| /dports/biology/mafft/mafft-7.267-without-extensions/core/ |
| H A D | SAalignmm.c | 6 …le **cpmx1, double **cpmx2, int i1, int lgth2, double **doublework, int **intwork, int initialize ) in match_calc() argument
11 int **cpmxpdn = intwork; in match_calc()
182 static TLS int **intwork; in Aalign() local
220 FreeIntMtx( intwork ); in Aalign()
244 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in Aalign()
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 | MSalignmm.c | 21 int **cpmxpdn = intwork; in match_calc_add()
100 int **cpmxpdn = intwork; in match_calc()
348 int **intwork; in MSalignmm_tanni() local
569 FreeIntMtx( intwork ); in MSalignmm_tanni()
615 FreeIntMtx( intwork ); in freearrays_rec1()
665 int **intwork; in MSalignmm_rec() local
911 doublework, intwork in MSalignmm_rec()
1497 doublework, intwork in MSalignmm_rec()
1953 int ***intwork; in MSalignmm_tanni_variousdist() local
2273 int ***intwork; in MSalignmm_rec_variousdist() local
[all …]
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| H A D | Galign11.c | 201 static TLS int **intwork = NULL; in G__align11() local
243 if( intwork ) FreeIntMtx( intwork ); intwork = NULL; in G__align11()
343 FreeIntMtx( intwork ); in G__align11()
368 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in G__align11()
712 static TLS int **intwork; in G__align11_noalign() local
732 FreeIntMtx( intwork ); in G__align11_noalign()
773 FreeIntMtx( intwork ); in G__align11_noalign()
797 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in G__align11_noalign()
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| H A D | Lalignmm.c | 23 int **cpmxpdn = intwork; in match_ribosum()
99 int **cpmxpdn = intwork; in match_calc()
179 int **cpmxpdn = intwork;
374 int **intwork; in MSalign2m2m_rec() local
518 intwork = AllocateIntMtx( MAX( ll1, ll2 )+2, nalphabets ); in MSalign2m2m_rec()
1236 FreeIntMtx( intwork );
1274 int **intwork; in MSalignmm_rec() local
1418 intwork = AllocateIntMtx( MAX( ll1, ll2 )+2, nalphabets ); 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()
[all …]
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| H A D | Salignmm.c | 551 int **cpmxpdn = intwork; in match_calc_add()
603 int **cpmxpdn = intwork; in match_calc_add()
649 int **cpmxpdn = intwork; in match_calc()
701 int **cpmxpdn = intwork; in match_calc()
1052 static TLS int **intwork; in A__align() local
1124 FreeIntMtx( intwork ); in A__align()
1248 FreeIntMtx( intwork ); in A__align()
1286 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in A__align()
1819 static TLS int ***intwork; in A__align_variousdist() local
1889 FreeIntCub( intwork ); in A__align_variousdist()
[all …]
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| H A D | partSalignmm.c | 437 int **cpmxpdn = intwork; in match_calc()
487 int **cpmxpdn = intwork; in match_calc()
575 int **cpmxpdn = intwork; in match_calc_add()
627 int **cpmxpdn = intwork; in match_calc_add()
992 static TLS int **intwork; in partA__align() local
1062 FreeIntMtx( intwork ); in partA__align()
1180 FreeIntMtx( intwork ); in partA__align()
1215 intwork = AllocateIntMtx( MAX( ll1, ll2 )+2, nalphabets ); in partA__align()
1680 static TLS int ***intwork; in partA__align_variousdist() local
1751 FreeIntCub( intwork ); in partA__align_variousdist()
[all …]
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| H A D | genalign11.c | 146 static TLS int **intwork; in genL__align11() local
189 FreeIntMtx( intwork ); in genL__align11()
233 FreeIntMtx( intwork ); in genL__align11()
262 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in genL__align11()
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| H A D | MSalign11.c | 320 static int **intwork; in MSalign11() local
359 FreeIntMtx( intwork ); in MSalign11()
388 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in MSalign11()
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| H A D | suboptalign11.c | 162 static int **intwork; in suboptalign11() local
237 FreeIntMtx( intwork ); in suboptalign11()
263 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in suboptalign11()
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| H A D | Dalignmm.c | 442 int **cpmxpdn = intwork; in match_calc_add()
494 int **cpmxpdn = intwork; in match_calc_add()
541 int **cpmxpdn = intwork; in match_calc()
593 int **cpmxpdn = intwork; in match_calc()
2742 static TLS int **intwork; in D__align() local
2825 FreeIntMtx( intwork ); in D__align()
2963 FreeIntMtx( intwork ); in D__align()
3014 intwork = AllocateIntMtx( nalphabets, MAX( ll1, ll2 )+2 ); in D__align()
4578 static TLS int ***intwork; in D__align_variousdist() local
4663 FreeIntCub( intwork ); in D__align_variousdist()
[all …]
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| H A D | Lalign11.c | 32 …le **cpmx1, double **cpmx2, int i1, int lgth2, double **doublework, int **intwork, int initialize )
37 int **cpmxpdn = intwork;
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