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CStringFileFeatures< ST > Member List

This is the complete list of members for CStringFileFeatures< ST >, including all inherited members.

add_preprocessor(CPreprocessor *p)CFeaturesvirtual
add_subset(SGVector< index_t > subset)CFeaturesvirtual
add_subset_in_place(SGVector< index_t > subset)CFeaturesvirtual
alphabetCStringFeatures< ST >protected
append_features(CStringFeatures< ST > *sf)CStringFeatures< ST >
append_features(SGString< ST > *p_features, int32_t p_num_vectors, int32_t p_max_string_length)CStringFeatures< ST >
apply_preprocessor(bool force_preprocessing=false)CStringFeatures< ST >virtual
build_gradient_parameter_dictionary(CMap< TParameter *, CSGObject * > *dict)CSGObject
CFeatures(int32_t size=0)CFeatures
CFeatures(const CFeatures &orig)CFeatures
CFeatures(CFile *loader)CFeatures
check_feature_compatibility(CFeatures *f) const CFeatures
clean_preprocessors()CFeatures
cleanup()CStringFileFeatures< ST >protectedvirtual
cleanup_feature_vector(int32_t num)CStringFileFeatures< ST >protectedvirtual
cleanup_feature_vectors(int32_t start, int32_t stop)CStringFeatures< ST >virtual
clone()CSGObjectvirtual
compute_feature_vector(int32_t num, int32_t &len)CStringFeatures< ST >protectedvirtual
compute_symbol_mask_table(int64_t max_val)CStringFeatures< ST >
compute_symbol_mask_table(int64_t max_val)CStringFeatures< ST >
compute_symbol_mask_table(int64_t max_val)CStringFeatures< ST >
compute_symbol_mask_table(int64_t max_val)CStringFeatures< ST >
copy_dimension_subset(SGVector< index_t > dims)CFeaturesvirtual
copy_features(int32_t &num_str, int32_t &max_str_len)CStringFeatures< ST >virtual
copy_subset(SGVector< index_t > indices)CStringFeatures< ST >virtual
create_merged_copy(CList *others)CFeaturesvirtual
create_merged_copy(CFeatures *other)CFeaturesvirtual
create_random(float64_t *hist, int32_t rows, int32_t cols, int32_t num_vec)CStringFeatures< ST >virtual
CSGObject()CSGObject
CSGObject(const CSGObject &orig)CSGObject
CStringFeatures()CStringFeatures< ST >
CStringFeatures(EAlphabet alpha)CStringFeatures< ST >
CStringFeatures(SGStringList< ST > string_list, EAlphabet alpha)CStringFeatures< ST >
CStringFeatures(SGStringList< ST > string_list, CAlphabet *alpha)CStringFeatures< ST >
CStringFeatures(CAlphabet *alpha)CStringFeatures< ST >
CStringFeatures(const CStringFeatures &orig)CStringFeatures< ST >
CStringFeatures(CFile *loader, EAlphabet alpha=DNA)CStringFeatures< ST >
CStringFileFeatures()CStringFileFeatures< ST >
CStringFileFeatures(const char *fname, EAlphabet alpha)CStringFileFeatures< ST >
deep_copy() const CSGObjectvirtual
del_preprocessor(int32_t num)CFeaturesvirtual
determine_maximum_string_length()CStringFeatures< ST >
disable_on_the_fly_preprocessing()CStringFeatures< ST >
duplicate() const CStringFeatures< ST >virtual
embed_features(int32_t p_order)CStringFeatures< ST >
embed_features(int32_t p_order)CStringFeatures< ST >
embed_features(int32_t p_order)CStringFeatures< ST >
embed_features(int32_t p_order)CStringFeatures< ST >
embed_word(ST *seq, int32_t len)CStringFeatures< ST >
embed_word(float32_t *seq, int32_t len)CStringFeatures< ST >
embed_word(float64_t *seq, int32_t len)CStringFeatures< ST >
embed_word(floatmax_t *seq, int32_t len)CStringFeatures< ST >
enable_on_the_fly_preprocessing()CStringFeatures< ST >
equals(CSGObject *other, float64_t accuracy=0.0, bool tolerant=false)CSGObjectvirtual
feature_cacheCStringFeatures< ST >protected
featuresCStringFeatures< ST >protected
fetch_meta_info_from_file(int32_t granularity=1048576)CStringFileFeatures< ST >protected
fileCStringFileFeatures< ST >protected
free_feature_vector(ST *feat_vec, int32_t num, bool dofree)CStringFeatures< ST >
free_feature_vector(SGVector< ST > feat_vec, int32_t num)CStringFeatures< ST >
get_alphabet()CStringFeatures< ST >
get_cache_size() const CFeatures
get_feature(int32_t vec_num, int32_t feat_num)CStringFeatures< ST >virtual
get_feature_class() const CStringFeatures< ST >virtual
get_feature_type() const CStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_type() constCStringFeatures< ST >virtual
get_feature_vector(int32_t num)CStringFeatures< ST >
get_feature_vector(int32_t num, int32_t &len, bool &dofree)CStringFeatures< ST >
get_features()CStringFeatures< ST >
get_features(int32_t &num_str, int32_t &max_str_len)CStringFeatures< ST >virtual
get_features(SGString< ST > **dst, int32_t *num_str)CStringFeatures< ST >virtual
get_global_io()CSGObject
get_global_parallel()CSGObject
get_global_version()CSGObject
get_histogram(float64_t **hist, int32_t *rows, int32_t *cols, bool normalize=true)CStringFeatures< ST >virtual
get_line(uint64_t &len, uint64_t &offs, int32_t &line_nr, uint64_t file_length)CStringFileFeatures< ST >protected
get_masked_symbols(ST symbol, uint8_t mask)CStringFeatures< ST >
get_masked_symbols(bool symbol, uint8_t mask)CStringFeatures< ST >
get_masked_symbols(float32_t symbol, uint8_t mask)CStringFeatures< ST >
get_masked_symbols(float64_t symbol, uint8_t mask)CStringFeatures< ST >
get_masked_symbols(floatmax_t symbol, uint8_t mask)CStringFeatures< ST >
get_max_num_symbols()CStringFeatures< ST >
get_max_vector_length()CStringFeatures< ST >virtual
get_modelsel_names()CSGObject
get_modsel_param_descr(const char *param_name)CSGObject
get_modsel_param_index(const char *param_name)CSGObject
get_name() const CStringFileFeatures< ST >virtual
get_num_preprocessed() const CFeatures
get_num_preprocessors() const CFeatures
get_num_symbols()CStringFeatures< ST >
get_num_vectors() const CStringFeatures< ST >virtual
get_order()CStringFeatures< ST >
get_original_num_symbols()CStringFeatures< ST >
get_preprocessor(int32_t num) const CFeatures
get_subset_stack()CFeaturesvirtual
get_transposed()CStringFeatures< ST >
get_transposed(int32_t &num_feat, int32_t &num_vec)CStringFeatures< ST >
get_vector_length(int32_t vec_num)CStringFeatures< ST >virtual
get_zero_terminated_string_copy(SGString< ST > str)CStringFeatures< ST >static
has_property(EFeatureProperty p) const CFeatures
have_same_length(int32_t len=-1)CStringFeatures< ST >
ioCSGObject
is_generic(EPrimitiveType *generic) const CSGObjectvirtual
is_preprocessed(int32_t num) const CFeatures
length_of_single_stringCStringFeatures< ST >protected
list_feature_obj() const CFeatures
list_preprocessors()CFeatures
load(CFile *loader)CStringFeatures< ST >virtual
load_all_file_parameters(int32_t file_version, int32_t current_version, CSerializableFile *file, const char *prefix="")CSGObject
load_ascii_file(char *fname, bool remap_to_bin=true, EAlphabet ascii_alphabet=DNA, EAlphabet binary_alphabet=RAWDNA)CStringFeatures< ST >
load_compressed(char *src, bool decompress)CStringFeatures< ST >virtual
load_fasta_file(const char *fname, bool ignore_invalid=false)CStringFeatures< ST >
load_fastq_file(const char *fname, bool ignore_invalid=false, bool bitremap_in_single_string=false)CStringFeatures< ST >
load_file_parameters(const SGParamInfo *param_info, int32_t file_version, CSerializableFile *file, const char *prefix="")CSGObject
load_from_directory(char *dirname)CStringFeatures< ST >
load_serializable(CSerializableFile *file, const char *prefix="", int32_t param_version=Version::get_version_parameter())CSGObjectvirtual
load_serializable_post()CSGObjectprotectedvirtual
load_serializable_pre()CSGObjectprotectedvirtual
m_gradient_parametersCSGObject
m_hashCSGObject
m_model_selection_parametersCSGObject
m_parameter_mapCSGObject
m_parametersCSGObject
m_subset_stackCFeaturesprotected
map_parameters(DynArray< TParameter * > *param_base, int32_t &base_version, DynArray< const SGParamInfo * > *target_param_infos)CSGObject
max_string_lengthCStringFeatures< ST >protected
migrate(DynArray< TParameter * > *param_base, const SGParamInfo *target)CSGObjectprotectedvirtual
num_symbolsCStringFeatures< ST >protected
num_vectorsCStringFeatures< ST >protected
obtain_by_position_list(int32_t window_size, CDynamicArray< int32_t > *positions, int32_t skip=0)CStringFeatures< ST >
obtain_by_sliding_window(int32_t window_size, int32_t step_size, int32_t skip=0)CStringFeatures< ST >
obtain_from_char(CStringFeatures< char > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev)CStringFeatures< ST >
obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev)CStringFeatures< ST >
obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev)CStringFeatures< ST >
obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev)CStringFeatures< ST >
obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev)CStringFeatures< ST >
one_to_one_migration_prepare(DynArray< TParameter * > *param_base, const SGParamInfo *target, TParameter *&replacement, TParameter *&to_migrate, char *old_name=NULL)CSGObjectprotectedvirtual
orderCStringFeatures< ST >protected
original_num_symbolsCStringFeatures< ST >protected
parallelCSGObject
parameter_hash_changed()CSGObjectvirtual
preprocess_on_getCStringFeatures< ST >protected
print_modsel_params()CSGObject
print_serializable(const char *prefix="")CSGObjectvirtual
remove_all_subsets()CFeaturesvirtual
remove_subset()CFeaturesvirtual
reshape(int32_t num_features, int32_t num_vectors)CFeaturesvirtual
save(CFile *writer)CStringFeatures< ST >virtual
save_compressed(char *dest, E_COMPRESSION_TYPE compression, int level)CStringFeatures< ST >virtual
save_serializable(CSerializableFile *file, const char *prefix="", int32_t param_version=Version::get_version_parameter())CSGObjectvirtual
save_serializable_post()CSGObjectprotectedvirtual
save_serializable_pre()CSGObjectprotectedvirtual
set_feature_vector(SGVector< ST > vector, int32_t num)CStringFeatures< ST >
set_feature_vector(int32_t num, ST *string, int32_t len)CStringFeatures< ST >virtual
set_features(SGStringList< ST > feats)CStringFeatures< ST >
set_features(SGString< ST > *p_features, int32_t p_num_vectors, int32_t p_max_string_length)CStringFeatures< ST >
set_generic()CSGObject
set_global_io(SGIO *io)CSGObject
set_global_parallel(Parallel *parallel)CSGObject
set_global_version(Version *version)CSGObject
set_preprocessed(int32_t num)CFeatures
set_property(EFeatureProperty p)CFeatures
shallow_copy() const CSGObjectvirtual
shift_offset(ST offset, int32_t amount)CStringFeatures< ST >
shift_offset(bool symbol, int32_t amount)CStringFeatures< ST >
shift_offset(float32_t symbol, int32_t amount)CStringFeatures< ST >
shift_offset(float64_t symbol, int32_t amount)CStringFeatures< ST >
shift_offset(floatmax_t symbol, int32_t amount)CStringFeatures< ST >
shift_symbol(ST symbol, int32_t amount)CStringFeatures< ST >
shift_symbol(bool symbol, int32_t amount)CStringFeatures< ST >
shift_symbol(float32_t symbol, int32_t amount)CStringFeatures< ST >
shift_symbol(float64_t symbol, int32_t amount)CStringFeatures< ST >
shift_symbol(floatmax_t symbol, int32_t amount)CStringFeatures< ST >
single_stringCStringFeatures< ST >protected
subset_changed_post()CStringFeatures< ST >virtual
symbol_mask_tableCStringFeatures< ST >protected
symbol_mask_table_lenCStringFeatures< ST >protected
unembed_word(ST word, uint8_t *seq, int32_t len)CStringFeatures< ST >
unembed_word(float32_t word, uint8_t *seq, int32_t len)CStringFeatures< ST >
unembed_word(float64_t word, uint8_t *seq, int32_t len)CStringFeatures< ST >
unembed_word(floatmax_t word, uint8_t *seq, int32_t len)CStringFeatures< ST >
unset_generic()CSGObject
unset_property(EFeatureProperty p)CFeatures
update_parameter_hash()CSGObjectvirtual
versionCSGObject
~CFeatures()CFeaturesvirtual
~CSGObject()CSGObjectvirtual
~CStringFeatures()CStringFeatures< ST >virtual
~CStringFileFeatures()CStringFileFeatures< ST >virtual

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