#include <OpenMS/FORMAT/MzTab.h>
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const ConsensusMap & | consensus_map_ |
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std::set< String > | protein_hit_user_value_keys_ |
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std::set< String > | consensus_feature_user_value_keys_ |
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std::set< String > | consensus_feature_peptide_identification_user_value_keys_ |
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std::set< String > | consensus_feature_peptide_hit_user_value_keys_ |
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std::map< Size, std::set< Size > > | ind2prot_ |
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std::map< Size, std::set< Size > > | pg2prot_ |
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std::map< String, size_t > | idrunid_2_idrunindex_ |
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std::map< Size, std::vector< std::pair< String, String > > > | run_to_search_engines_ |
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std::map< Size, std::vector< std::vector< std::pair< String, String > > > > | run_to_search_engines_settings_ |
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std::map< std::pair< size_t, size_t >, size_t > | map_id_run_fileidx_2_msfileidx_ |
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std::map< std::pair< String, unsigned >, unsigned > | path_label_to_assay_ |
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std::vector< const ProteinIdentification * > | prot_ids_ |
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std::vector< const PeptideIdentification * > | peptide_ids_ |
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StringList | ms_runs_ |
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bool | first_run_inference_ |
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String | filename_ |
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StringList | fixed_mods_ |
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bool | export_unidentified_features_ |
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bool | export_subfeatures_ |
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bool | export_empty_pep_ids_ |
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bool | export_all_psms_ |
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size_t | quant_study_variables_ = 0 |
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size_t | n_study_variables_ = 0 |
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size_t | PRT_STATE_ = 0 |
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size_t | prt_run_id_ = 0 |
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size_t | prt_hit_id_ = 0 |
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size_t | prt_group_id_ = 0 |
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size_t | prt_indistgroup_id_ = 0 |
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size_t | pep_id_ = 0 |
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size_t | pep_counter_ = 0 |
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size_t | psm_id_ = 0 |
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size_t | current_psm_idx_ = 0 |
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MzTabString | db_ |
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MzTabString | db_version_ |
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std::vector< String > | prt_optional_column_names_ |
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std::vector< String > | pep_optional_column_names_ |
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std::vector< String > | psm_optional_column_names_ |
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MzTabMetaData | meta_data_ |
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◆ CMMzTabStream()
CMMzTabStream |
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const ConsensusMap & |
consensus_map, |
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const String & |
filename, |
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const bool |
first_run_inference_only, |
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const bool |
export_unidentified_features, |
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const bool |
export_unassigned_ids, |
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const bool |
export_subfeatures, |
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const bool |
export_empty_pep_ids = false , |
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const bool |
export_all_psms = false , |
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const String & |
title = "ConsensusMap export from OpenMS" |
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) |
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◆ getMetaData()
◆ getPeptideOptionalColumnNames()
const std::vector<String>& getPeptideOptionalColumnNames |
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const |
◆ getProteinOptionalColumnNames()
const std::vector<String>& getProteinOptionalColumnNames |
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const |
◆ getPSMOptionalColumnNames()
const std::vector<String>& getPSMOptionalColumnNames |
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const |
◆ nextPEPRow()
◆ nextPRTRow()
◆ nextPSMRow()
◆ consensus_feature_peptide_hit_user_value_keys_
std::set<String> consensus_feature_peptide_hit_user_value_keys_ |
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◆ consensus_feature_peptide_identification_user_value_keys_
std::set<String> consensus_feature_peptide_identification_user_value_keys_ |
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◆ consensus_feature_user_value_keys_
std::set<String> consensus_feature_user_value_keys_ |
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◆ consensus_map_
◆ current_psm_idx_
size_t current_psm_idx_ = 0 |
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◆ db_
◆ db_version_
◆ export_all_psms_
◆ export_empty_pep_ids_
bool export_empty_pep_ids_ |
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◆ export_subfeatures_
◆ export_unidentified_features_
bool export_unidentified_features_ |
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◆ filename_
◆ first_run_inference_
bool first_run_inference_ |
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◆ fixed_mods_
◆ idrunid_2_idrunindex_
std::map<String, size_t> idrunid_2_idrunindex_ |
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◆ ind2prot_
std::map<Size, std::set<Size> > ind2prot_ |
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◆ map_id_run_fileidx_2_msfileidx_
std::map<std::pair<size_t,size_t>,size_t> map_id_run_fileidx_2_msfileidx_ |
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◆ meta_data_
◆ ms_runs_
◆ n_study_variables_
size_t n_study_variables_ = 0 |
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◆ path_label_to_assay_
std::map<std::pair< String, unsigned >, unsigned> path_label_to_assay_ |
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◆ pep_counter_
◆ pep_id_
◆ pep_optional_column_names_
std::vector<String> pep_optional_column_names_ |
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◆ peptide_ids_
◆ pg2prot_
std::map<Size, std::set<Size> > pg2prot_ |
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◆ prot_ids_
◆ protein_hit_user_value_keys_
std::set<String> protein_hit_user_value_keys_ |
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◆ prt_group_id_
◆ prt_hit_id_
◆ prt_indistgroup_id_
size_t prt_indistgroup_id_ = 0 |
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◆ prt_optional_column_names_
std::vector<String> prt_optional_column_names_ |
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◆ prt_run_id_
◆ PRT_STATE_
◆ psm_id_
◆ psm_optional_column_names_
std::vector<String> psm_optional_column_names_ |
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◆ quant_study_variables_
size_t quant_study_variables_ = 0 |
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◆ run_to_search_engines_
◆ run_to_search_engines_settings_
std::map<Size, std::vector<std::vector<std::pair<String, String> > > > run_to_search_engines_settings_ |
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private |