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Searched refs:vrna_fold_compound (Results 1 – 25 of 58) sorted by relevance

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/dports/biology/viennarna/ViennaRNA-2.4.18/tests/
H A Dneighbor.c215 vrna_fold_compound_t *vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
462 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
519 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
576 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
639 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
698 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
713 vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
743 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
788 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
826 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
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H A Dneighbor.ts206 vrna_fold_compound_t *vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY);
418 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY);
470 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY);
522 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY);
580 vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY);
634 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY);
649 vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY);
674 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY);
714 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY);
747 vrna_fold_compound_t *vc = vrna_fold_compound(seq, &md, VRNA_OPTION_EVAL_ONLY);
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H A Dconstraints_soft.ts20 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT);
54 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT);
85 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT);
118 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT);
152 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT);
188 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT);
H A Dconstraints_soft.c28 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in START_TEST()
67 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in START_TEST()
103 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in START_TEST()
141 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in START_TEST()
180 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in START_TEST()
221 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in START_TEST()
H A Dfold.c53 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_PF); in START_TEST()
102 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_MFE | VRNA_OPTION_PF); in START_TEST()
H A Dfold.ts43 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_PF);
90 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_MFE | VRNA_OPTION_PF);
H A Densemble_defect.c35 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_PF); in START_TEST()
H A Densemble_defect.ts27 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_PF);
H A Dwalk.c29 vrna_fold_compound_t *vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY); in START_TEST()
H A Dwalk.ts20 vrna_fold_compound_t *vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_EVAL_ONLY);
/dports/biology/viennarna/ViennaRNA-2.4.18/src/ViennaRNA/
H A Dmfe_window_wrappers.c34 vc = vrna_fold_compound(string, &md, VRNA_OPTION_WINDOW); in vrna_Lfold()
59 vc = vrna_fold_compound(string, &md, VRNA_OPTION_WINDOW); in vrna_Lfold_cb()
86 vc = vrna_fold_compound(string, &md, VRNA_OPTION_WINDOW); in vrna_Lfoldz()
112 vc = vrna_fold_compound(string, &md, VRNA_OPTION_WINDOW); in vrna_Lfoldz_cb()
H A Dmfe_wrappers.c29 vc = vrna_fold_compound(string, &md, 0); in vrna_fold()
48 vc = vrna_fold_compound(string, &md, 0); in vrna_circfold()
111 vc = vrna_fold_compound(seq, &md, 0); in vrna_cofold()
H A Dpart_func_wrappers.c34 vc = vrna_fold_compound(seq, &md, 0); in vrna_pf_fold()
68 vc = vrna_fold_compound(seq, &md, 0); in vrna_pf_circfold()
168 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_PF | VRNA_OPTION_WINDOW); in vrna_pfl_fold_cb()
199 vc = vrna_fold_compound(sequence, &md, VRNA_OPTION_PF | VRNA_OPTION_WINDOW); in vrna_pfl_fold_up_cb()
H A DLfold.c52 vc = vrna_fold_compound(string, &md, VRNA_OPTION_WINDOW); in Lfold()
80 vc = vrna_fold_compound(string, &md, VRNA_OPTION_WINDOW); in Lfoldz()
H A Dmm.c109 fc = vrna_fold_compound(sequence, NULL, VRNA_OPTION_DEFAULT); in vrna_maximum_matching_simple()
124 vrna_fold_compound_t *fc = vrna_fold_compound(string, NULL, VRNA_OPTION_DEFAULT); in maximumMatching()
H A Dpart_func_co.c115 vc = vrna_fold_compound(seq, &md, VRNA_OPTION_DEFAULT); in vrna_pf_co_fold()
181 vc = vrna_fold_compound(seq, &md, VRNA_OPTION_DEFAULT); in wrap_co_pf_fold()
H A Deval_wrappers.c344 vrna_fold_compound_t *fc = vrna_fold_compound(string, NULL, VRNA_OPTION_EVAL_ONLY); in vrna_eval_structure_pt_simple_v()
386 vrna_fold_compound_t *fc = vrna_fold_compound(string, NULL, VRNA_OPTION_EVAL_ONLY); in vrna_eval_move_pt_simple()
489 vrna_fold_compound_t *fc = vrna_fold_compound(string, &md, VRNA_OPTION_DEFAULT); in eval_structure_simple_v()
586 backward_compat_compound = fc = vrna_fold_compound(seq, md, VRNA_OPTION_EVAL_ONLY); in recycle_last_call()
H A Dfold_compound.h432 vrna_fold_compound(const char *sequence,
/dports/biology/viennarna/ViennaRNA-2.4.18/interfaces/
H A Dboltzmann_sampling.i43 %feature("kwargs") vrna_fold_compound::pbacktrack5;
45 %feature("kwargs") vrna_fold_compound::pbacktrack;
H A Dmfe.i47 fc = vrna_fold_compound(string, NULL, VRNA_OPTION_DEFAULT); in my_fold()
200 fc = vrna_fold_compound(sequence, NULL, VRNA_OPTION_DEFAULT); in my_cofold()
256 fc = vrna_fold_compound(string, &md, VRNA_OPTION_DEFAULT); in my_circfold()
/dports/biology/viennarna/ViennaRNA-2.4.18/examples/
H A Dcallback_subopt.c31 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in main()
H A Dfold_compound_mfe.c20 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in main()
H A Dsoft_constraints_up.c20 vrna_fold_compound_t *fc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in main()
H A Dfold_compound_md.c34 vrna_fold_compound_t *fc = vrna_fold_compound(seq, &md, VRNA_OPTION_DEFAULT); in main()
H A Dexample1.c23 vrna_fold_compound_t *vc = vrna_fold_compound(seq, NULL, VRNA_OPTION_DEFAULT); in main()

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