Here is a list of all file members with links to the files they belong to:

- b -

• B0 : print_media.hpp
• B1 : print_media.hpp
• B2 : print_media.hpp
• B3 : print_media.hpp
• B4 : print_media.hpp
• B4Param_BestHitOverhang : names.cpp, names.hpp
• B4Param_BestHitScoreEdge : names.cpp, names.hpp
• B4Param_CompositionBasedStats : names.cpp, names.hpp
• B4Param_Culling : names.cpp, names.hpp
• B4Param_CullingLimit : names.cpp, names.hpp
• B4Param_CutoffScore : names.cpp, names.hpp
• B4Param_DbFilteringAlgorithmId : names.cpp, names.hpp
• B4Param_DbGeneticCode : names.cpp, names.hpp
• B4Param_DbLength : names.cpp, names.hpp
• B4Param_DustFiltering : names.cpp, names.hpp
• B4Param_DustFilteringLevel : names.cpp, names.hpp
• B4Param_DustFilteringLinker : names.cpp, names.hpp
• B4Param_DustFilteringWindow : names.cpp, names.hpp
• B4Param_EffectiveSearchSpace : names.cpp, names.hpp
• B4Param_EntrezQuery : names.cpp, names.hpp
• B4Param_EvalueThreshold : names.cpp, names.hpp
• B4Param_FilterString : names.cpp, names.hpp
• B4Param_FinalDbSeq : names.cpp, names.hpp
• B4Param_FirstDbSeq : names.cpp, names.hpp
• B4Param_ForceMbIndex : names.cpp, names.hpp
• B4Param_GapExtensionCost : names.cpp, names.hpp
• B4Param_GapExtnAlgorithm : names.cpp, names.hpp
• B4Param_GapOpeningCost : names.cpp, names.hpp
• B4Param_GapTracebackAlgorithm : names.cpp, names.hpp
• B4Param_GapTrigger : names.cpp, names.hpp
• B4Param_GapXDropoff : names.cpp, names.hpp
• B4Param_GapXDropoffFinal : names.cpp, names.hpp
• B4Param_GiList : names.cpp, names.hpp
• B4Param_HitlistSize : names.cpp, names.hpp
• B4Param_HspRangeMax : names.cpp, names.hpp
• B4Param_InclusionThreshold : names.cpp, names.hpp
• B4Param_LCaseMask : names.cpp, names.hpp
• B4Param_LongestIntronLength : names.cpp, names.hpp
• B4Param_MaskAtHash : names.cpp, names.hpp
• B4Param_MatchReward : names.cpp, names.hpp
• B4Param_MatrixName : names.cpp, names.hpp
• B4Param_MatrixTable : names.cpp, names.hpp
• B4Param_MbIndexName : names.cpp, names.hpp
• B4Param_MBTemplateLength : names.cpp, names.hpp
• B4Param_MBTemplateType : names.cpp, names.hpp
• B4Param_MismatchPenalty : names.cpp, names.hpp
• B4Param_NegativeGiList : names.cpp, names.hpp
• B4Param_OutOfFrameMode : names.cpp, names.hpp
• B4Param_PercentIdentity : names.cpp, names.hpp
• B4Param_PHIPattern : names.cpp, names.hpp
• B4Param_PseudoCountWeight : names.cpp, names.hpp
• B4Param_QueryGeneticCode : names.cpp, names.hpp
• B4Param_RepeatFiltering : names.cpp, names.hpp
• B4Param_RepeatFilteringDB : names.cpp, names.hpp
• B4Param_RequiredEnd : names.cpp, names.hpp
• B4Param_RequiredStart : names.cpp, names.hpp
• B4Param_SegFiltering : names.cpp, names.hpp
• B4Param_SegFilteringHicut : names.cpp, names.hpp
• B4Param_SegFilteringLocut : names.cpp, names.hpp
• B4Param_SegFilteringWindow : names.cpp, names.hpp
• B4Param_SmithWatermanMode : names.cpp, names.hpp
• B4Param_StrandOption : names.cpp, names.hpp
• B4Param_SumStatistics : names.cpp, names.hpp
• B4Param_UngappedMode : names.cpp, names.hpp
• B4Param_UnifiedP : names.cpp, names.hpp
• B4Param_UseRealDbSize : names.cpp, names.hpp
• B4Param_Web_BlastSpecialPage : names.cpp, names.hpp
• B4Param_Web_DBInput : names.cpp, names.hpp
• B4Param_Web_EntrezQuery : names.cpp, names.hpp
• B4Param_Web_JobTitle : names.cpp, names.hpp
• B4Param_Web_NewWindow : names.cpp, names.hpp
• B4Param_Web_OrganismName : names.cpp, names.hpp
• B4Param_Web_RunPsiBlast : names.cpp, names.hpp
• B4Param_Web_ShortQueryAdjust : names.cpp, names.hpp
• B4Param_Web_StepNumber : names.cpp, names.hpp
• B4Param_WindowMaskerDatabase : names.cpp, names.hpp
• B4Param_WindowMaskerTaxId : names.cpp, names.hpp
• B4Param_WindowSize : names.cpp, names.hpp
• B4Param_WordSize : names.cpp, names.hpp
• B4Param_WordThreshold : names.cpp, names.hpp
• B5 : print_media.hpp
• B6 : print_media.hpp
• B_WIDTH : show_hide_dialog.cpp
• BackAlignNog() : nucprot.hpp, nucprot.cpp
• backLog : cn3d_app.cpp
• BAD : inflate.h
• BAD_OR_MISMATCH : Info.cpp
• BAD_PIECE_CHAR : Info.cpp
• bad_sfxs : cleanup_general.cpp
• BadScore() : gnomon_model.hpp
• BadSeqLocSortOrder() : seq_loc_util.cpp, seq_loc_util.hpp
• BadVisibleChar() : objistrasnb.cpp
• BAL : fastme_common.h
• BalWFext() : bme.cpp
• BalWFint() : bme.cpp
• BASE : adler32.c
• BASE64_Decode() : ncbistre.cpp, ncbistre.hpp
• BASE64_Encode() : ncbistre.cpp, ncbistre.hpp
• base_dist : trees.h, trees.c
• base_length : trees.h, trees.c
• BASE_OBJECT : serialimpl.hpp
• base_value() : dbindex_factory.cpp
• BaseName() : fileutil.hpp, fileutil.cpp
• BasicFileIO() : asniotest.cpp
• BasicFunctionalityTest() : stress.cpp
• bcp_batch() : bcp.c, sybdb.h
• bcp_bind() : bcp.c, sybdb.h
• bcp_colfmt() : bcp.c, sybdb.h
• bcp_colfmt_ps() : bcp.c, sybdb.h
• bcp_collen() : bcp.c, sybdb.h
• bcp_colptr() : bcp.c, sybdb.h
• bcp_columns() : bcp.c, sybdb.h
• bcp_control() : bcp.c, sybdb.h
• bcp_done() : bcp.c, sybdb.h
• bcp_exec() : bcp.c, sybdb.h
• bcp_getl() : bcp.c, sybdb.h
• bcp_init() : bcp.c, sybdb.h
• bcp_moretext() : bcp.c, sybdb.h
• bcp_options() : bcp.c, sybdb.h
• bcp_readfmt() : bcp.c, sybdb.h
• BCP_REC_FETCH_DATA : bcp.c
• BCP_REC_NOFETCH_DATA : bcp.c
• bcp_sendrow() : bcp.c, sybdb.h
• BCP_SETL : sybdb.h
• BCP_SETLABELED : sybdb.h
• bcp_writefmt() : bcp.c, sybdb.h
• BCPBATCH : sybdb.h
• BCPCOLDATA : tds.h
• BCPFIRST : sybdb.h
• BCPHINTS : sybdb.h
• BCPKEEPIDENTITY : sybdb.h
• BCPLABELED : sybdb.h
• BCPLAST : sybdb.h
• BCPMAXERRS : sybdb.h
• BDB_batch_delete_recs() : bdb_util.hpp
• BDB_ByteSwap_DoubleCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_FloatCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_Int2Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_Int4Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_Int8Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_IntCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_Uint2Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_Uint4Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_Uint8Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_ByteSwap_UintCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_CharCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_CHECK : bdb_expt.hpp
• BDB_Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_compare_prefix() : bdb_file.cpp
• BDB_CompareFunction : bdb_types.hpp
• BDB_ConfigureCache() : bdb_blobcache.cpp, bdb_blobcache.hpp
• BDB_CreateEnv() : bdb_util.cpp, bdb_util.hpp
• BDB_DoubleCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_ENV_KEEPER_FULL_VERSION : bdb_env_keeper.cpp
• BDB_ENV_KEEPER_VERSION : bdb_env_keeper.cpp
• BDB_ERRNO_THROW : bdb_expt.hpp
• BDB_find_field() : bdb_util.cpp, bdb_util.hpp
• BDB_FixedByteStringCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_FloatCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_get_rowid() : bdb_util.cpp, bdb_util.hpp
• BDB_GetStringFieldBuf() : bdb_util.cpp
• BDB_GetUFieldIdx() : bdb_file.hpp
• BDB_Hash() : bdb_types.cpp, bdb_types.hpp
• BDB_HashFunction : bdb_types.hpp
• BDB_Int2Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_Int4Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_Int8Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_IntCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_iterate_file() : bdb_util.hpp
• BDB_LStringCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_ParseQuery() : bdb_query_parser_main.cpp, bdb_query_parser.hpp
• BDB_PrintQueryTree() : bdb_query.cpp, bdb_query.hpp
• BDB_RecoverEnv() : bdb_env.cpp, bdb_env.hpp
• BDB_Register_Cache() : bdb_blobcache.cpp, bdb_blobcache.hpp
• BDB_StringCaseCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_StringCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_THROW : bdb_expt.hpp
• BDB_UCharCompare() : bdb_types.cpp, bdb_types.hpp
• BDB_Uint2Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_Uint4Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_Uint4Hash() : bdb_types.cpp, bdb_types.hpp
• BDB_Uint8Compare() : bdb_types.cpp, bdb_types.hpp
• BDB_UintCompare() : bdb_types.cpp, bdb_types.hpp
• Beep : ncbi_os_mswin.h
• before_context : pcregrep.c
• Begin() : iterator.hpp
• BEGIN : lex.newick.cpp
• BEGIN_ABSTRACT_CLASS_INFO : serialimpl.hpp
• BEGIN_ALIAS_INFO : ID2S_Seq_map_Info_.cpp, ID2S_Seq_data_Info_.cpp, ID2S_Chunk_Id_.cpp, PDB_mol_id_.cpp, PCRPrimerSeq_.cpp, PCRPrimerName_.cpp, Ref_ext_.cpp, NCBIstdaa_.cpp, NCBIpna_.cpp, NCBIpaa_.cpp, NCBIeaa_.cpp, NCBI8na_.cpp, NCBI8aa_.cpp, NCBI4na_.cpp, NCBI2na_.cpp, IUPACna_.cpp, IUPACaa_.cpp, Heterogen_.cpp, Remap_dt_.cpp, Remap_db_id_.cpp, Project_id_.cpp, TemplateName_.cpp, Step_id_.cpp, Biostruc_feature_set_id_.cpp, Biostruc_feature_id_.cpp, Model_id_.cpp, Model_coordinate_set_id_.cpp, Alternate_conformation_id_.cpp, Residue_id_.cpp, Residue_graph_id_.cpp, PCSubstance_id_.cpp, Molecule_id_.cpp, Mmdb_id_.cpp, Atom_id_.cpp, INSDSeqid_.cpp, INSDSecondary_accn_.cpp, INSDKeyword_.cpp, INSDAuthor_.cpp, GBSeqid_.cpp, GBSecondary_accn_.cpp, GBKeyword_.cpp, GBAuthor_.cpp, Entrez2_link_id_.cpp, Entrez2_field_id_.cpp, Entrez2_dt_.cpp, Entrez2_db_id_.cpp, Cn3d_style_table_id_.cpp, Blast4_finish_params_reply_.cpp, Blas_get_searc_strat_reply_.cpp, PubMedId_.cpp, PmPid_.cpp, PmcPid_.cpp, PmcID_.cpp, PII_.cpp, MedlineUID_.cpp, DOI_.cpp, serialimpl.hpp
• BEGIN_ALIAS_INFO_METHOD : serialimpl.hpp
• BEGIN_ASN_CHOICE_INFO : serialasn.hpp
• BEGIN_ASN_STRUCT_INFO : serialasn.hpp
• BEGIN_BASE_CHOICE_INFO : serialimpl.hpp
• BEGIN_BASE_CLASS_INFO : serialimpl.hpp
• BEGIN_BASE_IMPLICIT_CLASS_INFO : serialimpl.hpp
• BEGIN_BASE_TYPE_INFO : serialimpl.hpp
• BEGIN_CHOICE_INFO : serialimpl.hpp
• BEGIN_CLASS_INFO : edit_res_file.cpp, serialimpl.hpp
• BEGIN_DERIVED_CLASS_INFO : serialimpl.hpp
• BEGIN_egquery_SCOPE : ResultItem_.hpp, Result_.hpp, EGQueryResult_.hpp, egquery_module.hpp
• BEGIN_ehistory_SCOPE : EHistoryResult_.hpp, EHistoryItem_.hpp, ehistory_module.hpp
• BEGIN_einfo_SCOPE : LinkList_.hpp, Link_.hpp, FieldList_.hpp, Field_.hpp, EInfoResult_.hpp, einfo_module.hpp, DbList_.hpp, DbInfo_.hpp
• BEGIN_elink_SCOPE : Provider_.hpp, ObjUrl_.hpp, LinkSetDbHistory_.hpp, LinkSetDb_.hpp, LinkSet_.hpp, LinkInfo_.hpp, Link_.hpp, IdUrlSet_.hpp, IdUrlList_.hpp, IdList_.hpp, IdLinkSet_.hpp, IdCheckList_.hpp, Id_.hpp, ELinkResult_.hpp, elink_module.hpp
• BEGIN_ENUM_ALIAS_INFO : serialimpl.hpp
• BEGIN_ENUM_ALIAS_INFO_METHOD : serialimpl.hpp
• BEGIN_ENUM_IN_INFO : serialimpl.hpp
• BEGIN_ENUM_INFO : serialimpl.hpp
• BEGIN_ENUM_INFO_METHOD : serialimpl.hpp
• BEGIN_epost_SCOPE : InvalidIdList_.hpp, EPostResult_.hpp, epost_module.hpp
• BEGIN_esearch_SCOPE : WarningList_.hpp, TranslationStack_.hpp, TranslationSet_.hpp, Translation_.hpp, TermSet_.hpp, IdList_.hpp, ESearchResult_.hpp, esearch_module.hpp, ErrorList_.hpp
• BEGIN_espell_SCOPE : SpelledQuery_.hpp, ESpellResult_.hpp, espell_module.hpp
• BEGIN_esummary_SCOPE : Item_.hpp, ESummaryResult_.hpp, esummary_module.hpp, DocSum_.hpp
• BEGIN_EVENT_MAP : event_handler.hpp
• BEGIN_IMPLICIT_CLASS_INFO : serialimpl.hpp
• BEGIN_linkout_SCOPE : Url_.hpp, Toupper_.hpp, Tolower_.hpp, Subs_.hpp, SubProvider_.hpp, SubObjectSelector_.hpp, Strip_.hpp, RuleToMany_.hpp, Rule_.hpp, Provider_.hpp, Pad_.hpp, ObjectUrl_.hpp, ObjectSelector_.hpp, ObjectList_.hpp, Normalize_.hpp, LinkSet_.hpp, linkout_module.hpp, Link_.hpp, IconUrl_.hpp, FileName_.hpp, Apad_.hpp
• BEGIN_NAMED_ABSTRACT_BASE_CLASS_INFO : serialimpl.hpp
• BEGIN_NAMED_ABSTRACT_CLASS_INFO : serialimpl.hpp
• BEGIN_NAMED_ASN_CHOICE_INFO : serialasn.hpp
• BEGIN_NAMED_ASN_STRUCT_INFO : serialasn.hpp
• BEGIN_NAMED_BASE_CHOICE_INFO : EInfoResult_.cpp, T3Request_.cpp, T3Reply_.cpp, Taxon1_resp_.cpp, Taxon1_req_.cpp, SeqTable_sparse_index_.cpp, SeqTable_single_data_.cpp, SeqTable_multi_data_.cpp, ID2S_Seq_loc_.cpp, ID2S_Chunk_Content_.cpp, Seq_entry_.cpp, Seq_loc_.cpp, Seq_id_.cpp, SeqFeatData_.cpp, Rsite_ref_.cpp, Feat_id_.cpp, SeqEdit_Id_.cpp, SeqEdit_Cmd_.cpp, EMBL_dbname_.cpp, Spliced_seg_modifier_.cpp, Spliced_exon_chunk_.cpp, Product_pos_.cpp, Seqdesc_.cpp, Seq_ext_.cpp, Seq_data_.cpp, Numbering_.cpp, Delta_seq_.cpp, Annotdesc_.cpp, Annot_id_.cpp, RMRequest_.cpp, RMReply_.cpp, Pub_set_.cpp, Pub_.cpp, Project_item_.cpp, Projdesc_.cpp, PC_XRefData_.cpp, PC_StereoCenter_.cpp, PC_Source_.cpp, PrintForm_.cpp, Ncbi_mime_asn1_.cpp, Residue_pntrs_.cpp, Region_boundary_.cpp, Move_.cpp, Chem_graph_pntrs_.cpp, Biostruc_feature_set_descr_.cpp, Model_descr_.cpp, Coordinates_.cpp, Atomic_temperature_factors_.cpp, Residue_graph_pntr_.cpp, Biostruc_id_.cpp, Biostruc_descr_.cpp, Biomol_descr_.cpp, Mla_request_.cpp, Mla_back_.cpp, ID2_Seq_id_.cpp, ID1server_request_.cpp, ID1server_back_.cpp, GC_GenomicPart_.cpp, Person_id_.cpp, Object_id_.cpp, Int_fuzz_.cpp, Date_.cpp, Entrez2_boolean_element_.cpp, E2Request_.cpp, E2Reply_.cpp, Update_comment_.cpp, Feature_evidence_.cpp, Cdd_pref_node_descr_.cpp, Cdd_id_.cpp, Cdd_descr_.cpp, Blast4_value_.cpp, Blast4_subject_.cpp, Blast4_request_body_.cpp, Blast4_reply_body_.cpp, Blast4_queries_.cpp, Blast4_cutoff_.cpp, Bla_com_opt_db_res_by_orga_.cpp, ArticleId_.cpp, Affil_.cpp, PluginValueConstraint_.cpp, PluginValue_.cpp, PluginReplyAction_.cpp, GBenchServiceRequest_.cpp, GBenchServiceReply_.cpp, serialimpl.hpp
• BEGIN_NAMED_BASE_CLASS_INFO : soap_header_.cpp, soap_fault_.cpp, soap_envelope_.cpp, soap_detail_.cpp, soap_body_.cpp, Data_set_id_.cpp, Data_set_id_uids_.cpp, Data_set_id_type_.cpp, Data_set_id_.cpp, VersionStruct_.cpp, VersionResponse_.cpp, Version_.cpp, Operand_.cpp, MathResponse_.cpp, Math_.cpp, DescriptionText_.cpp, NCBI_Sample_ASN_Type_.cpp, IdList_.cpp, Url_.cpp, Subs_.cpp, SubProvider_.cpp, SubObjectSelector_.cpp, Strip_.cpp, RuleToMany_.cpp, Provider_.cpp, Pad_.cpp, ObjectUrl_.cpp, ObjectSelector_.cpp, LinkSet_.cpp, Link_.cpp, IconUrl_.cpp, FileName_.cpp, Apad_.cpp, Item_.cpp, DocSum_.cpp, ESpellResult_.cpp, WarningList_.cpp, TranslationSet_.cpp, Translation_.cpp, TermSet_.cpp, IdList_.cpp, ESearchResult_.cpp, ErrorList_.cpp, InvalidIdList_.cpp, EPostResult_.cpp, Provider_.cpp, ObjUrl_.cpp, LinkSetDbHistory_.cpp, LinkSetDb_.cpp, LinkSet_.cpp, LinkInfo_.cpp, Link_.cpp, IdUrlSet_.cpp, IdUrlList_.cpp, IdList_.cpp, IdLinkSet_.cpp, IdCheckList_.cpp, Id_.cpp, ELinkResult_.cpp, LinkList_.cpp, Link_.cpp, FieldList_.cpp, Field_.cpp, DbList_.cpp, DbInfo_.cpp, EHistoryResult_.cpp, ResultItem_.cpp, Result_.cpp, EGQueryResult_.cpp, Field_rule_.cpp, Dependent_field_rule_.cpp, Comment_rule_.cpp, ValidError_.cpp, ValidErrItem_.cpp, TSeq_.cpp, Taxon3_request_.cpp, Taxon3_reply_.cpp, T3StatusFlags_.cpp, T3RefreshFlags_.cpp, T3Error_.cpp, T3Data_.cpp, Taxon2_data_.cpp, Taxon1_name_.cpp, Taxon1_info_.cpp, Taxon1_error_.cpp, Taxon1_data_.cpp, Submit_block_.cpp, Seq_submit_.cpp, Contact_info_.cpp, SeqTestResults_.cpp, Seq_test_result_.cpp, SeqTable_column_info_.cpp, SeqTable_column_.cpp, Seq_table_.cpp, CommonString_table_.cpp, CommonBytes_table_.cpp, ID2S_Split_Info_.cpp, ID2S_Sequence_Piece_.cpp, ID2S_Seq_id_Ints_.cpp, ID2S_Seq_id_Interval_.cpp, ID2S_Seq_feat_Ids_Info_.cpp, ID2S_Seq_descr_Info_.cpp, ID2S_Seq_assembly_Info_.cpp, ID2S_Seq_annot_place_Info_.cpp, ID2S_Seq_annot_Info_.cpp, ID2S_Interval_.cpp, ID2S_Gi_Range_.cpp, ID2S_Gi_Ints_.cpp, ID2S_Gi_Interval_.cpp, ID2S_Feat_type_Info_.cpp, ID2S_Chunk_Info_.cpp, ID2S_Chunk_Data_.cpp, ID2S_Chunk_.cpp, ID2S_Bioseqs_Info_.cpp, ID2S_Bioseq_place_Info_.cpp, ID2S_Bioseq_Info_.cpp, Bioseq_set_.cpp, Seq_graph_.cpp, Real_graph_.cpp, Int_graph_.cpp, Byte_graph_.cpp, Textseq_id_.cpp, Seq_point_.cpp, Seq_interval_.cpp, Seq_bond_.cpp, PDB_seq_id_.cpp, Patent_seq_id_.cpp, Packed_seqpnt_.cpp, Giimport_id_.cpp, Txinit_.cpp, Tx_evidence_.cpp, Trna_ext_.cpp, TaxElement_.cpp, SubSource_.cpp, SeqFeatXref_.cpp, Seq_feat_.cpp, RNA_ref_.cpp, RNA_qual_.cpp, RNA_gen_.cpp, Prot_ref_.cpp, PCRReaction_.cpp, PCRPrimer_.cpp, OrgName_.cpp, OrgMod_.cpp, Org_ref_.cpp, Imp_feat_.cpp, Gene_ref_.cpp, Gene_nomenclature_.cpp, Gb_qual_.cpp, Code_break_.cpp, Clone_seq_.cpp, Clone_ref_.cpp, Cdregion_.cpp, BioSource_.cpp, BinomialOrgName_.cpp, SeqEdit_Cmd_SetDescr_.cpp, SeqEdit_Cmd_ResetSetAttr_.cpp, SeqEdit_Cmd_ResetSeqEntry_.cpp, SeqEdit_Cmd_ResetSeqAttr_.cpp, SeqEdit_Cmd_ResetIds_.cpp, SeqEdit_Cmd_ResetDescr_.cpp, SeqEdit_Cmd_ReplaceAnnot_.cpp, SeqEdit_Cmd_RemoveSeqEntry_.cpp, SeqEdit_Cmd_RemoveId_.cpp, SeqEdit_Cmd_RemoveDesc_.cpp, SeqEdit_Cmd_RemoveAnnot_.cpp, SeqEdit_Cmd_ChangeSetAttr_.cpp, SeqEdit_Cmd_ChangeSeqAttr_.cpp, SeqEdit_Cmd_AttachSet_.cpp, SeqEdit_Cmd_AttachSeqEntry_.cpp, SeqEdit_Cmd_AttachSeq_.cpp, SeqEdit_Cmd_AttachAnnot_.cpp, SeqEdit_Cmd_AddId_.cpp, SeqEdit_Cmd_AddDescr_.cpp, SeqEdit_Cmd_AddDesc_.cpp, SeqEdit_Cmd_AddAnnot_.cpp, Seq_map_table_.cpp, Seq_code_table_.cpp, Seq_code_set_.cpp, SP_block_.cpp, PRF_ExtraSrc_.cpp, PRF_block_.cpp, PIR_block_.cpp, PDB_replace_.cpp, PDB_block_.cpp, GB_block_.cpp, EMBL_xref_.cpp, EMBL_block_.cpp, Std_seg_.cpp, Spliced_seg_.cpp, Spliced_exon_.cpp, Splice_site_.cpp, Sparse_seg_ext_.cpp, Sparse_seg_.cpp, Sparse_align_.cpp, Seq_align_.cpp, Score_.cpp, Prot_pos_.cpp, Packed_seg_.cpp, Dense_seg_.cpp, Dense_diag_.cpp, Textannot_id_.cpp, Seq_literal_.cpp, Seq_inst_.cpp, Seq_hist_rec_.cpp, Seq_hist_.cpp, Seq_gap_.cpp, Seq_annot_.cpp, Pubdesc_.cpp, Num_ref_.cpp, Num_real_.cpp, Num_enum_.cpp, Num_cont_.cpp, MolInfo_.cpp, Bioseq_.cpp, Align_def_.cpp, PssmWithParameters_.cpp, PssmParameters_.cpp, PssmIntermediateData_.cpp, PssmFinalData_.cpp, Pssm_.cpp, LoopConstraint_.cpp, FormatRpsDbParameters_.cpp, CoreDef_.cpp, CoreBlock_.cpp, BlockProperty_.cpp, Remap_request_.cpp, Remap_reply_.cpp, Remap_query_.cpp, Pubmed_url_.cpp, Pubmed_entry_.cpp, Project_descr_.cpp, Project_.cpp, PC_Urn_.cpp, PC_Substance_.cpp, PC_StereoTShape_.cpp, PC_StereoTrigonalBiPyramid_.cpp, PC_StereoTetrahedral_.cpp, PC_StereoSquarePlanar_.cpp, PC_StereoPlanar_.cpp, PC_StereoPentagonalBiPyram_.cpp, PC_StereoOctahedral_.cpp, PC_StereoGroup_.cpp, PC_MMDBSource_.cpp, PC_InfoData_.cpp, PC_ID_.cpp, PC_DrawAnnotations_.cpp, PC_DBTracking_.cpp, PC_Count_.cpp, PC_Coordinates_.cpp, PC_Conformer_.cpp, PC_CompoundType_.cpp, PC_Compound_.cpp, PC_Bonds_.cpp, PC_AtomString_.cpp, PC_AtomSource_.cpp, PC_Atoms_.cpp, PC_AtomRadical_.cpp, PC_AtomInt_.cpp, PC_ResultType_.cpp, PC_RealMinMax_.cpp, PC_IntegerMinMax_.cpp, PC_ConcentrationAttr_.cpp, PC_AssayTargetInfo_.cpp, PC_AssaySubmit_.cpp, PC_AssayResults_.cpp, PC_AssayPanelTestResult_.cpp, PC_AssayPanelMember_.cpp, PC_AssayPanel_.cpp, PC_AssayDRAttr_.cpp, PC_AssayDescription_.cpp, PC_AssayData_.cpp, PC_AnnotatedXRef_.cpp, NameValue_.cpp, MSSpectrum_.cpp, MSSearchSettings_.cpp, MSSearch_.cpp, MSScoreSet_.cpp, MSResponse_.cpp, MSRequest_.cpp, MSPepHit_.cpp, MSOutFile_.cpp, MSMZHit_.cpp, MSModSpec_.cpp, MSModHit_.cpp, MSMassSet_.cpp, MSLibrarySettings_.cpp, MSIterativeSettings_.cpp, MSIonAnnot_.cpp, MSIon_.cpp, MSInFile_.cpp, MSImmonium_.cpp, MSHitSet_.cpp, MSHits_.cpp, MSChargeHandle_.cpp, MSBioseq_.cpp, UserFormat_.cpp, PrintTemplate_.cpp, PrintFormText_.cpp, PrintFormEnum_.cpp, PrintFormBoolean_.cpp, PrintFormBlock_.cpp, PrintFormat_.cpp, Entrez_general_.cpp, Bundle_seqs_aligns_.cpp, Biostruc_seqs_aligns_cdd_.cpp, Biostruc_seqs_.cpp, Biostruc_seq_.cpp, Biostruc_align_seq_.cpp, Biostruc_align_.cpp, Transform_.cpp, Trans_matrix_.cpp, Sphere_.cpp, Rot_matrix_.cpp, Residue_interval_pntr_.cpp, Residue_explicit_pntrs_.cpp, Region_similarity_.cpp, Region_pntrs_.cpp, Region_coordinates_.cpp, RealValue_.cpp, Other_feature_.cpp, Molecule_pntrs_.cpp, Model_space_point_.cpp, GL_matrix_.cpp, Cylinder_.cpp, Cone_.cpp, Color_prop_.cpp, Chem_graph_alignment_.cpp, Camera_.cpp, Brick_.cpp, Biostruc_script_step_.cpp, Biostruc_feature_set_.cpp, Biostruc_feature_.cpp, Atom_pntrs_.cpp, Align_stats_.cpp, Triangles_.cpp, T_mesh_.cpp, Surface_coordinates_.cpp, Reference_frame_.cpp, Model_space_points_.cpp, Model_space_.cpp, Model_coordinate_set_.cpp, Isotropi_temperatu_factors_.cpp, Density_coordinates_.cpp, Conformation_ensemble_.cpp, Biostruc_model_.cpp, Atomic_occupancies_.cpp, Atomic_coordinates_.cpp, Anisotro_temperatu_factors_.cpp, Residue_graph_.cpp, Residue_.cpp, Molecule_graph_.cpp, Intra_residue_bond_.cpp, Inter_residue_bond_.cpp, Chiral_center_.cpp, Biostruc_source_.cpp, Biostruc_set_.cpp, Biostruc_residue_graph_set_.cpp, Biostruc_replace_.cpp, Biostruc_history_.cpp, Biostruc_graph_pntr_.cpp, Biostruc_graph_.cpp, Biostruc_annot_set_.cpp, Biostruc_.cpp, Biost_resid_graph_set_pntr_.cpp, Atom_pntr_.cpp, Atom_.cpp, Title_msg_list_.cpp, Title_msg_.cpp, Mim_text_.cpp, Mim_set_.cpp, Mim_reference_.cpp, Mim_page_.cpp, Mim_link_.cpp, Mim_index_term_.cpp, Mim_entry_.cpp, Mim_edit_item_.cpp, Mim_date_.cpp, Mim_cit_.cpp, Mim_author_.cpp, Mim_allelic_variant_.cpp, Medline_si_.cpp, Medline_rn_.cpp, Medline_qual_.cpp, Medline_mesh_.cpp, Medline_field_.cpp, Medline_entry_.cpp, DocRef_.cpp, Medlars_record_.cpp, Medlars_entry_.cpp, INSDXref_.cpp, INSDTagsetRules_.cpp, INSDTagset_.cpp, INSDTag_.cpp, INSDSeq_.cpp, INSDReference_.cpp, INSDQualifier_.cpp, INSDInterval_.cpp, INSDFeature_.cpp, ID2S_Request_Get_Chunks_.cpp, ID2S_Reply_Get_Split_Info_.cpp, ID2S_Reply_Get_Chunk_.cpp, ID2_Request_ReGet_Blob_.cpp, ID2_Request_Get_Seq_id_.cpp, ID2_Request_Get_Packages_.cpp, ID2_Request_Get_Blob_Info_.cpp, ID2_Request_Get_Blob_Id_.cpp, ID2_Request_.cpp, ID2_Reply_ReGet_Blob_.cpp, ID2_Reply_Get_Seq_id_.cpp, ID2_Reply_Get_Package_.cpp, ID2_Reply_Get_Blob_Seq_ids_.cpp, ID2_Reply_Get_Blob_Id_.cpp, ID2_Reply_Get_Blob_.cpp, ID2_Reply_Data_.cpp, ID2_Reply_.cpp, ID2_Param_.cpp, ID2_Get_Blob_Details_.cpp, ID2_Error_.cpp, ID2_Blob_Seq_id_.cpp, ID2_Blob_Id_.cpp, ID1server_maxcomplex_.cpp, ID1SeqEntry_info_.cpp, ID1Seq_hist_.cpp, ID1blob_info_.cpp, HG_Stats_.cpp, HG_Node_id_.cpp, HG_Node_.cpp, HG_Link_.cpp, HG_Gene_.cpp, HG_EntrySet_.cpp, HG_Entry_.cpp, HG_Domain_.cpp, HG_CommentarySet_.cpp, HG_Commentary_.cpp, HG_Alignment_.cpp, GC_SequenceStats_.cpp, GC_Sequence_.cpp, GC_Scaf_stats_.cpp, GC_Replicon_.cpp, GC_Project_.cpp, GC_Genome_.cpp, GC_Assembly_.cpp, User_object_.cpp, User_field_.cpp, Name_std_.cpp, Dbtag_.cpp, Date_std_.cpp, GBXref_.cpp, GBTagsetRules_.cpp, GBTagset_.cpp, GBTag_.cpp, GBSeq_.cpp, GBReference_.cpp, GBQualifier_.cpp, GBInterval_.cpp, GBFeature_.cpp, FeatDispGroup_.cpp, FeatDefGroupSet_.cpp, FeatDef_.cpp, Xtra_Terms_.cpp, Other_source_.cpp, Maps_.cpp, Gene_track_.cpp, Gene_source_.cpp, Gene_commentary_.cpp, Entrezgene_.cpp, Entrez2_term_query_.cpp, Entrez2_term_pos_.cpp, Entrez2_term_list_.cpp, Entrez2_term_.cpp, Entrez2_request_.cpp, Entrez2_reply_.cpp, Entrez2_link_set_.cpp, Entrez2_link_info_.cpp, Entrez2_link_count_list_.cpp, Entrez2_link_count_.cpp, Entrez2_limits_.cpp, Entrez2_info_.cpp, Entrez2_id_list_.cpp, Entrez2_id_.cpp, Entrez2_hier_query_.cpp, Entrez2_hier_node_.cpp, Entrez2_get_links_.cpp, Entrez2_field_info_.cpp, Entrez2_eval_boolean_.cpp, Entrez2_dt_filter_.cpp, Entrez2_docsum_list_.cpp, Entrez2_docsum_field_info_.cpp, Entrez2_docsum_data_.cpp, Entrez2_docsum_.cpp, Entrez2_db_info_.cpp, Entrez2_boolean_term_.cpp, Entrez2_boolean_reply_.cpp, Entrez2_boolean_exp_.cpp, Ss_.cpp, RsStruct_.cpp, RsLinkout_.cpp, Rs_.cpp, PrimarySequence_.cpp, MapLoc_.cpp, FxnSet_.cpp, ExchangeSet_.cpp, Component_.cpp, BaseURL_.cpp, Assembly_.cpp, Assay_.cpp, Cn3d_view_settings_.cpp, Cn3d_vector_.cpp, Cn3d_user_annotations_.cpp, Cn3d_user_annotation_.cpp, Cn3d_style_table_item_.cpp, Cn3d_style_settings_.cpp, Cn3d_style_dictionary_.cpp, Cn3d_residue_range_.cpp, Cn3d_object_location_.cpp, Cn3d_molecule_location_.cpp, Cn3d_GL_matrix_.cpp, Cn3d_general_style_.cpp, Cn3d_color_.cpp, Cn3d_backbone_style_.cpp, Cn3d_backbone_label_style_.cpp, Update_align_.cpp, Triangle_.cpp, Sequence_tree_.cpp, SeqTree_node_.cpp, Reject_id_.cpp, Node_annotation_.cpp, Matrix_.cpp, Global_id_.cpp, Domain_parent_.cpp, Cdd_Viewer_Rect_.cpp, Cdd_Viewer_.cpp, Cdd_tree_.cpp, Cdd_Script_.cpp, Cdd_repeat_.cpp, Cdd_Project_.cpp, Cdd_pref_nodes_.cpp, Cdd_org_ref_.cpp, Cdd_book_ref_.cpp, Cdd_.cpp, Align_annot_.cpp, Algorithm_type_.cpp, Statistics_.cpp, Parameters_.cpp, Iteration_.cpp, Hsp_.cpp, Hit_.cpp, BlastOutput_.cpp, Blast_mask_list_.cpp, Blast_def_line_.cpp, Blast_db_mask_info_.cpp, Blast_get_seq_parts_reques_.cpp, Blast_get_reque_info_reque_.cpp, Blast_get_reque_info_reply_.cpp, Blast_finish_params_reques_.cpp, Blast_common_option_scorin_.cpp, Blast_commo_optio_db_restr_.cpp, Blast4_task_info_.cpp, Blast4_simple_results_.cpp, Blast4_simple_alignment_.cpp, Blast4_seq_part_data_.cpp, Blast4_request_.cpp, Blast4_reply_.cpp, Blast4_range_.cpp, Blast4_queue_search_reques_.cpp, Blast4_queue_search_reply_.cpp, Blast4_program_info_.cpp, Blast4_phi_alignments_.cpp, Blast4_parameter_info_.cpp, Blast4_parameter_.cpp, Blast4_options_lite_.cpp, Blast4_matrix_id_.cpp, Blast4_mask_.cpp, Blast4_ka_block_.cpp, Blast4_get_sequenc_request_.cpp, Blast4_get_queries_reply_.cpp, Blast4_error_.cpp, Blast4_database_info_.cpp, Blast4_database_.cpp, Blast4_common_options_.cpp, Blast4_archive_.cpp, Blast4_alignment_for_query_.cpp, Blas_queu_searc_reque_lite_.cpp, Blas_get_searc_strat_reque_.cpp, Blas_get_searc_statu_reque_.cpp, Blas_get_searc_statu_reply_.cpp, Blas_get_searc_resul_reque_.cpp, Blas_get_searc_resul_reply_.cpp, Blas_comm_opti_repea_filte_.cpp, Blas_comm_opti_query_filte_.cpp, Blas_comm_opti_nucle_query_.cpp, Blas_comm_opti_disco_megab_.cpp, NodeFeature_.cpp, Node_.cpp, FeatureDescr_.cpp, DistanceMatrix_.cpp, BioTreeContainer_.cpp, PubStatusDate_.cpp, Patent_priority_.cpp, Meeting_.cpp, Imprint_.cpp, Id_pat_.cpp, CitRetract_.cpp, Cit_sub_.cpp, Cit_proc_.cpp, Cit_pat_.cpp, Cit_let_.cpp, Cit_jour_.cpp, Cit_gen_.cpp, Cit_book_.cpp, Cit_art_.cpp, Author_.cpp, Auth_list_.cpp, Link_set_.cpp, WorkspaceFolder_.cpp, ViewMemento_.cpp, ViewDescriptor_.cpp, ViewDesc_.cpp, ViewDataLink_.cpp, ProjectItem_.cpp, ProjectHistoryItem_.cpp, ProjectFolder_.cpp, ProjectDescr_.cpp, ProjectAnnot_.cpp, PluginValueRangeConstraint_.cpp, PluginUserType_.cpp, PluginRequest_.cpp, PluginReply_.cpp, PluginObject_.cpp, PluginMRUEntry_.cpp, PluginMessage_.cpp, PluginLibInfo_.cpp, PluginInfo_.cpp, PluginIconInfo_.cpp, PluginCommand_.cpp, PluginArg_.cpp, MRUCache_.cpp, MessageHistoryInfo_.cpp, GBWorkspace_.cpp, GBProjectHandle_.cpp, GBProject_ver2_.cpp, GBProject_.cpp, GBenchVersionRequest_.cpp, GBenchVersionReply_.cpp, GBenchVersionInfo_.cpp, GBenchToolResults_.cpp, GBenchInitRequest_.cpp, GBenchInitReply_.cpp, GBenchFeedbackRequest_.cpp, GBenchFeedbackAttachment_.cpp, FolderInfo_.cpp, DataHandleViewer_.cpp, DataHandleTransformer_.cpp, DataHandleSelector_.cpp, DataHandleAction_.cpp, DataHandle_.cpp, AbstractProjectItem_.cpp, VisualStudioProject_.cpp, Tool_.cpp, Platforms_.cpp, Platform_.cpp, Filter_.cpp, Files_.cpp, FileConfiguration_.cpp, File_.cpp, Configurations_.cpp, Configuration_.cpp, UserParam_.cpp, TargetList_.cpp, Target_.cpp, SpectrumList_.cpp, SpectrumDescription_.cpp, Spectrum_.cpp, SourceFileRefList_.cpp, SourceFileRef_.cpp, SourceFileList_.cpp, SourceFile_.cpp, Source_.cpp, SoftwareRef_.cpp, SoftwareParam_.cpp, SoftwareList_.cpp, Software_.cpp, SelectedIonList_.cpp, SelectedIon_.cpp, ScanWindowList_.cpp, ScanWindow_.cpp, Scan_.cpp, SampleList_.cpp, Sample_.cpp, Run_.cpp, ReferenceableParamGroupRef_.cpp, ReferenceableParamGroupLis_.cpp, ReferenceableParamGroup_.cpp, ProcessingMethod_.cpp, PrecursorList_.cpp, Precursor_.cpp, MzML_.cpp, IsolationWindow_.cpp, InstrumentConfigurationLis_.cpp, InstrumentConfiguration_.cpp, FileDescription_.cpp, FileContent_.cpp, Detector_.cpp, DataProcessingList_.cpp, DataProcessing_.cpp, CvParam_.cpp, CvList_.cpp, Cv_.cpp, Contact_.cpp, ComponentList_.cpp, ChromatogramList_.cpp, Chromatogram_.cpp, BinaryDataArrayList_.cpp, BinaryDataArray_.cpp, Analyzer_.cpp, Activation_.cpp, AcquisitionSettingsList_.cpp, AcquisitionSettings_.cpp, AcquisitionList_.cpp, Acquisition_.cpp, UserParam_.cpp, SupSourceFile_.cpp, SupDesc_.cpp, SupDataDesc_.cpp, SupDataArrayBinary_.cpp, SupDataArray_.cpp, SpectrumSettings_.cpp, SpectrumList_.cpp, SpectrumInstrument_.cpp, SpectrumDesc_.cpp, Spectrum_.cpp, SourceFile_.cpp, Software_.cpp, SampleDescription_.cpp, PrecursorList_.cpp, Precursor_.cpp, MzData_.cpp, MzArrayBinary_.cpp, IntenArrayBinary_.cpp, Instrument_.cpp, Description_.cpp, DataProcessing_.cpp, Data_.cpp, CvParam_.cpp, CvLookup_.cpp, Contact_.cpp, AnalyzerList_.cpp, Admin_.cpp, Acquisition_.cpp, AcqSpecification_.cpp, Markov_chain_params_.cpp, Markov_chain_array_.cpp, Length_distribution_params_.cpp, Intron_params_.cpp, Intergenic_params_.cpp, Gnomon_param_.cpp, Exon_params_.cpp, serialimpl.hpp
• BEGIN_NAMED_BASE_IMPLICIT_CLASS_INFO : Description_.cpp, Toupper_.cpp, Tolower_.cpp, Rule_.cpp, ObjectList_.cpp, Normalize_.cpp, ESummaryResult_.cpp, SpelledQuery_.cpp, TranslationStack_.cpp, EHistoryItem_.cpp, Field_set_.cpp, Dependent_field_set_.cpp, Comment_set_.cpp, TSeqSet_.cpp, SequenceOfInt_.cpp, Seq_test_result_set_.cpp, ID2S_Bioseq_set_Ids_.cpp, ID2S_Bioseq_Ids_.cpp, Seq_loc_mix_.cpp, Seq_loc_equiv_.cpp, Packed_seqint_.cpp, RNA_qual_set_.cpp, PCRReactionSet_.cpp, PCRPrimerSet_.cpp, PartialOrgName_.cpp, MultiOrgName_.cpp, Genetic_code_table_.cpp, Genetic_code_.cpp, Clone_seq_set_.cpp, Seq_align_set_.cpp, Score_set_.cpp, Seq_descr_.cpp, Seg_ext_.cpp, Map_ext_.cpp, Delta_ext_.cpp, Annot_descr_.cpp, Remap_result_.cpp, Pub_equiv_.cpp, PC_Substances_.cpp, PC_Conformers_.cpp, PC_Compounds_.cpp, PC_AssayContainer_.cpp, MSSpectrumset_.cpp, MSSearchSettingsSet_.cpp, MSModSpecSet_.cpp, MSBioseqSet_.cpp, PrintTemplateSet_.cpp, Biostruc_script_.cpp, Alternate_conformation_ids_.cpp, Atom_pntr_set_.cpp, Mim_entries_.cpp, INSDTagsetRuleSet_.cpp, INSDTags_.cpp, INSDTagNames_.cpp, INSDSet_.cpp, ID2_Request_Packet_.cpp, ID2_Params_.cpp, ID2_Blob_Seq_ids_.cpp, ID1server_debug_.cpp, HG_CommentaryContainer_.cpp, HG_AlignmentSet_.cpp, GBTagsetRuleSet_.cpp, GBTags_.cpp, GBTagNames_.cpp, GBSet_.cpp, FeatDispGroupSet_.cpp, FeatDefSet_.cpp, Entrezgene_Set_.cpp, Cn3d_style_settings_set_.cpp, Cdd_tree_set_.cpp, Cdd_set_.cpp, Cdd_pref_node_descr_set_.cpp, Cdd_org_ref_set_.cpp, Cdd_id_set_.cpp, Cdd_descr_set_.cpp, Align_annot_set_.cpp, Blast_def_line_set_.cpp, Blast4_parameters_.cpp, Blast4_get_sequences_reply_.cpp, Blast4_get_seq_parts_reply_.cpp, Blast4_get_programs_reply_.cpp, Blast4_get_paramsets_reply_.cpp, Blast4_get_parameter_reply_.cpp, Blast4_get_matrices_reply_.cpp, Blast4_get_databases_reply_.cpp, NodeSet_.cpp, NodeFeatureSet_.cpp, FeatureDictSet_.cpp, Title_.cpp, PubStatusDateSet_.cpp, ArticleIdSet_.cpp, PluginMessageChain_.cpp, PluginInfoSet_.cpp, PluginCache_.cpp, PluginArgSet_.cpp, Source_.cpp, ProcessingMethod_.cpp, IonSelection_.cpp, Detector_.cpp, Analyzer_.cpp, Additional_.cpp, Activation_.cpp, Gnomon_params_.cpp, serialimpl.hpp
• BEGIN_NAMED_CHOICE_INFO : Toupper_.cpp, Tolower_.cpp, Subs_.cpp, SubProvider_.cpp, Strip_.cpp, Rule_.cpp, Pad_.cpp, ObjectUrl_.cpp, ObjectList_.cpp, Normalize_.cpp, Link_.cpp, Apad_.cpp, Item_.cpp, ESummaryResult_.cpp, SpelledQuery_.cpp, TranslationStack_.cpp, ESearchResult_.cpp, LinkSetDbHistory_.cpp, LinkSetDb_.cpp, LinkSet_.cpp, IdUrlSet_.cpp, IdCheckList_.cpp, T3StatusFlags_.cpp, Seq_submit_.cpp, SeqTestResults_.cpp, ID2S_Chunk_Data_.cpp, ID2S_Bioseq_Ids_.cpp, Seq_graph_.cpp, Trna_ext_.cpp, RNA_ref_.cpp, OrgName_.cpp, Genetic_code_.cpp, Code_break_.cpp, SeqEdit_Cmd_ReplaceAnnot_.cpp, SeqEdit_Cmd_RemoveAnnot_.cpp, SeqEdit_Cmd_ChangeSetAttr_.cpp, SeqEdit_Cmd_ChangeSeqAttr_.cpp, SeqEdit_Cmd_AddAnnot_.cpp, Seq_align_.cpp, Score_.cpp, Seq_hist_.cpp, Seq_annot_.cpp, PC_InfoData_.cpp, PC_CompoundType_.cpp, PC_ResultType_.cpp, PC_AssaySubmit_.cpp, PC_AssayData_.cpp, Entrez_general_.cpp, Biostruc_seqs_aligns_cdd_.cpp, Region_pntrs_.cpp, Biostruc_feature_.cpp, Surface_coordinates_.cpp, Model_coordinate_set_.cpp, Biostruc_source_.cpp, ID2_Request_Get_Blob_Info_.cpp, ID2_Request_.cpp, ID2_Reply_.cpp, GC_Replicon_.cpp, User_field_.cpp, Maps_.cpp, SeqTree_node_.cpp, Title_.cpp, Id_pat_.cpp, Cit_art_.cpp, Auth_list_.cpp, ViewDescriptor_.cpp, ViewDataLink_.cpp, ProjectItem_.cpp, PluginArg_.cpp, DataHandleAction_.cpp, Filter_.cpp, ComponentList_.cpp, SupDataDesc_.cpp, SupDataArray_.cpp, SpectrumInstrument_.cpp, Spectrum_.cpp, Source_.cpp, SampleDescription_.cpp, ProcessingMethod_.cpp, IonSelection_.cpp, Detector_.cpp, Analyzer_.cpp, Additional_.cpp, Activation_.cpp, Acquisition_.cpp, Markov_chain_params_.cpp, Gnomon_param_.cpp, serialimpl.hpp
• BEGIN_NAMED_CLASS_INFO : Data_set_id_.cpp, Data_set_id_type_.cpp, Operand_.cpp, Url_.cpp, Subs_.cpp, SubProvider_.cpp, Strip_.cpp, Pad_.cpp, ObjectUrl_.cpp, IconUrl_.cpp, FileName_.cpp, Apad_.cpp, Item_.cpp, ESearchResult_.cpp, EPostResult_.cpp, LinkSet_.cpp, IdCheckList_.cpp, Id_.cpp, EHistoryItem_.cpp, SeqEdit_Cmd_ReplaceAnnot_.cpp, Seq_code_table_.cpp, ID2_Request_Get_Blob_Info_.cpp, GC_Scaf_stats_.cpp, Int_fuzz_.cpp, Ss_.cpp, RsStruct_.cpp, RsLinkout_.cpp, Rs_.cpp, PrimarySequence_.cpp, MapLoc_.cpp, FxnSet_.cpp, ExchangeSet_.cpp, Component_.cpp, BaseURL_.cpp, Assembly_.cpp, Assay_.cpp, SeqTree_node_.cpp, Affil_.cpp, VisualStudioProject_.cpp, Tool_.cpp, Platform_.cpp, Filter_.cpp, FileConfiguration_.cpp, File_.cpp, Configuration_.cpp, UserParam_.cpp, TargetList_.cpp, SpectrumList_.cpp, Spectrum_.cpp, SourceFileRefList_.cpp, SourceFileRef_.cpp, SourceFileList_.cpp, SourceFile_.cpp, Source_.cpp, SoftwareRef_.cpp, SoftwareParam_.cpp, SoftwareList_.cpp, Software_.cpp, SelectedIonList_.cpp, ScanWindowList_.cpp, Scan_.cpp, SampleList_.cpp, Sample_.cpp, Run_.cpp, ReferenceableParamGroupRef_.cpp, ReferenceableParamGroupLis_.cpp, ReferenceableParamGroup_.cpp, ProcessingMethod_.cpp, PrecursorList_.cpp, Precursor_.cpp, MzML_.cpp, InstrumentConfigurationLis_.cpp, InstrumentConfiguration_.cpp, Detector_.cpp, DataProcessingList_.cpp, DataProcessing_.cpp, CvParam_.cpp, CvList_.cpp, Cv_.cpp, ComponentList_.cpp, ChromatogramList_.cpp, Chromatogram_.cpp, BinaryDataArrayList_.cpp, BinaryDataArray_.cpp, Analyzer_.cpp, AcquisitionSettingsList_.cpp, AcquisitionSettings_.cpp, AcquisitionList_.cpp, Acquisition_.cpp, UserParam_.cpp, SupDesc_.cpp, SupDataDesc_.cpp, SupDataArrayBinary_.cpp, SupDataArray_.cpp, SpectrumList_.cpp, SpectrumInstrument_.cpp, Spectrum_.cpp, Software_.cpp, SampleDescription_.cpp, PrecursorList_.cpp, Precursor_.cpp, MzData_.cpp, Data_.cpp, CvParam_.cpp, CvLookup_.cpp, AnalyzerList_.cpp, Acquisition_.cpp, AcqSpecification_.cpp, Length_distribution_params_.cpp, Gnomon_param_.cpp, serialimpl.hpp
• BEGIN_NAMED_DERIVED_CLASS_INFO : serialimpl.hpp
• BEGIN_NAMED_ENUM_IN_INFO : Data_set_id_.cpp, Data_set_id_type_.cpp, Data_set_id_.cpp, Operand_.cpp, Url_.cpp, Strip_.cpp, Pad_.cpp, ObjectUrl_.cpp, IconUrl_.cpp, Apad_.cpp, Item_.cpp, Id_.cpp, ValidErrItem_.cpp, TSeq_.cpp, T3Error_.cpp, Taxon1_error_.cpp, Submit_block_.cpp, SeqTable_column_info_.cpp, Bioseq_set_.cpp, Txinit_.cpp, Tx_evidence_.cpp, TaxElement_.cpp, SubSource_.cpp, SeqFeatData_.cpp, Seq_feat_.cpp, RNA_ref_.cpp, Prot_ref_.cpp, OrgMod_.cpp, Gene_nomenclature_.cpp, Clone_seq_.cpp, Clone_ref_.cpp, Cdregion_.cpp, BioSource_.cpp, SeqEdit_Cmd_ResetSetAttr_.cpp, SeqEdit_Cmd_ResetSeqAttr_.cpp, SP_block_.cpp, EMBL_dbname_.cpp, EMBL_block_.cpp, Spliced_seg_.cpp, Seq_align_.cpp, Seq_inst_.cpp, Seq_gap_.cpp, Seq_annot_.cpp, Pubdesc_.cpp, Num_ref_.cpp, MolInfo_.cpp, Align_def_.cpp, BlockProperty_.cpp, PC_StereoTetrahedral_.cpp, PC_StereoSquarePlanar_.cpp, PC_StereoPlanar_.cpp, PC_StereoGroup_.cpp, PC_CompoundType_.cpp, PC_AtomRadical_.cpp, PC_ResultType_.cpp, PC_ConcentrationAttr_.cpp, PC_AssayTargetInfo_.cpp, PC_AssayResults_.cpp, PC_AssayPanelTestResult_.cpp, PC_AssayPanelMember_.cpp, PC_AssayDescription_.cpp, Biostruc_seqs_aligns_cdd_.cpp, Biostruc_feature_.cpp, Model_space_.cpp, Density_coordinates_.cpp, Residue_graph_.cpp, Intra_residue_bond_.cpp, Inter_residue_bond_.cpp, Chiral_center_.cpp, Biomol_descr_.cpp, Atom_.cpp, Mim_reference_.cpp, Mim_entry_.cpp, Medline_si_.cpp, Medline_rn_.cpp, Medline_field_.cpp, Medline_entry_.cpp, DocRef_.cpp, ID2_Request_Get_Seq_id_.cpp, ID2_Reply_Data_.cpp, ID2_Reply_.cpp, ID2_Param_.cpp, ID2_Get_Blob_Details_.cpp, ID2_Error_.cpp, ID2_Blob_Id_.cpp, HG_Node_id_.cpp, HG_Node_.cpp, Int_fuzz_.cpp, Maps_.cpp, Gene_track_.cpp, Gene_commentary_.cpp, Entrezgene_.cpp, Ss_.cpp, Rs_.cpp, PrimarySequence_.cpp, MapLoc_.cpp, FxnSet_.cpp, Component_.cpp, Assembly_.cpp, Assay_.cpp, Cn3d_backbone_label_style_.cpp, Update_align_.cpp, Domain_parent_.cpp, Cdd_Viewer_.cpp, Cdd_Script_.cpp, Cdd_descr_.cpp, Cdd_book_ref_.cpp, Algorithm_type_.cpp, Imprint_.cpp, CitRetract_.cpp, Cit_sub_.cpp, Cit_let_.cpp, Author_.cpp, PluginInfo_.cpp, PluginCommand_.cpp, GBenchVersionRequest_.cpp, Data_.cpp, AcqSpecification_.cpp, serialimpl.hpp
• BEGIN_NAMED_ENUM_INFO : Severity_level_.cpp, Na_strand_.cpp, Seq_code_type_.cpp, GIBB_mol_.cpp, GIBB_mod_.cpp, GIBB_method_.cpp, PC_UrnDataType_.cpp, PC_Element_.cpp, PC_CoordinateType_.cpp, PC_BondType_.cpp, PC_BondAnnotation_.cpp, MSZdependence_.cpp, MSUserAnnot_.cpp, MSSpectrumFileType_.cpp, MSSerialDataFormat_.cpp, MSSearchType_.cpp, MSResponseError_.cpp, MSModType_.cpp, MSMod_.cpp, MSIonType_.cpp, MSIonNeutralLoss_.cpp, MSIonIsotopicType_.cpp, MSHitError_.cpp, MSEnzymes_.cpp, MSCalcPlusOne_.cpp, MSCalcCharge_.cpp, Entrez_style_.cpp, Render_prop_.cpp, Model_type_.cpp, Title_type_.cpp, Error_val_.cpp, ID2_Blob_State_.cpp, Entry_complexities_.cpp, FeatMolType_.cpp, Entrez2_operator_.cpp, Entrez2_docsum_field_type_.cpp, Cn3d_drawing_style_.cpp, Cn3d_color_scheme_.cpp, Cn3d_backbone_type_.cpp, Blast_filter_program_.cpp, Blast4_strand_type_.cpp, Blast4_seqtech_.cpp, Blast4_result_types_.cpp, Blast4_residue_type_.cpp, Blast4_frame_type_.cpp, Blast4_error_flags_.cpp, Blast4_error_code_.cpp, PubStatus_.cpp, OS_Ver_.cpp, MessageStatus_.cpp, serialimpl.hpp
• BEGIN_NAMED_IMPLICIT_CLASS_INFO : serialimpl.hpp
• BEGIN_NCBI_SCOPE : ncbistl.hpp
• BEGIN_OBJECT_2FRAMES : objstack.hpp
• BEGIN_OBJECT_2FRAMES2 : objstack.hpp
• BEGIN_OBJECT_2FRAMES_OF : objstack.hpp
• BEGIN_OBJECT_2FRAMES_OF2 : objstack.hpp
• BEGIN_OBJECT_2FRAMES_OFx : objstack.hpp
• BEGIN_OBJECT_FRAME : objstack.hpp
• BEGIN_OBJECT_FRAME2 : objstack.hpp
• BEGIN_OBJECT_FRAME3 : objstack.hpp
• BEGIN_OBJECT_FRAME_OF : objstack.hpp
• BEGIN_OBJECT_FRAME_OF2 : objstack.hpp
• BEGIN_OBJECT_FRAME_OFx : objstack.hpp
• BEGIN_OLIGOFAR_SCOPE : scopes.hpp
• BEGIN_OLIGOFAR_SCOPES : scopes.hpp
• BEGIN_OMSSA_SCOPE : omssascore.hpp
• BEGIN_RELATION_PROPERTY_LIST : relation.hpp
• BEGIN_SCOPE : gene_panel.hpp, comment_panel.hpp, cds_protein_panel.hpp, cds_product_panel.hpp, gb_load_option_panel.hpp, omssascore.hpp, gff3_reader.hpp, bed_reader.hpp, uilist_module.hpp, Toupper_.hpp, Tolower_.hpp, Subs_.hpp, SubObjectSelector_.hpp, Strip_.hpp, RuleToMany_.hpp, Rule_.hpp, Provider_.hpp, Pad_.hpp, ObjectUrl_.hpp, ObjectSelector_.hpp, ObjectList_.hpp, Normalize_.hpp, LinkSet_.hpp, linkout_module.hpp, Link_.hpp, Apad_.hpp, Item_.hpp, ESummaryResult_.hpp, esummary_module.hpp, DocSum_.hpp, ESpellResult_.hpp, espell_module.hpp, TranslationStack_.hpp, TranslationSet_.hpp, ESearchResult_.hpp, esearch_module.hpp, EPostResult_.hpp, epost_module.hpp, Provider_.hpp, ObjUrl_.hpp, LinkSetDb_.hpp, LinkSet_.hpp, Link_.hpp, IdUrlSet_.hpp, IdUrlList_.hpp, IdList_.hpp, IdLinkSet_.hpp, IdCheckList_.hpp, ELinkResult_.hpp, elink_module.hpp, LinkList_.hpp, FieldList_.hpp, EInfoResult_.hpp, einfo_module.hpp, DbInfo_.hpp, EHistoryResult_.hpp, ehistory_module.hpp, Result_.hpp, EGQueryResult_.hpp, egquery_module.hpp, seqalign_exception.hpp, flat_file_text_item.hpp, flat_file_context.hpp, obj_fingerprint.hpp, memento.hpp, ui_data_source_service.hpp, project_task.hpp, project.hpp, obj_edit.hpp, obj_delete.hpp, data_mining_panel.hpp, cuSeqTreeAPI.hpp, cuCD.hpp, chainer.hpp, scopes.hpp, ncbistl.hpp
• BEGIN_STD_SCOPE : ncbistl.hpp
• BEGIN_TEST_FUNCTION : asniotest.cpp
• BEGIN_TYPE_INFO : serialimpl.hpp
• BEGIN_uilist_SCOPE : uilist_module.hpp, IdList_.hpp
• BeginDragOutsideEventFunction : dock_container.hpp
• BeginDragOutsideEventHandler : dock_container.hpp
• bEnd : bzip2recover.c
• BestRank_SeqIdHandle() : sequence.cpp
• BETWEEN : query_parser_bison.tab.c
• bgColor() : cav_alndisplay.cpp
• bi_flush() : trees.c
• bi_reverse() : trees.c
• bi_windup() : trees.c
• BigEndian : bmfunc.h
• BIGFREQ : blocksort.c
• BiggerBufferSize() : strbuffer.cpp
• BIGNEG : thrdatd.h
• Binary() : python_ncbi_dbapi.cpp
• BINARY : expr.hpp
• binary_to_result() : convert.c
• BINARYBIND : sybdb.h
• BinDistance() : cn3d_threader.cpp
• BinStrLR() : bmdbg.h
• BIOSEQ_HAS_ANNOT : sequence_macros.hpp
• BIOSEQ_HAS_DESCRIPTOR : sequence_macros.hpp
• BIOSEQ_HAS_SEQANNOT : sequence_macros.hpp
• BIOSEQ_HAS_SEQDESC : sequence_macros.hpp
• BIOSEQ_HAS_SEQID : sequence_macros.hpp
• BIOSEQ_TRACE : scope_info.cpp
• BioseqRefList : cn3d_cache.hpp
• BIOSOURCE_GENOME_Chs : sequence_macros.hpp
• BIOSOURCE_GENOME_IS : sequence_macros.hpp
• BIOSOURCE_GENOME_Test : sequence_macros.hpp
• BIOSOURCE_HAS_ORGMOD : sequence_macros.hpp
• BIOSOURCE_HAS_ORGNAME : sequence_macros.hpp
• BIOSOURCE_HAS_ORGREF : sequence_macros.hpp
• BIOSOURCE_HAS_SUBSOURCE : sequence_macros.hpp
• BIOSOURCE_ORIGIN_Chs : sequence_macros.hpp
• BIOSOURCE_ORIGIN_IS : sequence_macros.hpp
• BIOSOURCE_ORIGIN_Test : sequence_macros.hpp
• BioTreeAddFeatureToDictionary() : bio_tree_conv.hpp
• BioTreeConvert2Container() : bio_tree_conv.hpp
• BioTreeConvert2Dynamic() : bio_tree_conv.hpp
• BioTreeConvertContainer2Dynamic() : bio_tree_conv.hpp
• BisonSaveStageResult() : bdb_query_bison.tab.c
• bit_block_and() : bmfunc.h
• bit_block_and_any() : bmfunc.h
• bit_block_and_count() : bmfunc.h
• bit_block_any_range() : bmfunc.h
• bit_block_calc_count() : bmfunc.h
• bit_block_calc_count_change() : bmfunc.h
• bit_block_calc_count_range() : bmfunc.h
• bit_block_copy() : bmfunc.h
• bit_block_or() : bmfunc.h
• bit_block_or_any() : bmfunc.h
• bit_block_or_count() : bmfunc.h
• bit_block_set() : bmfunc.h
• bit_block_sub() : bmfunc.h
• bit_block_sub_any() : bmfunc.h
• bit_block_sub_count() : bmfunc.h
• bit_block_xor() : bmfunc.h
• bit_block_xor_any() : bmfunc.h
• bit_block_xor_count() : bmfunc.h
• BIT_COL_NAMES : snp_table_col_names.hpp
• bit_convert_to_arr() : bmfunc.h
• bit_convert_to_gap() : bmfunc.h
• bit_count_change() : bmfunc.h
• bit_count_nonzero_size() : bmfunc.h
• bit_find_in_block() : bmfunc.h
• bit_for_each() : bmfunc.h
• bit_for_each_4() : bmfunc.h
• bit_iblock_make_pcv() : bmtrans.h
• bit_iblock_pcv_stat() : bmtrans.h
• bit_iblock_reduce() : bmtrans.h
• bit_invert() : bmfunc.h
• bit_is_all_zero() : bmfunc.h
• bit_list() : bmfunc.h
• bit_list_4() : bmfunc.h
• bit_operation_and() : bmfunc.h
• bit_operation_and_any() : bmfunc.h
• bit_operation_and_count() : bmfunc.h
• bit_operation_count_func_type : bmfunc.h
• bit_operation_or() : bmfunc.h
• bit_operation_or_any() : bmfunc.h
• bit_operation_or_count() : bmfunc.h
• bit_operation_sub() : bmfunc.h
• bit_operation_sub_any() : bmfunc.h
• bit_operation_sub_count() : bmfunc.h
• bit_operation_sub_count_inv() : bmfunc.h
• bit_operation_xor() : bmfunc.h
• bit_operation_xor_any() : bmfunc.h
• bit_operation_xor_count() : bmfunc.h
• bit_recomb() : bmfunc.h
• bit_scan_fwd() : bmutil.h
• BIT_SCORE : cuGlobalDefs.hpp
• BIT_TYPE : snp_table_col_names.hpp
• BITBIND : sybdb.h
• bitcmp() : bmfunc.h
• BitCountChange() : stress.cpp
• BitCountChangeTest() : stress.cpp
• BitmapCharPtr : glutbitmap.h
• BitmapFontPtr : glutbitmap.h
• BITS : inflate.c, infback.c
• bits : maketree.c
• bits_in_array : bmconst.h
• bits_in_block : bmconst.h
• BITS_PER_NUC : blast_nalookup.c
• BitString() : asniotest.cpp
• BITSTRING_AS_VECTOR : serialbase.hpp
• BITVECT_SIZE : stress.cpp
• BL_CODES : deflate.h
• bl_order : trees.c
• BLAST2NA_MASK : blast_nalookup.c
• BLAST2NA_SIZE : blast_encoding.h
• Blast_AdjustScores() : composition_adjustment.c, composition_adjustment.h
• BLAST_AffineGreedyAlign() : greedy_align.c, greedy_align.h
• Blast_ApplyPseudocounts() : composition_adjustment.c, composition_adjustment.h
• BLAST_CalcEffLengths() : blast_setup.c, blast_setup.h
• Blast_CalcFreqRatios() : composition_adjustment.c, composition_adjustment.h
• Blast_CalcLambdaFullPrecision() : composition_adjustment.c, composition_adjustment.h
• Blast_CheckHSPsForCommonEndpoints() : blast_hits_priv.h
• BLAST_CheckRewardPenaltyScores() : blast_stat.c, blast_stat.h
• BLAST_CheckStartForGappedAlignment() : blast_traceback.c, blast_gapalign_priv.h
• Blast_ChooseMatrixAdjustRule() : compo_mode_condition.c, compo_mode_condition.h
• BLAST_CMP : blast_def.h
• Blast_CMT_LOCKInit() : blast_mtlock.cpp, blast_mtlock.hpp
• BLAST_ComplementMaskLocations() : blast_filter.c, blast_filter.h
• Blast_CompositionBasedStats() : composition_adjustment.c, composition_adjustment.h
• Blast_CompositionMatrixAdj() : composition_adjustment.c, composition_adjustment.h
• Blast_CompositionPvalue() : unified_pvalues.c, unified_pvalues.h
• Blast_CompositionWorkspaceFree() : composition_adjustment.c, composition_adjustment.h
• Blast_CompositionWorkspaceInit() : composition_adjustment.c, composition_adjustment.h
• Blast_CompositionWorkspaceNew() : composition_adjustment.c, composition_adjustment.h
• BLAST_ComputeLengthAdjustment() : blast_stat.c, blast_stat.h
• BLAST_ComputeTraceback() : blast_traceback.c, blast_traceback.h
• BLAST_ContextToFrame() : blast_util.c, blast_util.h
• BLAST_CreateMixedFrameDNATranslation() : blast_util.c, blast_util.h
• BLAST_Cutoffs() : blast_stat.c, blast_stat.h
• BLAST_DATABASE_ERROR : blast_app_util.hpp
• BLAST_DEFAULT_MATRIX : showalign.hpp, blast_options.h
• Blast_DiagnosticsFree() : blast_diagnostics.c, blast_diagnostics.h
• Blast_DiagnosticsInit() : blast_diagnostics.c, blast_diagnostics.h
• Blast_DiagnosticsInitMT() : blast_diagnostics.c, blast_diagnostics.h
• Blast_DiagnosticsUpdate() : blast_diagnostics.c, blast_diagnostics.h
• BLAST_ENGINE_ERROR : blast_app_util.hpp
• Blast_EntropyOldFreqNewContext() : composition_adjustment.c, composition_adjustment.h
• BLAST_EXIT_SUCCESS : blast_app_util.hpp
• BLAST_EXPECT_VALUE : blast_options.h
• BLAST_Expm1() : ncbi_math.c, ncbi_math.h
• Blast_ExtendWordExit() : blast_extend.c, blast_extend.h
• BLAST_Factorial() : ncbi_math.c, ncbi_math.h
• BLAST_FillEffectiveLengthsOptions() : blast_options.c, blast_options.h
• BLAST_FillExtensionOptions() : blast_options.c, blast_options.h
• BLAST_FillHitSavingOptions() : blast_options.c, blast_options.h
• BLAST_FillInitialWordOptions() : blast_options.c, blast_options.h
• BLAST_FillLookupTableOptions() : blast_options.c, blast_options.h
• BLAST_FillQuerySetUpOptions() : blast_options.c, blast_options.h
• Blast_FillResidueProbability() : blast_stat.c, blast_stat.h
• BLAST_FillScoringOptions() : blast_options.c, blast_options.h
• BLAST_FindBestNucleotideWordSize() : blast_tune.c, blast_tune.h
• Blast_FindDustFilterLoc() : dust_filter.cpp
• Blast_FindRepeatFilterLoc() : repeats_filter.hpp
• Blast_FindWindowMaskerLoc() : winmask_filter.cpp
• Blast_FindWindowMaskerLoc_Fwd() : winmask_filter.cpp
• Blast_FindWindowMaskerLocTaxId() : winmask_filter.cpp
• Blast_ForbiddenRangesClear() : smith_waterman.c, smith_waterman.h
• Blast_ForbiddenRangesInitialize() : smith_waterman.c, smith_waterman.h
• Blast_ForbiddenRangesPush() : smith_waterman.c, smith_waterman.h
• Blast_ForbiddenRangesRelease() : smith_waterman.c, smith_waterman.h
• BLAST_FrameToContext() : blast_util.c, blast_util.h
• Blast_FreqRatioToScore() : composition_adjustment.c, composition_adjustment.h
• Blast_FrequencyDataIsAvailable() : matrix_frequency_data.c, matrix_frequency_data.h
• BLAST_GAP_DECAY_RATE : blast_parameters.h
• BLAST_GAP_DECAY_RATE_GAPPED : blast_parameters.h
• BLAST_GAP_EXTN_MEGABLAST : blast_options.h
• BLAST_GAP_EXTN_NUCL : blast_options.h
• BLAST_GAP_EXTN_PROT : blast_options.h
• BLAST_GAP_OPEN_MEGABLAST : blast_options.h
• BLAST_GAP_OPEN_NUCL : blast_options.h
• BLAST_GAP_OPEN_PROT : blast_options.h
• BLAST_GAP_PROB : blast_parameters.h
• BLAST_GAP_PROB_GAPPED : blast_parameters.h
• BLAST_GAP_SIZE : blast_parameters.h
• BLAST_GAP_TRIGGER_NUCL : blast_options.h
• BLAST_GAP_TRIGGER_PROT : blast_options.h
• BLAST_GAP_X_DROPOFF_FINAL_NUCL : blast_options.h
• BLAST_GAP_X_DROPOFF_FINAL_PROT : blast_options.h
• BLAST_GAP_X_DROPOFF_FINAL_TBLASTX : blast_options.h
• BLAST_GAP_X_DROPOFF_GREEDY : blast_options.h
• BLAST_GAP_X_DROPOFF_NUCL : blast_options.h
• BLAST_GAP_X_DROPOFF_PROT : blast_options.h
• BLAST_GAP_X_DROPOFF_TBLASTX : blast_options.h
• BLAST_GapAlignSetUp() : blast_setup.c, blast_setup.h
• BLAST_GapAlignStructFree() : blast_gapalign.c, blast_gapalign.h
• BLAST_GapAlignStructNew() : blast_gapalign.c, blast_gapalign.h
• BLAST_GapDecayDivisor() : blast_stat.c, blast_stat.h
• BLAST_GappedAlignmentWithTraceback() : blast_gapalign.c, blast_gapalign.h
• BLAST_Gcd() : ncbi_math.c, ncbi_math.h
• BLAST_Gdb3() : ncbi_math.c, ncbi_math.h
• BLAST_GENETIC_CODE : blast_options.h
• BLAST_GetAllTranslations() : blast_util.c, blast_util.h
• BLAST_GetAlphaBeta() : blast_stat.c, blast_stat.h
• Blast_GetCompositionRange() : composition_adjustment.c, composition_adjustment.h
• BLAST_GetGappedScore() : blast_gapalign.c, blast_gapalign.h
• Blast_GetJointProbsForMatrix() : matrix_frequency_data.c, matrix_frequency_data.h
• Blast_GetMatrixBackgroundFreq() : matrix_frequency_data.c, matrix_frequency_data.h
• Blast_GetMatrixValues() : blast_stat.c
• Blast_GetNuclAlphaBeta() : blast_stat.c, blast_stat.h
• BLAST_GetNucleotideGapExistenceExtendParams() : blast_stat.c, blast_stat.h
• BLAST_GetNumberOfContexts() : blast_util.c, blast_util.h
• Blast_GetOneQueryStructs() : blast_query_info.c, blast_query_info.h
• Blast_GetPartialTranslation() : blast_util.c, blast_util.h
• BLAST_GetProteinGapExistenceExtendParams() : blast_stat.c, blast_stat.h
• Blast_GetQueryIndexFromContext() : blast_query_info.c, blast_query_info.h
• Blast_GetRelativeEntropy() : composition_adjustment.c, composition_adjustment.h
• Blast_GetSeqLocInfoVector() : blast_aux.hpp
• BLAST_GetStandardAaProbabilities() : blast_util.c, blast_util.h
• Blast_GetStdAlphabet() : blast_stat.c, blast_stat.h
• BLAST_GetSubjectTotals() : blast_setup.c, blast_setup.h
• BLAST_GetSuggestedThreshold() : blast_options.c, blast_options.h
• BLAST_GetSuggestedWindowSize() : blast_options.c, blast_options.h
• BLAST_GetTranslatedProteinLength() : blast_util.c, blast_util.h
• BLAST_GetTranslation() : blast_util.c, blast_util.h
• BLAST_GetUngappedHSPList() : blast_gapalign.c, blast_gapalign.h
• BLAST_GreedyAlign() : greedy_align.c, greedy_align.h
• BLAST_GreedyGappedAlignment() : blast_gapalign.c, blast_gapalign.h
• BLAST_HITLIST_SIZE : blast_options.h
• Blast_HitListFree() : blast_hits.c, blast_hits.h
• Blast_HitListHSPListsFree() : blast_hits.c, blast_hits.h
• Blast_HitListMerge() : blast_hits.c, blast_hits.h
• Blast_HitListNew() : blast_hits.c, blast_hits.h
• Blast_HitListPurgeNullHSPLists() : blast_hits.c, blast_hits.h
• Blast_HitListUpdate() : blast_hits.c, blast_hits.h
• Blast_HSPAdjustSubjectOffset() : blast_hits.c, blast_hits.h
• Blast_HSPCalcLengthAndGaps() : blast_hits.c, blast_hits.h
• Blast_HSPFree() : blast_hits.c, blast_hits.h
• Blast_HSPGetAdjustedOffsets() : blast_hits.c, blast_hits.h
• Blast_HSPGetNumIdentities() : blast_hits.c, blast_hits.h
• Blast_HSPGetPartialSubjectTranslation() : blast_hits.c, blast_hits.h
• Blast_HSPGetTargetTranslation() : blast_hits.c, blast_hits.h
• Blast_HSPInit() : blast_hits.c, blast_hits.h
• Blast_HSPList_IsEmpty() : blast_hits.c, blast_hits.h
• Blast_HSPListAdjustOddBlastnScores() : blast_hits.c, blast_hits.h
• Blast_HSPListAdjustOffsets() : blast_hits.c, blast_hits.h
• Blast_HSPListAppend() : blast_hits.c, blast_hits.h
• Blast_HSPListCQueueInit() : hspstream_queue.hpp
• Blast_HSPListFree() : blast_hits.c, blast_hits.h
• Blast_HSPListGetBitScores() : blast_hits.c, blast_hits.h
• Blast_HSPListGetEvalues() : blast_hits.c, blast_hits.h
• Blast_HSPListIsSortedByScore() : blast_hits.c, blast_hits.h
• Blast_HSPListNew() : blast_hits.c, blast_hits.h
• Blast_HSPListPHIGetBitScores() : blast_hits.c, blast_hits.h
• Blast_HSPListPHIGetEvalues() : blast_hits.c, blast_hits.h
• Blast_HSPListPurgeHSPsWithCommonEndpoints() : blast_hits.c, blast_hits.h
• Blast_HSPListPurgeNullHSPs() : blast_hits.c, blast_hits.h
• Blast_HSPListReapByEvalue() : blast_hits.c, blast_hits.h
• Blast_HSPListReevaluateWithAmbiguitiesUngapped() : blast_hits.c, blast_hits.h
• Blast_HSPListSaveHSP() : blast_hits.c, blast_hits.h
• Blast_HSPListsMerge() : blast_hits.c, blast_hits.h
• Blast_HSPListSortByEvalue() : blast_hits.c, blast_hits.h
• Blast_HSPListSortByScore() : blast_hits.c, blast_hits.h
• Blast_HSPListSwap() : blast_hits.c, blast_hits.h
• Blast_HSPNew() : blast_hits.c, blast_hits.h
• Blast_HSPReevaluateWithAmbiguitiesGapped() : blast_hits.c, blast_hits.h
• Blast_HSPReevaluateWithAmbiguitiesUngapped() : blast_hits.c, blast_hits.h
• Blast_HSPResultsFree() : blast_hits.c, blast_hits.h
• Blast_HSPResultsFromHSPStream() : blast_hits.c, blast_hits.h
• Blast_HSPResultsFromHSPStreamWithLimit() : blast_hits.c, blast_hits.h
• Blast_HSPResultsInsertHSPList() : blast_hits.c, blast_hits.h
• Blast_HSPResultsNew() : blast_hits.c, blast_hits.h
• Blast_HSPResultsPerformCulling() : blast_hits.c, blast_hits.h
• Blast_HSPResultsReverseOrder() : blast_hits.c, blast_hits.h
• Blast_HSPResultsReverseSort() : blast_hits.c, blast_hits.h
• Blast_HSPResultsSortByEvalue() : blast_hits.c, blast_hits.h
• Blast_HSPStreamResultBatchFree() : blast_hspstream.c, blast_hspstream.h
• Blast_HSPStreamResultBatchInit() : blast_hspstream.c, blast_hspstream.h
• Blast_HSPStreamResultBatchReset() : blast_hspstream.c, blast_hspstream.h
• Blast_HSPTestIdentityAndLength() : blast_hits.c, blast_hits.h
• Blast_HSPUpdateWithTraceback() : blast_traceback.c, blast_traceback.h
• BLAST_InitDefaultOptions() : blast_options.c, blast_options.h
• BLAST_InitHitListFree() : blast_extend.c, blast_extend.h
• Blast_InitHitListIsSortedByScore() : blast_extend.c, blast_extend.h
• BLAST_InitHitListNew() : blast_extend.c, blast_extend.h
• Blast_InitHitListSortByScore() : blast_extend.c, blast_extend.h
• BLAST_INPUT_ERROR : blast_app_util.hpp
• Blast_Int4MatrixFromFreq() : composition_adjustment.c, composition_adjustment.h
• Blast_IntervalTreeFree() : blast_itree.h, blast_itree.c
• Blast_IntervalTreeInit() : blast_itree.h, blast_itree.c
• Blast_IntervalTreeReset() : blast_itree.h, blast_itree.c
• BLAST_KARLIN_K_ITER_MAX : blast_stat.c
• BLAST_KARLIN_K_SUMLIMIT_DEFAULT : blast_stat.c
• BLAST_KARLIN_LAMBDA0_DEFAULT : blast_stat.c
• BLAST_KARLIN_LAMBDA_ACCURACY_DEFAULT : blast_stat.c
• BLAST_KARLIN_LAMBDA_ITER_DEFAULT : blast_stat.c
• Blast_KarlinBlkCopy() : blast_stat.c, blast_stat.h
• Blast_KarlinBlkFree() : blast_stat.c, blast_stat.h
• Blast_KarlinBlkGappedCalc() : blast_stat.c, blast_stat.h
• Blast_KarlinBlkGappedLoadFromTables() : blast_stat.c, blast_stat.h
• Blast_KarlinBlkNew() : blast_stat.c, blast_stat.h
• Blast_KarlinBlkNuclGappedCalc() : blast_stat.c, blast_stat.h
• Blast_KarlinBlkUngappedCalc() : blast_stat.c, blast_stat.h
• BLAST_KarlinEtoP() : blast_stat.c, blast_stat.h
• Blast_KarlinLambdaNR() : blast_stat.c, blast_stat.h
• BLAST_KarlinPtoE() : blast_stat.c, blast_stat.h
• BLAST_KarlinStoE_simple() : blast_stat.c, blast_stat.h
• BLAST_LargeGapSumE() : blast_stat.c, blast_stat.h
• BLAST_LinkHsps() : link_hsps.c, link_hsps.h
• BLAST_LnFactorial() : ncbi_math.c, ncbi_math.h
• BLAST_LnGammaInt() : ncbi_math.c, ncbi_math.h
• BLAST_Log1p() : ncbi_math.c, ncbi_math.h
• BLAST_MainSetUp() : blast_setup.c, blast_setup.h
• Blast_MaskTheResidues() : blast_filter.c, blast_filter.h
• Blast_MaskUnsupportedAA() : blast_filter.c, blast_filter.h
• BLAST_MATRIX_BEST : blast_stat.h
• BLAST_MATRIX_NOMINAL : blast_stat.h
• BLAST_MATRIX_PREFERRED : blast_stat.h
• Blast_MatrixEntropy() : composition_adjustment.c, composition_adjustment.h
• Blast_MatrixInfoFree() : composition_adjustment.c, composition_adjustment.h
• Blast_MatrixInfoNew() : composition_adjustment.c, composition_adjustment.h
• Blast_Message2TSearchMessages() : blast_aux_priv.cpp
• Blast_MessageFree() : blast_message.c, blast_message.h
• Blast_MessagePost() : blast_message.c, blast_message.h
• Blast_MessageWrite() : blast_message.c, blast_message.h
• BLAST_Nint() : ncbi_math.c, ncbi_math.h
• BLAST_NUM_STAT_VALUES : blast_stat.c
• BLAST_OneSubjectUpdateParameters() : blast_setup.c, blast_setup.h
• Blast_OptimizeTargetFrequencies() : optimize_target_freq.c, optimize_target_freq.h
• Blast_Overall_P_Value() : unified_pvalues.c, unified_pvalues.h
• BLAST_OVERLAP_SIZE : blast_parameters.h
• BLAST_PackDNA() : blast_util.c, blast_util.h
• BLAST_PENALTY : blast_options.h
• Blast_Perror() : blast_message.c, blast_message.h
• Blast_PerrorEx() : blast_message.c, blast_message.h
• Blast_PerrorWithLocation : blast_message.h
• BLAST_Powi() : ncbi_math.c, ncbi_math.h
• Blast_PrelimEditBlockToGapEditScript() : blast_gapalign_priv.h, blast_gapalign.c
• BLAST_PreliminarySearchEngine() : blast_engine.c, blast_engine.h
• BLAST_PrintAllowedValues() : blast_stat.c, blast_stat.h
• BLAST_PrintMatrixMessage() : blast_stat.c, blast_stat.h
• Blast_ProgramIsPhiBlast() : blast_program.c, blast_program.h
• Blast_ProgramIsPsiBlast() : blast_program.c, blast_program.h
• Blast_ProgramIsRpsBlast() : blast_program.c, blast_program.h
• Blast_ProgramIsValid() : blast_program.c, blast_program.h
• Blast_ProgramNameFromType() : blast_aux.hpp
• Blast_QueryIsNucleotide() : blast_program.c, blast_program.h
• Blast_QueryIsProtein() : blast_program.c, blast_program.h
• Blast_QueryIsPssm() : blast_program.c, blast_program.h
• Blast_QueryIsTranslated() : blast_program.c, blast_program.h
• Blast_ReadAaComposition() : composition_adjustment.c, composition_adjustment.h
• Blast_RedoAlignmentCore() : blast_kappa.c, blast_kappa.h
• Blast_RedoAlignParamsFree() : redo_alignment.c, redo_alignment.h
• Blast_RedoAlignParamsNew() : redo_alignment.c, redo_alignment.h
• Blast_RedoOneMatch() : redo_alignment.c, redo_alignment.h
• Blast_RedoOneMatchSmithWaterman() : redo_alignment.c, redo_alignment.h
• Blast_ResFreqClr() : blast_stat.c
• Blast_ResFreqFree() : blast_stat.c, blast_stat.h
• Blast_ResFreqNew() : blast_stat.c, blast_stat.h
• Blast_ResFreqNormalize() : blast_stat.c
• Blast_ResFreqResComp() : blast_stat.c
• Blast_ResFreqStdComp() : blast_stat.c, blast_stat.h
• Blast_ResFreqString() : blast_stat.c
• BLAST_REWARD : blast_options.h
• BLAST_RombergIntegrate() : ncbi_math.c, ncbi_math.h
• Blast_RunFullSearch() : blast_engine.c, blast_engine.h
• Blast_RunPreliminarySearch() : blast_engine.c, blast_engine.h
• Blast_RunTracebackSearch() : blast_traceback.c, blast_traceback.h
• BLAST_SaveInitialHit() : blast_extend.c, blast_extend.h
• BLAST_SCAN_RANGE_NUCL : blast_options.h
• BLAST_SCORE_MAX : blast_stat.h
• BLAST_SCORE_MIN : blast_stat.h
• BLAST_SCORE_RANGE_MAX : blast_stat.c
• Blast_ScoreBlkKbpGappedCalc() : blast_setup.c, blast_setup.h
• Blast_ScoreBlkKbpIdealCalc() : blast_stat.c, blast_stat.h
• Blast_ScoreBlkKbpUngappedCalc() : blast_stat.c, blast_stat.h
• Blast_ScoreBlkMatrixFill() : blast_stat.c, blast_stat.h
• Blast_ScoreBlkMatrixInit() : blast_setup.c, blast_setup.h
• Blast_ScoreFreqFree() : blast_stat.c, blast_stat.h
• Blast_ScoreFreqNew() : blast_stat.c, blast_stat.h
• BLAST_ScoreSetAmbigRes() : blast_stat.c, blast_stat.h
• Blast_SemiGappedAlign() : blast_gapalign_priv.h, blast_gapalign.c
• BLAST_SEQSRC_EOF : blast_seqsrc.h
• BLAST_SEQSRC_ERROR : blast_seqsrc.h
• BLAST_SEQSRC_SUCCESS : blast_seqsrc.h
• Blast_SetPHIPatternInfo() : blast_setup.c, blast_setup.h
• BLAST_SmallGapSumE() : blast_stat.c, blast_stat.h
• Blast_SmithWatermanFindStart() : smith_waterman.c, smith_waterman.h
• BLAST_SmithWatermanGetGappedScore() : blast_sw.c, blast_sw.h
• Blast_SmithWatermanScoreOnly() : smith_waterman.c, smith_waterman.h
• BLAST_StrToUpper() : blast_util.c, blast_util.h
• Blast_SubjectIsNucleotide() : blast_program.c, blast_program.h
• Blast_SubjectIsProtein() : blast_program.c, blast_program.h
• Blast_SubjectIsPssm() : blast_program.c, blast_program.h
• Blast_SubjectIsTranslated() : blast_program.c, blast_program.h
• Blast_TargetFreqEntropy() : composition_adjustment.c, composition_adjustment.h
• Blast_TracebackFromHSPList() : blast_traceback.c, blast_traceback.h
• Blast_TracebackGetEncoding() : blast_traceback.c, blast_traceback.h
• BLAST_TranslateCompressedSequence() : blast_util.c, blast_util.h
• Blast_TrueAaToStdTargetFreqs() : composition_adjustment.c, composition_adjustment.h
• BLAST_UnevenGapSumE() : blast_stat.c, blast_stat.h
• BLAST_UNGAPPED_X_DROPOFF_NUCL : blast_options.h
• BLAST_UNGAPPED_X_DROPOFF_PROT : blast_options.h
• Blast_UngappedStatsUpdate() : blast_diagnostics.c, blast_diagnostics.h
• BLAST_UNKNOWN_ERROR : blast_app_util.hpp
• BLAST_ValidateOptions() : blast_options.c, blast_options.h
• BLAST_WINDOW_SIZE_DISC : blast_options.h
• BLAST_WINDOW_SIZE_MEGABLAST : blast_options.h
• BLAST_WINDOW_SIZE_NUCL : blast_options.h
• BLAST_WINDOW_SIZE_PROT : blast_options.h
• BLAST_WORD_THRESHOLD_BLASTN : blast_options.h
• BLAST_WORD_THRESHOLD_BLASTP : blast_options.h
• BLAST_WORD_THRESHOLD_BLASTX : blast_options.h
• BLAST_WORD_THRESHOLD_MEGABLAST : blast_options.h
• BLAST_WORD_THRESHOLD_TBLASTN : blast_options.h
• BLAST_WORD_THRESHOLD_TBLASTX : blast_options.h
• BLAST_WORDSIZE_MEGABLAST : blast_options.h
• BLAST_WORDSIZE_NUCL : blast_options.h
• BLAST_WORDSIZE_PROT : blast_options.h
• BLASTAA_SEQ_CODE : blast_encoding.h
• BLASTAA_SIZE : blast_encoding.h
• BlastAaLookupFinalize() : blast_aalookup.c, blast_aalookup.h
• BlastAaLookupIndexQuery() : blast_aalookup.c, blast_aalookup.h
• BlastAaLookupTableDestruct() : blast_aalookup.c, blast_aalookup.h
• BlastAaLookupTableNew() : blast_aalookup.c, blast_aalookup.h
• BlastAaWordFinder() : aa_ungapped.c, aa_ungapped.h
• BlastBuildSearchResultSet() : blast_aux_priv.cpp
• BlastChooseNaExtend() : na_ungapped.c, na_ungapped.h
• BlastChooseNaLookupTable() : blast_nalookup.c, blast_nalookup.h
• BlastChooseNucleotideScanSubject() : blast_nascan.c, blast_nascan.h
• BlastChooseNucleotideScanSubjectAny() : blast_nascan.c, blast_nascan.h
• BlastChooseProteinScanSubject() : blast_aascan.c, blast_aascan.h
• BlastCompo_AlignmentNew() : redo_alignment.c, redo_alignment.h
• BlastCompo_AlignmentsFree() : redo_alignment.c, redo_alignment.h
• BlastCompo_EarlyTermination() : redo_alignment.c, redo_alignment.h
• BlastCompo_HeapFilledToCutoff() : compo_heap.c, compo_heap.h
• BlastCompo_HeapInitialize() : compo_heap.c, compo_heap.h
• BlastCompo_HeapInsert() : compo_heap.c, compo_heap.h
• BlastCompo_HeapPop() : compo_heap.c, compo_heap.h
• BlastCompo_HeapRelease() : compo_heap.c, compo_heap.h
• BlastCompo_HeapWouldInsert() : compo_heap.c, compo_heap.h
• BlastCompressBlastnaSequence() : blast_util.c, blast_util.h
• BlastCompressedAaLookupTableDestruct() : blast_aalookup.c, blast_aalookup.h
• BlastCompressedAaLookupTableNew() : blast_aalookup.c, blast_aalookup.h
• BlastDatabase : cuCdUpdateParameters.hpp
• BlastDatabaseNames : cuCdUpdateParameters.cpp, cuCdUpdateParameters.hpp
• BlastDatabaseOptionsFree() : blast_options.c, blast_options.h
• BlastDatabaseOptionsNew() : blast_options.c, blast_options.h
• BlastDbFileExists() : blast_setup_cxx.cpp
• BlastEffectiveLengthsOptions_IsSearchSpaceSet() : blast_options.c, blast_options.h
• BlastEffectiveLengthsOptionsFree() : blast_options.c, blast_options.h
• BlastEffectiveLengthsOptionsNew() : blast_options.c, blast_options.h
• BlastEffectiveLengthsParametersFree() : blast_parameters.c, blast_parameters.h
• BlastEffectiveLengthsParametersNew() : blast_parameters.c, blast_parameters.h
• BLASTERR_IDEALSTATPARAMCALC : blast_message.h
• BLASTERR_INTERRUPTED : blast_message.h
• BLASTERR_INVALIDPARAM : blast_message.h
• BLASTERR_INVALIDQUERIES : blast_message.h
• BLASTERR_MEMORY : blast_message.h
• BLASTERR_OPTION_PROGRAM_INVALID : blast_message.h
• BLASTERR_OPTION_VALUE_INVALID : blast_message.h
• BLASTERR_REDOALIGNMENTCORE_NOTSUPPORTED : blast_message.h
• BlastErrorCode2String() : blast_aux_priv.cpp
• BlastExtendWordFree() : blast_extend.c, blast_extend.h
• BlastExtendWordNew() : blast_extend.c, blast_extend.h
• BlastExtensionOptionsFree() : blast_options.c, blast_options.h
• BlastExtensionOptionsNew() : blast_options.c, blast_options.h
• BlastExtensionOptionsValidate() : blast_options.c, blast_options.h
• BlastExtensionParametersFree() : blast_parameters.c, blast_parameters.h
• BlastExtensionParametersNew() : blast_parameters.c, blast_parameters.h
• BlastFilteringOptionsFromString() : blast_filter.c, blast_filter.h
• BlastFilteringOptionsToString() : blast_filter.c, blast_filter.h
• BlastFindMatrixPath() : blast_setup.hpp
• BlastGetGappedScoreType : blast_engine.h
• BlastGetStartForGappedAlignment() : blast_gapalign.c, blast_gapalign.h
• BlastHitList2SeqAlign_OMF() : blast_seqalign.cpp
• BlastHitSavingOptionsFree() : blast_options.c, blast_options.h
• BlastHitSavingOptionsNew() : blast_options.c, blast_options.h
• BlastHitSavingOptionsValidate() : blast_options.c, blast_options.h
• BlastHitSavingParametersFree() : blast_parameters.c, blast_parameters.h
• BlastHitSavingParametersNew() : blast_parameters.c, blast_parameters.h
• BlastHitSavingParametersUpdate() : blast_parameters.c, blast_parameters.h
• BlastHSPBestHitInfoNew() : hspfilter_besthit.c, hspfilter_besthit.h
• BlastHSPBestHitOptionsFree() : blast_options.c, blast_options.h
• BlastHSPBestHitOptionsNew() : blast_options.c, blast_options.h
• BlastHSPBestHitOptionsValidate() : blast_options.c, blast_options.h
• BlastHSPBestHitParamsFree() : hspfilter_besthit.c, hspfilter_besthit.h
• BlastHSPBestHitParamsNew() : hspfilter_besthit.c, hspfilter_besthit.h
• BlastHSPBestHitPipeInfoNew() : hspfilter_besthit.c, hspfilter_besthit.h
• BlastHSPCollectorInfoNew() : hspfilter_collector.c, hspfilter_collector.h
• BlastHSPCollectorParamsFree() : hspfilter_collector.c, hspfilter_collector.h
• BlastHSPCollectorParamsNew() : hspfilter_collector.c, hspfilter_collector.h
• BlastHSPCullingInfoNew() : hspfilter_culling.c, hspfilter_culling.h
• BlastHSPCullingOptionsFree() : blast_options.c, blast_options.h
• BlastHSPCullingOptionsNew() : blast_options.c, blast_options.h
• BlastHSPCullingOptionsValidate() : blast_options.c, blast_options.h
• BlastHSPCullingParamsFree() : hspfilter_culling.c, hspfilter_culling.h
• BlastHSPCullingParamsNew() : hspfilter_culling.c, hspfilter_culling.h
• BlastHSPCullingPipeInfoNew() : hspfilter_culling.c, hspfilter_culling.h
• BlastHSPFilteringOptions_AddBestHit() : blast_options.c, blast_options.h
• BlastHSPFilteringOptions_AddCulling() : blast_options.c, blast_options.h
• BlastHSPFilteringOptionsFree() : blast_options.c, blast_options.h
• BlastHSPFilteringOptionsNew() : blast_options.c, blast_options.h
• BlastHSPFilteringOptionsValidate() : blast_options.c, blast_options.h
• BlastHSPListDup() : blast_hits.c, blast_hits.h
• BLASTHspListToSeqAlign() : blast_seqalign.cpp
• BlastHspNumMax() : blast_hits.c, blast_hits.h
• BlastHSPPipe : blast_hspfilter.h
• BlastHSPPipeFreeFn : blast_hspfilter.h
• BlastHSPPipeInfo_Add() : blast_hspstream.c, blast_hspfilter.h
• BlastHSPPipeNew() : blast_hspstream.c, blast_hspfilter.h
• BlastHSPPipeNewFn : blast_hspfilter.h
• BlastHSPPipeRunFn : blast_hspfilter.h
• BlastHSPStreamBatchRead() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamClose() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamFree() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamMerge() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamNew() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamRead() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamRegisterMTLock() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamRegisterPipe() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamTBackClose() : blast_hspstream.c, blast_hspstream.h
• BlastHSPStreamWrite() : blast_hspstream.c, blast_hspstream.h
• BlastHSPWriter : blast_hspfilter.h
• BlastHSPWriterFinalFn : blast_hspfilter.h
• BlastHSPWriterFreeFn : blast_hspfilter.h
• BlastHSPWriterInitFn : blast_hspfilter.h
• BlastHSPWriterNew() : blast_hspstream.c, blast_hspfilter.h
• BlastHSPWriterNewFn : blast_hspfilter.h
• BlastHSPWriterRunFn : blast_hspfilter.h
• BlastInitHitListMove() : blast_extend.c, blast_extend.h
• BlastInitHitListReset() : blast_extend.c, blast_extend.h
• BlastInitialWordOptionsFree() : blast_options.c, blast_options.h
• BlastInitialWordOptionsNew() : blast_options.c, blast_options.h
• BlastInitialWordOptionsValidate() : blast_options.c, blast_options.h
• BlastInitialWordParametersFree() : blast_parameters.c, blast_parameters.h
• BlastInitialWordParametersNew() : blast_parameters.c, blast_parameters.h
• BlastInitialWordParametersUpdate() : blast_parameters.c, blast_parameters.h
• BlastIntervalTreeAddHSP() : blast_itree.h, blast_itree.c
• BlastIntervalTreeContainsHSP() : blast_itree.h, blast_itree.c
• BlastIntervalTreeNumRedundant() : blast_itree.h, blast_itree.c
• BlastIsReverseStrand() : blast_filter.h
• BlastKarlinEtoS_simple() : blast_stat.c
• BlastKarlinLHtoK() : blast_stat.c
• BlastKarlinLtoH() : blast_stat.c
• BlastKarlinReportAllowedValues() : blast_stat.c
• BlastLinkHSPParametersFree() : blast_parameters.c, blast_parameters.h
• BlastLinkHSPParametersNew() : blast_parameters.c, blast_parameters.h
• BlastLinkHSPParametersUpdate() : blast_parameters.c, blast_parameters.h
• BlastLoadMatrixValues() : blast_stat.c
• BlastLockCleanup() : blast_mtlock.cpp
• BlastLockHandler() : blast_mtlock.cpp
• BlastLookupAddWordHit() : blast_lookup.c, blast_lookup.h
• BlastLookupIndexQueryExactMatches() : blast_lookup.c, blast_lookup.h
• BlastMaskLocDNAToProtein() : blast_filter.c, blast_filter.h
• BlastMaskLocDup() : blast_filter.c, blast_filter.h
• BlastMaskLocFree() : blast_filter.c, blast_filter.h
• BlastMaskLocNew() : blast_filter.c, blast_filter.h
• BlastMaskLocProteinToDNA() : blast_filter.c, blast_filter.h
• BLASTMAT_DIR : blast_stat.h
• BlastMatrixValuesDestruct() : blast_stat.c
• BlastMBLookupTableDestruct() : blast_nalookup.c, blast_nalookup.h
• BlastMBLookupTableNew() : blast_nalookup.c, blast_nalookup.h
• BlastMemDup() : ncbi_std.c, ncbi_std.h
• blastn_values_1_1 : blast_stat.c
• blastn_values_1_2 : blast_stat.c
• blastn_values_1_3 : blast_stat.c
• blastn_values_1_4 : blast_stat.c
• blastn_values_1_5 : blast_stat.c
• blastn_values_2_3 : blast_stat.c
• blastn_values_2_5 : blast_stat.c
• blastn_values_2_7 : blast_stat.c
• blastn_values_3_2 : blast_stat.c
• blastn_values_3_4 : blast_stat.c
• blastn_values_4_5 : blast_stat.c
• blastn_values_5_4 : blast_stat.c
• BLASTNA_SEQ_CODE : blast_encoding.h
• BLASTNA_SIZE : blast_encoding.h
• BLASTNA_TO_IUPACNA : blast_encoding.c, blast_encoding.h
• BLASTNA_TO_NCBI4NA : blast_encoding.c, blast_encoding.h
• BlastNaLookupTableDestruct() : blast_nalookup.c, blast_nalookup.h
• BlastNaLookupTableNew() : blast_nalookup.c, blast_nalookup.h
• BlastNaWordFinder() : na_ungapped.c, na_ungapped.h
• BlastNumber2Program() : blast_util.c, blast_util.h
• BLASTOPTIONS_BUFFER_SIZE : blast_filter.c
• BLASTP_MASK_INSTRUCTIONS : blast_kappa.c
• BLASTP_MASK_RESIDUE : blast_kappa.c
• BlastProgram2Number() : blast_util.c, blast_util.h
• BlastQueryInfoDup() : blast_query_info.c, blast_query_info.h
• BlastQueryInfoFree() : blast_query_info.c, blast_query_info.h
• BlastQueryInfoGetEffSearchSpace() : blast_query_info.c, blast_query_info.h
• BlastQueryInfoGetQueryLength() : blast_query_info.c, blast_query_info.h
• BlastQueryInfoNew() : blast_query_info.c, blast_query_info.h
• BlastQueryInfoSetEffSearchSpace() : blast_query_info.c, blast_query_info.h
• BlastQuerySetUpOptionsFree() : blast_options.c, blast_options.h
• BlastQuerySetUpOptionsNew() : blast_options.c, blast_options.h
• BlastResCompDestruct() : blast_stat.c
• BlastResCompNew() : blast_stat.c
• BlastResCompStr() : blast_stat.c
• BlastRPSScanSubject() : blast_aascan.c, blast_aascan.h
• BlastRPSWordFinder() : aa_ungapped.c, aa_ungapped.h
• BlastSaveInitHsp() : blast_extend.c, blast_extend.h
• BlastScoreBlkCheck() : blast_stat.c, blast_stat.h
• BlastScoreBlkFree() : blast_stat.c, blast_stat.h
• BlastScoreBlkGetCompiledInMatrix() : blast_stat.h
• BlastScoreBlkMaxScoreSet() : blast_stat.c
• BlastScoreBlkNew() : blast_stat.c, blast_stat.h
• BlastScoreBlkNuclMatrixCreate() : blast_stat.c, blast_stat.h
• BlastScoreBlkProteinMatrixLoad() : blast_stat.c
• BlastScoreBlkProteinMatrixRead() : blast_stat.c
• BlastScoreChk() : blast_stat.c
• BlastScoreFreqCalc() : blast_stat.c
• BlastScoringOptionsDup() : blast_options.c, blast_options.h
• BlastScoringOptionsFree() : blast_options.c, blast_options.h
• BlastScoringOptionsNew() : blast_options.c, blast_options.h
• BlastScoringOptionsSetMatrix() : blast_options.c, blast_options.h
• BlastScoringOptionsValidate() : blast_options.c, blast_options.h
• BlastScoringParametersFree() : blast_parameters.c, blast_parameters.h
• BlastScoringParametersNew() : blast_parameters.c, blast_parameters.h
• BlastSeqAlignSetConvert() : seqalign_set_convert.cpp
• BlastSeqBlkNew() : blast_util.c, blast_util.h
• BlastSeqBlkSetCompressedSequence() : blast_util.c, blast_util.h
• BlastSeqBlkSetSeqRanges() : blast_util.c, blast_util.h
• BlastSeqBlkSetSequence() : blast_util.c, blast_util.h
• BlastSeqLoc_RestrictToInterval() : blast_setup.c, blast_setup.h
• BlastSeqLocAppend() : blast_filter.c, blast_filter.h
• BlastSeqLocCombine() : blast_filter.c, blast_filter.h
• BlastSeqLocFree() : blast_filter.c, blast_filter.h
• BlastSeqLocListDup() : blast_filter.c, blast_filter.h
• BlastSeqLocListReverse() : blastfilter_unit_test.cpp, blast_filter.c
• BlastSeqLocNew() : blast_filter.c, blast_filter.h
• BlastSeqLocNodeFree() : blast_filter.c, blast_filter.h
• BlastSeqLocReverse() : blast_filter.c, blast_filter.h
• BlastSeqSrc : blast_seqsrc.h
• BlastSeqSrcConstructor : blast_seqsrc_impl.h
• BlastSeqSrcCopier : blast_seqsrc_impl.h
• BlastSeqSrcCopy() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcDestructor : blast_seqsrc_impl.h
• BlastSeqSrcFree() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetAvgSeqLen() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetInitError() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetIsProt() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetMaxSeqLen() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetName() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetNumSeqs() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetNumSeqsStats() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetSeqLen() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetSequence() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetTotLen() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcGetTotLenStats() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcIterator : blast_seqsrc.h
• BlastSeqSrcIteratorFree() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcIteratorNew() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcIteratorNewEx() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcIteratorNext() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcItrType : blast_seqsrc_impl.h
• BlastSeqSrcNew() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcNewInfo : blast_seqsrc.h
• BlastSeqSrcReleaseSequence() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcResetChunkIterator() : blast_seqsrc.c, blast_seqsrc.h
• BlastSeqSrcSetNumberOfThreads() : blast_seqsrc.c, blast_seqsrc.h
• BlastSequenceBlkClean() : blast_util.c, blast_util.h
• BlastSequenceBlkCopy() : blast_util.c, blast_util.h
• BlastSequenceBlkFree() : blast_util.c, blast_util.h
• BlastSetUp_Filter() : blast_filter.c, blast_filter.h
• BlastSetUp_GetFilteringLocations() : blast_filter.c, blast_filter.h
• BlastSetup_GetStrand() : blast_setup.hpp
• BlastSetUp_MaskQuery() : blast_filter.c, blast_filter.h
• BlastSetup_ScoreBlkInit() : blast_setup.c, blast_setup.h
• BlastSetUp_SeqBlkNew() : blast_util.c, blast_util.h
• BlastSetup_Validate() : blast_setup.c, blast_setup.h
• BlastSetupPreliminarySearch() : blast_aux_priv.cpp
• BlastSetupPreliminarySearchEx() : blast_aux_priv.cpp
• BlastSmallNaLookupTableDestruct() : blast_nalookup.c, blast_nalookup.h
• BlastSmallNaLookupTableNew() : blast_nalookup.c, blast_nalookup.h
• BlastTargetTranslationFree() : blast_util.c, blast_util.h
• BlastTargetTranslationNew() : blast_util.c, blast_util.h
• BlastType : cuCdUpdateParameters.hpp
• BlastTypeNames : cuCdUpdateParameters.cpp, cuCdUpdateParameters.hpp
• BLASTUngappedHspListToSeqAlign() : blast_seqalign.cpp
• BlastWordFinderType : blast_engine.h
• BlastXML_FormatReport() : blastxml_format.cpp, blastxml_format.hpp
• BLbasicSmithWatermanScoreOnly() : smith_waterman.c
• blk_alloc() : blk.c, bkpublic.h
• blk_bind() : blk.c, bkpublic.h
• blk_colval() : blk.c, bkpublic.h
• blk_default() : blk.c, bkpublic.h
• blk_describe() : blk.c, bkpublic.h
• blk_done() : blk.c, bkpublic.h
• blk_drop() : blk.c, bkpublic.h
• blk_getrow() : blk.c, bkpublic.h
• blk_gettext() : blk.c, bkpublic.h
• BLK_IDENTITY : bkpublic.h
• blk_init() : blk.c, bkpublic.h
• blk_props() : blk.c, bkpublic.h
• blk_rowalloc() : blk.c, bkpublic.h
• blk_rowdrop() : blk.c, bkpublic.h
• blk_rowxfer() : blk.c, bkpublic.h
• blk_rowxfer_mult() : blk.c, bkpublic.h
• blk_sendrow() : blk.c, bkpublic.h
• blk_sendtext() : blk.c, bkpublic.h
• blk_sethints() : blk.c, bkpublic.h
• blk_srvinit() : blk.c, bkpublic.h
• blk_textxfer() : blk.c, bkpublic.h
• BLK_VERSION_100 : cspublic.h
• BLK_VERSION_110 : cspublic.h
• BLOB_SAFE_CALL : sqlitewrapp.cpp
• BlobStorage_RegisterDriver_File() : blobstorage_file.cpp, blobstorage_file.hpp
• BlobStorage_RegisterDriver_NetCache() : netcache_cgi_sample.cpp, blob_storage_netcache.cpp, blob_storage_netcache.hpp
• block_done : deflate.c
• BLOCK_ENDMARK_HI : bzip2recover.c
• BLOCK_ENDMARK_LO : bzip2recover.c
• BLOCK_HEADER_HI : bzip2recover.c
• BLOCK_HEADER_LO : bzip2recover.c
• BLOCK_OF : tar.cpp
• block_range_scan() : bmalgo_impl.h
• BLOCK_SIZE : tar.cpp
• block_state : deflate.c
• blockBGColors : cav_alndisplay.cpp
• BlockBoundaryAlgorithmMethod : BlockBoundaryAlgorithm.hpp
• blockBoundaryStringTitle() : sequence_display.cpp
• blockColor() : cav_alndisplay.cpp
• blockEditAlgStrings : InterfaceGUI.cpp
• blockInsideChar : sequence_display.cpp
• blockLeftEdgeChar : sequence_display.cpp
• BlockLevelTest() : stress.cpp
• blockOneColumnChar : sequence_display.cpp
• blockRightEdgeChar : sequence_display.cpp
• blocks : struct_dp_demo.cpp
• blockSize100k : bzip2.c
• BlockTEA_Decode() : resource_info.cpp, resource_info.hpp
• BlockTEA_Decode_In_Place() : resource_info.cpp
• BlockTEA_Encode() : resource_info.cpp, resource_info.hpp
• BlockTEA_Encode_In_Place() : resource_info.cpp
• BLOS62 : composition_adjustment.c
• BLOSUM45_bg : matrix_frequency_data.c
• BLOSUM45_FREQRATIOS : matrix_freq_ratios.c
• BLOSUM45_JOINT_PROBS : matrix_frequency_data.c
• blosum45_prefs : blast_stat.c
• blosum45_values : blast_stat.c
• BLOSUM45_VALUES_MAX : blast_stat.c
• BLOSUM45NAME : cuScoringMatrix.hpp
• BLOSUM45SIZE : cuScoringMatrix.hpp
• BLOSUM50_bg : matrix_frequency_data.c
• BLOSUM50_FREQRATIOS : matrix_freq_ratios.c
• BLOSUM50_JOINT_PROBS : matrix_frequency_data.c
• blosum50_prefs : blast_stat.c
• blosum50_values : blast_stat.c
• BLOSUM50_VALUES_MAX : blast_stat.c
• BLOSUM62_20A_SCALE_MULTIPLIER : matrix_freq_ratios.c
• BLOSUM62_20B_SCALE_MULTIPLIER : matrix_freq_ratios.c
• BLOSUM62_bg : matrix_frequency_data.c
• BLOSUM62_FREQRATIOS : matrix_freq_ratios.c
• BLOSUM62_JOINT_PROBS : matrix_frequency_data.c
• blosum62_prefs : blast_stat.c
• blosum62_values : blast_stat.c
• BLOSUM62_VALUES_MAX : blast_stat.c
• BLOSUM62NAME : cuScoringMatrix.hpp
• BLOSUM62SIZE : cuScoringMatrix.hpp
• BLOSUM80_bg : matrix_frequency_data.c
• BLOSUM80_FREQRATIOS : matrix_freq_ratios.c
• BLOSUM80_JOINT_PROBS : matrix_frequency_data.c
• blosum80_prefs : blast_stat.c
• blosum80_values : blast_stat.c
• BLOSUM80_VALUES_MAX : blast_stat.c
• BLOSUM80NAME : cuScoringMatrix.hpp
• BLOSUM80SIZE : cuScoringMatrix.hpp
• BLOSUM90_bg : matrix_frequency_data.c
• BLOSUM90_FREQRATIOS : matrix_freq_ratios.c
• BLOSUM90_JOINT_PROBS : matrix_frequency_data.c
• blosum90_prefs : blast_stat.c
• blosum90_values : blast_stat.c
• BLOSUM90_VALUES_MAX : blast_stat.c
• BLSmithWatermanFindStart() : smith_waterman.c
• BLspecialSmithWatermanFindStart() : smith_waterman.c
• BLspecialSmithWatermanScoreOnly() : smith_waterman.c
• BM_ALIGN16 : bmdef.h
• BM_ALIGN16ATTR : bmdef.h
• BM_AND : bmfunc.h
• BM_ASSERT : ncbi_bitset.hpp, bmdef.h
• BM_BIT : bmconst.h
• BM_GAP : bmconst.h
• BM_HM_DEFAULT : bmserial.h
• BM_HM_ID_LIST : bmserial.h
• BM_HM_NO_BO : bmserial.h
• BM_HM_NO_GAPL : bmserial.h
• BM_HM_RESIZE : bmserial.h
• BM_INCWORD_BITCOUNT : bmdef.h
• BM_IS_GAP : bmdef.h
• BM_MINISET_ARRSIZE : bmvmin.h
• BM_MINISET_GAPLEN : bmvmin.h
• BM_NO_BYTE_ORDER : bmserial.h
• BM_NO_GAP_LENGTH : bmserial.h
• BM_OR : bmfunc.h
• BM_SET_ONE_BLOCKS : bmserial.h
• BM_SUB : bmfunc.h
• BM_XOR : bmfunc.h
• BMA : BMAUtils.hpp
• BMCOUNT_ADJ : bm.h
• BMCOUNT_DEC : bm.h
• BMCOUNT_INC : bm.h
• BMCOUNT_SET : bm.h
• BMCOUNT_VALID : bm.h
• BMEaddSpecies() : fastme.cpp, bme.cpp
• BMEcalcDownAverage() : bme.cpp
• BMEcalcNewvAverages() : bme.cpp
• BMEcalcUpAverage() : bme.cpp
• BMEsplitEdge() : bme.cpp
• BMEtestEdge() : bme.cpp
• BMEupdateAveragesMatrix() : bme.cpp
• bmfor_each() : bmfunc.h
• BMFORCEINLINE : bmdef.h
• BMGAP_PTR : bmdef.h
• BMPTR_CLEARBIT0 : bmdef.h
• BMPTR_SETBIT0 : bmdef.h
• BMPTR_TESTBIT0 : bmdef.h
• BMSET_PTRGAP : bmdef.h
• bNNI() : fastme.cpp, bNNI.cpp
• bNNIEdgeTest() : bNNI.cpp
• bNNIRetestEdge() : bNNI.cpp
• bNNItopSwitch() : bNNI.cpp
• bNNIupdateAverages() : bNNI.cpp
• bond_key_to_subtype : SeqFeatData.cpp
• BOND_NOT_DISPLAYED : style_manager.cpp
• bondSides : opengl_renderer.cpp
• BOOKMARK : sqltypes.h
• Bool : bzlib_private.h, bzip2recover.c, bzip2.c
• BOOL : pcregrep.c, pcre_internal.h, sybdb.h, sqltypes.h, odbcinst.h
• bool : interfaces.hpp
• Boolean : thrdatd.c, ncbi_std.h
• boolean : heap.cpp, fastme.h, dist_methods.cpp
• BOOST_AUTO_TEST_CASE() : unit_test_sample.cpp, unit_test_alt_sample.cpp, unit_test_validator.cpp, unit_test_idmapper.cpp, lds_unit_test.cpp, rmt_dataloader_test.cpp, local_dataloader_test.cpp, blast_services_test.cpp, writedb_unit_test.cpp, gene_info_writer_test.cpp, gene_info_test.cpp, seq_writer_unit_test.cpp, vectorscreen_unit_test.cpp, showdefline_unit_test.cpp, showalign_unit_test.cpp, unit_test_seq_translator.cpp, seqalign_unit_test.cpp, seq_id_unit_test.cpp, mapper_unit_test.cpp, ecnum_unit_test.cpp, python_ncbi_dbapi_test.cpp, hitmatrix_unit_test.cpp, unit_test_gene_model.cpp, options_unit_test.cpp, kmer_unit_test.cpp, cobalt_unit_test.cpp, clusterer_unit_test.cpp, seqdb_unit_test.cpp, bdbloader_unit_test.cpp, seqalignfilter_unit_test.cpp, blastfmtutil_unit_test.cpp, version_reference_unit_test.cpp, uniform_search_unit_test.cpp, tracebacksearch_unit_test.cpp, traceback_unit_test.cpp, subj_ranges_unit_test.cpp, split_query_unit_test.cpp, search_strategy_unit_test.cpp, scoreblk_unit_test.cpp, rps_unit_test.cpp, remote_blast_unit_test.cpp, redoalignment_unit_test.cpp, queryinfo_unit_test.cpp, querydata_unit_test.cpp, pssmenginefreqratios_unit_test.cpp, pssmcreate_unit_test.cpp, psiblast_unit_test.cpp, psiblast_iteration_unit_test.cpp, psibl2seq_unit_test.cpp, prelimsearch_unit_test.cpp, phiblast_unit_test.cpp, optionshandle_unit_test.cpp, ntscan_unit_test.cpp, msa2pssm_unit_test.cpp, linkhsp_unit_test.cpp, hspstream_unit_test.cpp, hspfilter_culling_unit_test.cpp, hspfilter_besthit_unit_test.cpp, gencode_singleton_unit_test.cpp, gapinfo_unit_test.cpp, blastsetup_unit_test.cpp, blastoptions_unit_test.cpp, blasthits_unit_test.cpp, blastfilter_unit_test.cpp, blastextend_unit_test.cpp, blastengine_unit_test.cpp, blastdiag_unit_test.cpp, blast_unit_test.cpp, bl2seq_unit_test.cpp, aascan_unit_test.cpp, aalookup_unit_test.cpp, blastinput_unit_test.cpp, blast_scope_src_unit_test.cpp, score_builder_unit_test.cpp
• BOOST_AUTO_TEST_CASE_TIMEOUT : unit_test_sample.cpp, unit_test_alt_sample.cpp, showalign_unit_test.cpp, bdbloader_unit_test.cpp, blastinput_unit_test.cpp, test_boost.hpp
• BOOST_AUTO_TEST_SUITE() : uniform_search_unit_test.cpp, psiblast_iteration_unit_test.cpp
• BOOST_AUTO_TEST_SUITE_END() : seq_writer_unit_test.cpp
• BOOST_CHECK_NO_THROW_IMPL : test_boost.hpp
• BOOST_CHECK_THROW_IMPL : test_boost.hpp
• BOOST_FIXTURE_TEST_CASE : optionshandle_unit_test.cpp, test_boost.hpp
• BOOST_PARAM_TEST_CASE() : seq_id_unit_test.cpp
• BOOST_REQUIRE_CUTPOINT : lds_unit_test.cpp, writedb_unit_test.cpp
• both_context : pcregrep.c
• BREAK : ncbistl.hpp
• BREAK_MARKER : seqdbatlas.hpp
• bsClose() : bzip2recover.c
• BSDescrToString() : cuCdAnnotation.cpp
• BSearchContextInfo() : blast_query_info.c, blast_query_info.h
• BSearchInt4() : blast_util.c, blast_util.h
• BSFeatureSetDescrToString() : cuCdAnnotation.cpp
• bsFinishWrite() : compress.c
• bsGetBit() : bzip2recover.c
• bsNEEDW : compress.c
• bsOpenReadStream() : bzip2recover.c
• bsOpenWriteStream() : bzip2recover.c
• bsPutBit() : bzip2recover.c
• bsPutUChar() : compress.c, bzip2recover.c
• bsPutUInt32() : compress.c, bzip2recover.c
• bStart : bzip2recover.c
• bsW() : compress.c
• buf : spewG.c
• BUF : ncbi_buffer.h
• BUF_Append() : ncbi_buffer.c, ncbi_buffer.h
• BUF_DEF_CHUNK_SIZE : ncbi_buffer.h
• BUF_Destroy() : ncbi_buffer.c, ncbi_buffer.h
• BUF_Erase() : ncbi_buffer.c, ncbi_buffer.h
• BUF_FULL : sybdb.h
• BUF_Peek() : ncbi_buffer.c, ncbi_buffer.h
• BUF_PeekAt() : ncbi_buffer.c, ncbi_buffer.h
• BUF_PeekAtCB() : ncbi_buffer.c, ncbi_buffer.h
• BUF_Prepend() : ncbi_buffer.c, ncbi_buffer.h
• BUF_PushBack() : ncbi_buffer.c, ncbi_buffer.h
• BUF_Read() : ncbi_buffer.c, ncbi_buffer.h
• BUF_SetChunkSize() : ncbi_buffer.c, ncbi_buffer.h
• BUF_Size() : ncbi_buffer.c, ncbi_buffer.h
• Buf_size : trees.c
• BUF_StripToPattern() : ncbi_connutil.c, ncbi_connutil.h
• BUF_struct : ncbi_buffer.c
• BUF_Write() : ncbi_buffer.c, ncbi_buffer.h
• buffer : pcretest.c
• buffer_add_row() : buffering.h
• buffer_alloc() : buffering.h
• buffer_count() : buffering.h
• buffer_current_index() : buffering.h
• buffer_delete_rows() : buffering.h
• buffer_free() : buffering.h
• buffer_free_row() : buffering.h
• buffer_idx2row() : buffering.h
• buffer_idx_increment() : buffering.h
• buffer_index_valid() : buffering.h
• buffer_is_full() : buffering.h
• buffer_reset() : buffering.h
• buffer_row2idx() : buffering.h
• buffer_row_address() : buffering.h
• buffer_save_row() : buffering.h
• buffer_set_capacity() : buffering.h
• BUFFER_SIZE : fileutil.cpp
• buffer_size : pcretest.c
• buffer_struct_print() : buffering.h
• buffer_transfer_bound_data() : buffering.h
• BUFLEN : minigzip.c
• build_bl_tree() : trees.c
• build_tree() : trees.c
• build_xact_string() : xact.c, sybdb.h
• BuildAdjacentDiags() : cuAlign.cpp, cuAlign.hpp
• BuildAlgorithmParametersString() : mask_writer_blastdb_maskinfo.cpp, mask_writer_blastdb_maskinfo.hpp
• BuildAln() : aln_builders.cpp, aln_builders.hpp
• buildAveragesTable() : NNI.cpp
• BuildBlastAncillaryData() : blast_aux_priv.cpp
• BuildCompressedTranslation() : kmercounts.hpp
• BuildDenseAlignment() : sparse_functions.cpp, sparse_functions.hpp
• BuildGFF3Gap() : gnomon_model.cpp
• BuildGoodAlign() : unit_test_validator.cpp
• BuildGoodDeltaSeq() : unit_test_validator.cpp
• BuildGoodNucProtSet() : unit_test_validator.cpp
• BuildGoodProtSeq() : unit_test_validator.cpp
• BuildGoodSegSet() : unit_test_validator.cpp
• BuildGoodSeq() : unit_test_validator.cpp
• BuildSegSetPart() : unit_test_validator.cpp
• BuildSparseAlignment() : sparse_functions.cpp, sparse_functions.hpp
• BuildZipIndex() : demo3.cpp
• BUSY_STATE : deflate.h
• BV_Serialize() : ncbi_bitset_util.hpp
• bvect : stress.cpp
• bvect_mini : stress.cpp
• bwfi() : thrdbwfi.c, thrddecl.h
• BYTE : sqltypes.h, sybdb.h
• Byte : zconf.h
• bytebit : des.c
• BYTEBITS : inflate.c, infback.c
• bytecode_type : muParserDef.h
• Bytef : zconf.h
• byteflip() : pcretest.c, pcre_try_flipped.c
• ByteOrder : bmfunc.h
• byteReverse : md5.c, md4.c
• BYTES_PER_LINE : util.c
• bytesIn : bzip2recover.c
• bytesOut : bzip2recover.c
• byteswap32 : des.c
• BZ2_blockSort() : bzlib_private.h, blocksort.c
• BZ2_bsInitWrite() : compress.c, bzlib_private.h
• BZ2_bz__AssertH__fail() : bzlib_private.h, bzlib.c
• BZ2_bzBuffToBuffCompress() : bzlib.c, bzlib.h
• BZ2_bzBuffToBuffDecompress() : bzlib.c, bzlib.h
• BZ2_bzclose() : bzlib.c, bzlib.h
• BZ2_bzCompress() : bzlib.c, bzlib.h
• BZ2_bzCompressEnd() : bzlib.c, bzlib.h
• BZ2_bzCompressInit() : bzlib.c, bzlib.h
• BZ2_bzDecompress() : bzlib.c, bzlib.h
• BZ2_bzDecompressEnd() : bzlib.c, bzlib.h
• BZ2_bzDecompressInit() : bzlib.c, bzlib.h
• BZ2_bzdopen() : bzlib.c, bzlib.h
• BZ2_bzerror() : bzlib.c, bzlib.h
• BZ2_bzflush() : bzlib.c, bzlib.h
• BZ2_bzlibVersion() : bzlib.c, bzlib.h
• BZ2_bzopen() : bzlib.c, bzlib.h
• BZ2_bzRead() : bzlib.c, bzlib.h
• BZ2_bzread() : bzlib.c, bzlib.h
• BZ2_bzReadClose() : bzlib.c, bzlib.h
• BZ2_bzReadGetUnused() : bzlib.c, bzlib.h
• BZ2_bzReadOpen() : bzlib.c, bzlib.h
• BZ2_bzWrite() : bzlib.c, bzlib.h
• BZ2_bzwrite() : bzlib.c, bzlib.h
• BZ2_bzWriteClose() : bzlib.c, bzlib.h
• BZ2_bzWriteClose64() : bzlib.c, bzlib.h
• BZ2_bzWriteOpen() : bzlib.c, bzlib.h
• BZ2_compressBlock() : compress.c, bzlib_private.h
• BZ2_crc32Table : crctable.c, bzlib_private.h
• BZ2_decompress() : decompress.c, bzlib_private.h
• BZ2_hbAssignCodes() : huffman.c, bzlib_private.h
• BZ2_hbCreateDecodeTables() : huffman.c, bzlib_private.h
• BZ2_hbMakeCodeLengths() : huffman.c, bzlib_private.h
• BZ2_indexIntoF() : bzlib_private.h, bzlib.c
• BZ2_rNums : randtable.c, bzlib_private.h
• BZ_API : bzlib.h
• BZ_CONFIG_ERROR : bzlib.h
• bz_config_ok() : bzlib.c
• BZ_DATA_ERROR : bzlib.h
• BZ_DATA_ERROR_MAGIC : bzlib.h
• BZ_EXPORT : bzlib.h
• BZ_EXTERN : bzlib.h
• BZ_FINALISE_CRC : bzlib_private.h
• BZ_FINISH : bzlib.h
• BZ_FINISH_OK : bzlib.h
• BZ_FLUSH : bzlib.h
• BZ_FLUSH_OK : bzlib.h
• BZ_G_SIZE : bzlib_private.h
• BZ_GET_FAST : bzlib_private.h
• BZ_GET_FAST_C : bzlib_private.h
• BZ_GET_SMALL : bzlib_private.h
• BZ_GREATER_ICOST : compress.c
• BZ_HDR_0 : bzlib_private.h, bzip2recover.c
• BZ_HDR_B : bzlib_private.h, bzip2recover.c
• BZ_HDR_h : bzlib_private.h, bzip2recover.c
• BZ_HDR_Z : bzlib_private.h, bzip2recover.c
• BZ_IMPORT : dlltest.c
• BZ_INITIALISE_CRC : bzlib_private.h
• BZ_IO_ERROR : bzlib.h
• BZ_ITAH : compress.c
• BZ_ITER : compress.c
• BZ_ITUR : compress.c
• BZ_LCCWIN32 : bzip2.c
• BZ_LESSER_ICOST : compress.c
• BZ_M_FINISHING : bzlib_private.h
• BZ_M_FLUSHING : bzlib_private.h
• BZ_M_IDLE : bzlib_private.h
• BZ_M_RUNNING : bzlib_private.h
• BZ_MAX_ALPHA_SIZE : bzlib_private.h
• BZ_MAX_CODE_LEN : bzlib_private.h
• BZ_MAX_FILENAME : bzip2recover.c
• BZ_MAX_HANDLED_BLOCKS : bzip2recover.c
• BZ_MAX_SELECTORS : bzlib_private.h
• BZ_MAX_UNUSED : bzlib.h
• BZ_MEM_ERROR : bzlib.h
• BZ_N_GROUPS : bzlib_private.h
• BZ_N_ITERS : bzlib_private.h
• BZ_N_OVERSHOOT : bzlib_private.h
• BZ_N_QSORT : bzlib_private.h
• BZ_N_RADIX : bzlib_private.h
• BZ_N_SHELL : bzlib_private.h
• BZ_N_SUFFIX_PAIRS : bzip2.c
• BZ_OK : bzlib.h
• BZ_OUTBUFF_FULL : bzlib.h
• BZ_PARAM_ERROR : bzlib.h
• BZ_RAND_DECLS : bzlib_private.h
• BZ_RAND_INIT_MASK : bzlib_private.h
• BZ_RAND_MASK : bzlib_private.h
• BZ_RAND_UPD_MASK : bzlib_private.h
• BZ_RUN : bzlib.h
• BZ_RUN_OK : bzlib.h
• BZ_RUNA : bzlib_private.h
• BZ_RUNB : bzlib_private.h
• BZ_S_INPUT : bzlib_private.h
• BZ_S_OUTPUT : bzlib_private.h
• BZ_SEQUENCE_ERROR : bzlib.h
• BZ_SETERR : bzlib.c
• BZ_SPLIT_SYM : bzip2recover.c
• BZ_STREAM_END : bzlib.h
• BZ_UNEXPECTED_EOF : bzlib.h
• BZ_UNIX : bzip2.c
• BZ_UPDATE_CRC : bzlib_private.h
• BZ_VERSION : bzlib_private.h
• BZ_X_BCRC_1 : bzlib_private.h
• BZ_X_BCRC_2 : bzlib_private.h
• BZ_X_BCRC_3 : bzlib_private.h
• BZ_X_BCRC_4 : bzlib_private.h
• BZ_X_BLKHDR_1 : bzlib_private.h
• BZ_X_BLKHDR_2 : bzlib_private.h
• BZ_X_BLKHDR_3 : bzlib_private.h
• BZ_X_BLKHDR_4 : bzlib_private.h
• BZ_X_BLKHDR_5 : bzlib_private.h
• BZ_X_BLKHDR_6 : bzlib_private.h
• BZ_X_CCRC_1 : bzlib_private.h
• BZ_X_CCRC_2 : bzlib_private.h
• BZ_X_CCRC_3 : bzlib_private.h
• BZ_X_CCRC_4 : bzlib_private.h
• BZ_X_CODING_1 : bzlib_private.h
• BZ_X_CODING_2 : bzlib_private.h
• BZ_X_CODING_3 : bzlib_private.h
• BZ_X_ENDHDR_2 : bzlib_private.h
• BZ_X_ENDHDR_3 : bzlib_private.h
• BZ_X_ENDHDR_4 : bzlib_private.h
• BZ_X_ENDHDR_5 : bzlib_private.h
• BZ_X_ENDHDR_6 : bzlib_private.h
• BZ_X_IDLE : bzlib_private.h
• BZ_X_MAGIC_1 : bzlib_private.h
• BZ_X_MAGIC_2 : bzlib_private.h
• BZ_X_MAGIC_3 : bzlib_private.h
• BZ_X_MAGIC_4 : bzlib_private.h
• BZ_X_MAPPING_1 : bzlib_private.h
• BZ_X_MAPPING_2 : bzlib_private.h
• BZ_X_MTF_1 : bzlib_private.h
• BZ_X_MTF_2 : bzlib_private.h
• BZ_X_MTF_3 : bzlib_private.h
• BZ_X_MTF_4 : bzlib_private.h
• BZ_X_MTF_5 : bzlib_private.h
• BZ_X_MTF_6 : bzlib_private.h
• BZ_X_ORIGPTR_1 : bzlib_private.h
• BZ_X_ORIGPTR_2 : bzlib_private.h
• BZ_X_ORIGPTR_3 : bzlib_private.h
• BZ_X_OUTPUT : bzlib_private.h
• BZ_X_RANDBIT : bzlib_private.h
• BZ_X_SELECTOR_1 : bzlib_private.h
• BZ_X_SELECTOR_2 : bzlib_private.h
• BZ_X_SELECTOR_3 : bzlib_private.h
• BZALLOC : bzlib_private.h
• bzerrorstrings : unzcrash.c, bzlib.c
• BZFILE : bzlib.h
• BZFREE : bzlib_private.h
• bzopen_or_bzdopen() : bzlib.c

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