| /dports/biology/viennarna/ViennaRNA-2.4.18/src/ViennaRNA/ |
| H A D | alifold.c | 122 vc = vrna_fold_compound_comparative(strings, &(P->model_details), VRNA_OPTION_DEFAULT); in wrap_alifold()
229 vc = vrna_fold_compound_comparative(sequences, &md, VRNA_OPTION_EVAL_ONLY); in energy_of_ali_gquad_structure()
257 vc = vrna_fold_compound_comparative(sequences, &md, VRNA_OPTION_EVAL_ONLY); in energy_of_alistruct()
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| H A D | mfe_wrappers.c | 69 vc = vrna_fold_compound_comparative(strings, &md, VRNA_OPTION_DEFAULT); in vrna_alifold()
89 vc = vrna_fold_compound_comparative(sequences, &md, VRNA_OPTION_DEFAULT); in vrna_circalifold()
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| H A D | Lfold.c | 106 fc = vrna_fold_compound_comparative((const char **)AS, &md, VRNA_OPTION_MFE | VRNA_OPTION_WINDOW); in aliLfold()
130 fc = vrna_fold_compound_comparative(AS, &md, VRNA_OPTION_MFE | VRNA_OPTION_WINDOW); in aliLfold_cb()
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| H A D | mfe_window_wrappers.c | 139 vc = vrna_fold_compound_comparative(AS, &md, VRNA_OPTION_MFE | VRNA_OPTION_WINDOW); in vrna_aliLfold()
164 vc = vrna_fold_compound_comparative(AS, &md, VRNA_OPTION_MFE | VRNA_OPTION_WINDOW); in vrna_aliLfold_cb()
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| H A D | part_func_wrappers.c | 101 vc = vrna_fold_compound_comparative(strings, &md, VRNA_OPTION_DEFAULT); in vrna_pf_alifold()
135 vc = vrna_fold_compound_comparative(sequences, &md, VRNA_OPTION_DEFAULT); in vrna_pf_circalifold()
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| H A D | fold_compound.h | 475 vrna_fold_compound_comparative(const char **sequences,
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| H A D | alipfold.c | 124 vc = vrna_fold_compound_comparative(sequences, &md, VRNA_OPTION_DEFAULT); in wrap_alipf_fold()
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| H A D | eval_wrappers.c | 365 vrna_fold_compound_t *fc = vrna_fold_compound_comparative(alignment, NULL, VRNA_OPTION_DEFAULT); in vrna_eval_consensus_structure_pt_simple_v()
524 vrna_fold_compound_t *fc = vrna_fold_compound_comparative(alignment, &md, VRNA_OPTION_DEFAULT); in eval_consensus_structure_simple_v()
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| H A D | fold_compound.c | 269 vrna_fold_compound_comparative(const char **sequences, in vrna_fold_compound_comparative() function
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| /dports/biology/viennarna/ViennaRNA-2.4.18/interfaces/ |
| H A D | mfe.i | 99 fc = vrna_fold_compound_comparative((const char **)&vc[0], NULL, VRNA_OPTION_DEFAULT); in my_alifold()
312 fc = vrna_fold_compound_comparative((const char **)&vc[0], in my_circalifold()
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| H A D | fold_compound.i | 68 return vrna_fold_compound_comparative((const char **)&vc[0], md, options);
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| /dports/biology/viennarna/ViennaRNA-2.4.18/src/bin/ |
| H A D | RNALalifold.c | 455 fc = vrna_fold_compound_comparative((const char **)AS, in main()
620 vrna_fold_compound_t *sub_fc = vrna_fold_compound_comparative((const char **)sub, in print_hit_cb()
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| H A D | RNAeval.c | 758 vc = vrna_fold_compound_comparative((const char **)alignment, in process_alignment_record()
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| H A D | RNAalifold.c | 901 vc = vrna_fold_compound_comparative((const char **)alignment, in process_record()
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| /dports/biology/viennarna/ViennaRNA-2.4.18/interfaces/Perl/ |
| H A D | RNA_wrap.cpp | 3907 fc = vrna_fold_compound_comparative((const char **)&vc[0], NULL, VRNA_OPTION_DEFAULT); in my_alifold()
4120 fc = vrna_fold_compound_comparative((const char **)&vc[0], in my_circalifold()
8234 return vrna_fold_compound_comparative((const char **)&vc[0], md, options); in new_vrna_fold_compound_t__SWIG_3()
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| /dports/biology/viennarna/ViennaRNA-2.4.18/interfaces/Python/ |
| H A D | RNA_wrap.cpp | 8076 fc = vrna_fold_compound_comparative((const char **)&vc[0], NULL, VRNA_OPTION_DEFAULT); in my_alifold()
8289 fc = vrna_fold_compound_comparative((const char **)&vc[0], in my_circalifold()
12734 return vrna_fold_compound_comparative((const char **)&vc[0], md, options); in new_vrna_fold_compound_t__SWIG_1()
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| /dports/biology/viennarna/ViennaRNA-2.4.18/interfaces/Python3/ |
| H A D | RNA_wrap.cpp | 8220 fc = vrna_fold_compound_comparative((const char **)&vc[0], NULL, VRNA_OPTION_DEFAULT); in my_alifold()
8433 fc = vrna_fold_compound_comparative((const char **)&vc[0], in my_circalifold()
12872 return vrna_fold_compound_comparative((const char **)&vc[0], md, options); in new_vrna_fold_compound_t__SWIG_1()
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