| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/ |
| H A D | uniform_search.cpp | 55 CSearchDatabase::CSearchDatabase(const string& dbname, EMoleculeType mol_type, in CSearchDatabase()
76 CSearchDatabase::SetMoleculeType(EMoleculeType mol_type) in SetMoleculeType()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/ |
| H A D | uniform_search.cpp | 55 CSearchDatabase::CSearchDatabase(const string& dbname, EMoleculeType mol_type, in CSearchDatabase()
76 CSearchDatabase::SetMoleculeType(EMoleculeType mol_type) in SetMoleculeType()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/format/ |
| H A D | gather_iter.cpp | 132 CSeq_inst::TMol mol_type; in x_AddSeqEntryToStack() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/ |
| H A D | make_cdr_prods.cpp | 105 CRef<CSeqdesc> mol_type(new CSeqdesc); in MakeCdrProds() local
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/format/ |
| H A D | gather_iter.cpp | 132 CSeq_inst::TMol mol_type; in x_AddSeqEntryToStack() local
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| /dports/science/cp2k/cp2k-2e995eec7fd208c8a72d9544807bd8b8ba8cd1cc/src/motion/mc/ |
| H A D | mc_coordinates.F | 65 SUBROUTINE check_for_overlap(force_env, nchains, nunits, loverlap, mol_type, & argument
71 INTEGER, DIMENSION(:), INTENT(IN) :: mol_type local
235 SUBROUTINE mc_coordinate_fold(coordinates, nchains_tot, mol_type, mass, nunits, box_length) argument
239 INTEGER, DIMENSION(:), INTENT(IN) :: mol_type local
329 … mass, loverlap, choosen_energy, old_energy, ionode, lremove, mol_type, nchains, source, & argument
345 INTEGER, DIMENSION(:), INTENT(IN) :: mol_type, nchains local
730 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits local
1016 SUBROUTINE cluster_search(mc_par, force_env, cluster, nchains, nunits, mol_type, total_clus) argument
1021 INTEGER, DIMENSION(:), INTENT(IN) :: nchains, nunits, mol_type local
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| H A D | mc_ge_moves.F | 129 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
451 INTEGER, DIMENSION(:), POINTER :: mol_type, mol_type_test, nunits, & local
1149 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
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| H A D | mc_moves.F | 156 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits local
449 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
672 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
979 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
1967 INTEGER, DIMENSION(:), POINTER :: avbmc_atom, mol_type, nunits, nunits_tot local
2500 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
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| H A D | mc_ensembles.F | 132 INTEGER, DIMENSION(:), POINTER :: avbmc_atom, mol_type, nchains_box, & local
1184 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
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| /dports/science/cp2k-data/cp2k-7.1.0/src/motion/mc/ |
| H A D | mc_coordinates.F | 66 SUBROUTINE check_for_overlap(force_env, nchains, nunits, loverlap, mol_type, & argument
72 INTEGER, DIMENSION(:), INTENT(IN) :: mol_type local
236 SUBROUTINE mc_coordinate_fold(coordinates, nchains_tot, mol_type, mass, nunits, box_length) argument
240 INTEGER, DIMENSION(:), INTENT(IN) :: mol_type local
330 … mass, loverlap, choosen_energy, old_energy, ionode, lremove, mol_type, nchains, source, & argument
346 INTEGER, DIMENSION(:), INTENT(IN) :: mol_type, nchains local
731 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits local
1017 SUBROUTINE cluster_search(mc_par, force_env, cluster, nchains, nunits, mol_type, total_clus) argument
1022 INTEGER, DIMENSION(:), INTENT(IN) :: nchains, nunits, mol_type local
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| H A D | mc_ge_moves.F | 130 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
452 INTEGER, DIMENSION(:), POINTER :: mol_type, mol_type_test, nunits, & local
1150 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
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| H A D | mc_moves.F | 157 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits local
450 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
673 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
980 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
1968 INTEGER, DIMENSION(:), POINTER :: avbmc_atom, mol_type, nunits, nunits_tot local
2501 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
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| H A D | mc_ensembles.F | 133 INTEGER, DIMENSION(:), POINTER :: avbmc_atom, mol_type, nchains_box, & local
1185 INTEGER, DIMENSION(:), POINTER :: mol_type, nunits, nunits_tot local
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| /dports/biology/ncbi-toolkit/ncbi/desktop/ |
| H A D | salfiles.c | 196 static SeqEntryPtr strings_to_seqentry (ValNodePtr seqvnp, Uint1 mol_type, SeqIdPtr seqsip, SeqAnno… in strings_to_seqentry()
238 extern SeqEntryPtr FastaRead (CharPtr path, Uint2 mol_type) in FastaRead()
471 static SeqEntryPtr FastaReadAdvanced (CharPtr path, Uint2 mol_type, Int2 *seqnumber, Int2 *segnumbe… in FastaReadAdvanced()
772 static SeqEntryPtr GapFastaRead (CharPtr path, Uint2 mol_type) in GapFastaRead()
1253 static SeqEntryPtr MacawRead (CharPtr path, Uint1 mol_type, SeqIdPtr seqid, Boolean save_seqentry, … in MacawRead()
1782 static SeqEntryPtr ReadAlignmentFunc (CharPtr path, Uint1 mol_type, Uint1 format, Int2 n_seq, Boole… in ReadAlignmentFunc()
1841 extern SeqEntryPtr ReadInterleaveAlign (CharPtr path, Uint1 mol_type) in ReadInterleaveAlign()
1893 extern SeqEntryPtr ReadContiguouseAlign (CharPtr path, Uint1 mol_type) in ReadContiguouseAlign()
1954 Uint1 mol_type=Seq_mol_na; in ReadAnyAlignment() local
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| H A D | saledit.h | 133 Int2 align_format, mol_type; member
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| /dports/biology/ncbi-toolkit/ncbi/demo/ |
| H A D | blastalign.c | 190 mol_type; in Main() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/blastdb/ |
| H A D | blastdb_aliastool.cpp | 422 const char mol_type = args[kArgDbType].AsString()[0]; in CreateAliasFile() local
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| H A D | blastdb_convert.cpp | 227 Int4 mol_type = SeqDB_GetStdOrd((Int4*)(data+read_offset)); in s_ConvertV4toV5() local
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/app/blastdb/ |
| H A D | blastdb_aliastool.cpp | 422 const char mol_type = args[kArgDbType].AsString()[0]; in CreateAliasFile() local
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| H A D | blastdb_convert.cpp | 227 Int4 mol_type = SeqDB_GetStdOrd((Int4*)(data+read_offset)); in s_ConvertV4toV5() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/blast/seqdb_writer/ |
| H A D | build_db.cpp | 1089 const string mol_type(is_protein ? "Protein" : "Nucleotide"); in CBuildDatabase() local
1147 const string mol_type(is_protein ? "Protein" : "Nucleotide"); in CBuildDatabase() local
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/blast/seqdb_writer/ |
| H A D | build_db.cpp | 1089 const string mol_type(is_protein ? "Protein" : "Nucleotide"); in CBuildDatabase() local
1147 const string mol_type(is_protein ? "Protein" : "Nucleotide"); in CBuildDatabase() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/speedtest/ |
| H A D | speedtest.cpp | 442 CSeq_inst::TMol mol_type = CSeq_inst::eMol_not_set; in PlayAroundWithSuggestIntervals() local
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| /dports/biology/py-biopython/biopython-1.79/Bio/GenBank/ |
| H A D | __init__.py | 737 def molecule_type(self, mol_type): argument
1475 def molecule_type(self, mol_type): argument
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/misc/hgvs/ |
| H A D | hgvs_parser.cpp | 212 void CHgvsParser::CContext::SetId(const CSeq_id& id, EMolType mol_type) in SetId()
605 CContext::EMolType mol_type = in x_header() local
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