited

set optimization type

参数
toptimization type to set

CCombinedKernel 重载.

在文件 Kernel.h471 行定义.

void set_position_weights ( SGVector< float64_t pws)
virtual

set position weights

参数
pwsnew position weights
返回
if setting was successful

在文件 WeightedDegreePositionStringKernel.cpp928 行定义.

bool set_position_weights_lhs ( float64_t pws,
int32_t  len,
int32_t  num 
)

set position weights for left-hand side

参数
pwsnew position weights
lenlen
numnum
返回
if setting was successful

在文件 WeightedDegreePositionStringKernel.cpp945 行定义.

bool set_position_weights_rhs ( float64_t pws,
int32_t  len,
int32_t  num 
)

set position weights for right-hand side

参数
pwsnew position weights
lenlen
numnum
返回
if setting was successful

在文件 WeightedDegreePositionStringKernel.cpp973 行定义.

void set_property ( EKernelProperty  p)
protectedinherited

set property

参数
pkernel property to set

在文件 Kernel.h592 行定义.

void set_shifts ( SGVector< int32_t >  shifts)

set shifts

参数
shiftsnew shifts

在文件 WeightedDegreePositionStringKernel.cpp837 行定义.

virtual void set_subkernel_weights ( SGVector< float64_t w)
virtual

set subkernel weights

参数
wweights

重载 CKernel .

在文件 WeightedDegreePositionStringKernel.h272 行定义.

bool set_wd_weights ( )
virtual

set wd weights

返回
if setting was successful

在文件 WeightedDegreePositionStringKernel.cpp858 行定义.

bool set_weights ( SGMatrix< float64_t new_weights)

set weights

参数
new_weightsnew weights

在文件 WeightedDegreePositionStringKernel.cpp899 行定义.

virtual CSGObject* shallow_copy ( ) const
virtualinherited

A shallow copy. All the SGObject instance variables will be simply assigned and SG_REF-ed.

CGaussianKernel 重载.

在文件 SGObject.h117 行定义.

void unset_generic ( )
inherited

unset generic type

this has to be called in classes specializing a template class

在文件 SGObject.cpp241 行定义.

void unset_property ( EKernelProperty  p)
protectedinherited

unset property

参数
pkernel property to unset

在文件 Kernel.h601 行定义.

void update_parameter_hash ( )
virtualinherited

Updates the hash of current parameter combination

在文件 SGObject.cpp187 行定义.

类成员变量说明

CAlphabet* alphabet
protected

alphabet of features

在文件 WeightedDegreePositionStringKernel.h776 行定义.

bool block_computation
protected

if block computation is used

在文件 WeightedDegreePositionStringKernel.h744 行定义.

float64_t* block_weights
protected

(internal) block weights

在文件 WeightedDegreePositionStringKernel.h747 行定义.

int32_t cache_size
protectedinherited

cache_size in MB

在文件 Kernel.h695 行定义.

float64_t combined_kernel_weight
protectedinherited

combined kernel weight

在文件 Kernel.h717 行定义.

int32_t degree
protected

degree

在文件 WeightedDegreePositionStringKernel.h727 行定义.

SGIO* io
inherited

io

在文件 SGObject.h473 行定义.

KERNELCACHE_ELEM* kernel_matrix
protectedinherited

this COULD store the whole kernel matrix usually not applicable / necessary to compute the whole matrix

在文件 Kernel.h701 行定义.

int32_t length
protected

length

在文件 WeightedDegreePositionStringKernel.h729 行定义.

CFeatures* lhs
protectedinherited

feature vectors to occur on left hand side

在文件 Kernel.h704 行定义.

bool lhs_equals_rhs
protectedinherited

lhs

在文件 Kernel.h709 行定义.

Parameter* m_gradient_parameters
inherited

parameters wrt which we can compute gradients

在文件 SGObject.h488 行定义.

uint32_t m_hash
inherited

Hash of parameter values

在文件 SGObject.h494 行定义.

Parameter* m_model_selection_parameters
inherited

model selection parameters

在文件 SGObject.h485 行定义.

ParameterMap* m_parameter_map
inherited

map for different parameter versions

在文件 SGObject.h491 行定义.

Parameter* m_parameters
inherited

parameters

在文件 SGObject.h482 行定义.

float64_t* m_poim
protected

temporary memory for the interface to the poim functions

在文件 WeightedDegreePositionStringKernel.h766 行定义.

float64_t* m_poim_distrib
protected

temporary memory for the interface to the poim functions

在文件 WeightedDegreePositionStringKernel.h764 行定义.

int32_t m_poim_num_feat
protected

length of string (==num_feat)

在文件 WeightedDegreePositionStringKernel.h771 行定义.

int32_t m_poim_num_sym
protected

number of symbols

在文件 WeightedDegreePositionStringKernel.h769 行定义.

int32_t m_poim_result_len
protected

total size of poim array

在文件 WeightedDegreePositionStringKernel.h773 行定义.

int32_t max_mismatch
protected

maximum mismatch

在文件 WeightedDegreePositionStringKernel.h732 行定义.

int32_t max_shift
protected

maximum shift

在文件 WeightedDegreePositionStringKernel.h741 行定义.

int32_t mkl_stepsize
protected

MKL stepsize

在文件 WeightedDegreePositionStringKernel.h724 行定义.

CKernelNormalizer* normalizer
protectedinherited

normalize the kernel(i,j) function based on this normalization function

在文件 Kernel.h731 行定义.

int32_t num_lhs
protectedinherited

number of feature vectors on left hand side

在文件 Kernel.h712 行定义.

int32_t num_rhs
protectedinherited

number of feature vectors on right hand side

在文件 Kernel.h714 行定义.

EOptimizationType opt_type
protectedinherited

optimization type (currently FASTBUTMEMHUNGRY and SLOWBUTMEMEFFICIENT)

在文件 Kernel.h724 行定义.

bool optimization_initialized
protectedinherited

if optimization is initialized

在文件 Kernel.h720 行定义.

Parallel* parallel
inherited

parallel

在文件 SGObject.h476 行定义.

CTrie<POIMTrie> poim_tries
protected

POIM tries

在文件 WeightedDegreePositionStringKernel.h756 行定义.

bool* position_mask
protected

position mask

在文件 WeightedDegreePositionStringKernel.h719 行定义.

float64_t* position_weights
protected

position weights

在文件 WeightedDegreePositionStringKernel.h706 行定义.

int32_t position_weights_len
protected

position weights len

在文件 WeightedDegreePositionStringKernel.h708 行定义.

float64_t* position_weights_lhs
protected

position weights left-hand side

在文件 WeightedDegreePositionStringKernel.h711 行定义.

int32_t position_weights_lhs_len
protected

position weights len

在文件 WeightedDegreePositionStringKernel.h713 行定义.

float64_t* position_weights_rhs
protected

position weights right-hand side

在文件 WeightedDegreePositionStringKernel.h715 行定义.

int32_t position_weights_rhs_len
protected

position weights len

在文件 WeightedDegreePositionStringKernel.h717 行定义.

uint64_t properties
protectedinherited

kernel properties

在文件 Kernel.h727 行定义.

CFeatures* rhs
protectedinherited

feature vectors to occur on right hand side

在文件 Kernel.h706 行定义.

int32_t seq_length
protected

length of sequence

在文件 WeightedDegreePositionStringKernel.h734 行定义.

int32_t* shift
protected

shifts

在文件 WeightedDegreePositionStringKernel.h737 行定义.

int32_t shift_len
protected

length of shifts

在文件 WeightedDegreePositionStringKernel.h739 行定义.

bool tree_initialized
protected

if tree is initialized

在文件 WeightedDegreePositionStringKernel.h759 行定义.

CTrie<DNATrie> tries
protected

tries

在文件 WeightedDegreePositionStringKernel.h754 行定义.

EWDKernType type
protected

WeightedDegree kernel type

在文件 WeightedDegreePositionStringKernel.h749 行定义.

bool use_poim_tries
protected

makes add_example_to_tree (ONLY!) use POIMTrie

在文件 WeightedDegreePositionStringKernel.h761 行定义.

Version* version
inherited

version

在文件 SGObject.h479 行定义.

float64_t* weights
protected

weights

在文件 WeightedDegreePositionStringKernel.h699 行定义.

float64_t* weights_buffer
protected

weights buffer

在文件 WeightedDegreePositionStringKernel.h722 行定义.

int32_t weights_degree
protected

degree

在文件 WeightedDegreePositionStringKernel.h701 行定义.

int32_t weights_length
protected

length

在文件 WeightedDegreePositionStringKernel.h703 行定义.

int32_t which_degree
protected

which degree

在文件 WeightedDegreePositionStringKernel.h751 行定义.


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SHOGUN 机器学习工具包 - 项目文档