| /dports/biology/exonerate/exonerate-2.4.0/src/model/ |
| H A D | edit_distance.c | 57 *match_calc = C4_Model_add_calc(edit_distance, "match", 0, in EditDistance_create() local
71 main_state, main_state, 1, 1, match_calc, in EditDistance_create()
80 C4_Model_add_portal(edit_distance, "match portal", match_calc, in EditDistance_create()
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| H A D | ungapped.c | 110 register C4_Calc *match_calc; in Ungapped_CalcElements() local
139 match_calc = C4_Model_add_calc(ungapped, "match", in Ungapped_CalcElements()
152 match_calc, C4_Label_MATCH, match); in Ungapped_CalcElements()
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| /dports/biology/mafft/mafft-7.267-without-extensions/core/ |
| H A D | MSalign11.c | 38 static void match_calc( double *match, char **s1, char **s2, int i1, int lgth2 ) in match_calc() function
142 match_calc( initverticalw, seq2, seq1, lgth2-1, lgth1 ); in backdp()
143 match_calc( currentw, seq1, seq2, lgth1-1, lgth2 ); in backdp()
192 match_calc( currentw, seq1, seq2, i, lgth2 ); in backdp()
441 match_calc( initverticalw, seq2, seq1, 0, lgth1 ); in MSalign11()
444 match_calc( currentw, seq1, seq2, 0, lgth2 ); in MSalign11()
480 match_calc( currentw, seq1, seq2, i, lgth2 ); in MSalign11()
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| H A D | SAalignmm.c | 6 static void match_calc( double *match, double **cpmx1, double **cpmx2, int i1, int lgth2, double **… in match_calc() function
282 match_calc( initverticalw, cpmx2, cpmx1, 0, lgth1, doublework, intwork, 1 ); in Aalign()
283 match_calc( currentw, cpmx1, cpmx2, 0, lgth2, doublework, intwork, 1 ); in Aalign()
312 match_calc( currentw, cpmx1, cpmx2, i, lgth2, doublework, intwork, 0 ); in Aalign()
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| H A D | suboptalign11.c | 30 static void match_calc( double *match, char **s1, char **s2, int i1, int lgth2 ) in match_calc() function
323 match_calc( initverticalw, seq2, seq1, 0, lgth1 ); in suboptalign11()
325 match_calc( currentw, seq1, seq2, 0, lgth2 ); in suboptalign11()
381 match_calc( currentw, seq1, seq2, i, lgth2 ); in suboptalign11()
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| H A D | MSalignmm.c | 433 match_calc( n_dynamicmtx, initverticalw, cpmx2+jst, cpmx1+ist, 0, lgth1, doublework, intwork, 1 ); in MSalignmm_tanni()
435 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, 0, lgth2, doublework, intwork, 1 ); in MSalignmm_tanni()
471 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_tanni()
856 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, 0, lgth2, doublework, intwork, 1 ); in MSalignmm_rec()
926 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_rec()
1152 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_rec()
2040 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, 0, lgth2, doublework, intwork, 1 ); in MSalignmm_tanni_variousdist()
2086 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_tanni_variousdist()
2464 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, 0, lgth2, doublework, intwork, 1 ); in MSalignmm_rec_variousdist()
2545 match_calc( n_dynamicmtx, currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_rec_variousdist()
[all …]
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| H A D | Lalignmm.c | 94 static void match_calc( double *match, double **cpmx1, double **cpmx2, int i1, int lgth2, double **… in match_calc() function
1441 match_calc( initverticalw, cpmx2+jst, cpmx1+ist, 0, lgth1, doublework, intwork, 1 ); in MSalignmm_rec()
1443 match_calc( currentw, cpmx1+ist, cpmx2+jst, 0, lgth2, doublework, intwork, 1 ); in MSalignmm_rec()
1492 match_calc( currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_rec()
1643 match_calc( initverticalw, cpmx2+jst, cpmx1+ist, lgth2-1, lgth1, doublework, intwork, 1 ); in MSalignmm_rec()
1644 match_calc( currentw, cpmx1+ist, cpmx2+jst, lgth1-1, lgth2, doublework, intwork, 1 ); in MSalignmm_rec()
1696 match_calc( currentw, cpmx1+ist, cpmx2+jst, i, lgth2, doublework, intwork, 0 ); in MSalignmm_rec()
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| H A D | partSalignmm.c | 431 static void match_calc( double *match, double **cpmx1, double **cpmx2, int i1, int lgth2, double **… in match_calc() function
1323 match_calc( initverticalw, cpmx2, cpmx1, 0, lgth1, doublework, intwork, 1 ); in partA__align()
1328 match_calc( currentw, cpmx1, cpmx2, 0, lgth2, doublework, intwork, 1 ); in partA__align()
1410 match_calc( currentw, cpmx1, cpmx2, i, lgth2, doublework, intwork, 0 ); in partA__align()
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| H A D | genalign11.c | 21 static void match_calc( double *match, char **s1, char **s2, int i1, int lgth2 ) in match_calc() function
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| H A D | Salignmm.c | 642 static void match_calc( double **n_dynamicmtx, double *match, double **cpmx1, double **cpmx2, int i… in match_calc() function
1419 match_calc( n_dynamicmtx, initverticalw, cpmx2, cpmx1, 0, lgth1, doublework, intwork, 1 ); in A__align()
1423 match_calc( n_dynamicmtx, currentw, cpmx1, cpmx2, 0, lgth2, doublework, intwork, 1 ); in A__align()
1518 match_calc( n_dynamicmtx, currentw, cpmx1, cpmx2, i, lgth2, doublework, intwork, 0 ); in A__align()
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| H A D | Galign11.c | 18 static void match_calc( double *match, char **s1, char **s2, int i1, int lgth2 ) in match_calc() function
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| H A D | Lalign11.c | 22 static void match_calc( double *match, char **s1, char **s2, int i1, int lgth2 ) in match_calc() function
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| H A D | Dalignmm.c | 534 static void match_calc( double **n_dynamicmtx, double *match, double **cpmx1, double **cpmx2, int i… in match_calc() function
3436 match_calc( n_dynamicmtx, initverticalw, cpmx2, cpmx1, 0, lgth1, doublework, intwork, 1 ); in D__align()
3440 match_calc( n_dynamicmtx, currentw, cpmx1, cpmx2, 0, lgth2, doublework, intwork, 1 ); in D__align()
3588 match_calc( n_dynamicmtx, currentw, cpmx1, cpmx2, i, lgth2, doublework, intwork, 0 ); in D__align()
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