| /dports/biology/mafft/mafft-7.267-without-extensions/core/ |
| H A D | io.c | 141 tmppt->overlapaa = overlapaa;
190 tmppt->overlapaa = overlapaa;
277 tmppt->overlapaa = overlapaa; in addlocalhom_r()
321 tmppt->overlapaa = overlapaa; in addlocalhom_r()
401 tmppt->overlapaa = overlapaa; in putlocalhom3()
457 tmppt->overlapaa = overlapaa; in putlocalhom3()
535 tmppt->overlapaa = overlapaa; in putlocalhom_ext()
589 tmppt->overlapaa = overlapaa; in putlocalhom_ext()
715 tmppt->overlapaa = overlapaa; in putlocalhom2()
769 tmppt->overlapaa = overlapaa; in putlocalhom2()
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| H A D | pair2hat3s.c | 268 …fprintf( hat3p, "%d %d %d %6.3f %d %d %d %d %p\n", i, j, tmpptr->overlapaa, tmpptr->opt * tsuyosa,… in pairalign()
290 …fprintf( hat3p, "%d %d %d %6.3f %d %d %d %d %p\n", i, j, tmpptr->overlapaa, tmpptr->opt * tsuyosa,… in pairalign()
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| H A D | functions.h | 173 …ocalhom2( char *al1, char *al2, LocalHom *localhompt, int off1, int off2, int opt, int overlapaa );
174 …2, double *equiv, double scale, LocalHom *localhompt, int off1, int off2, int opt, int overlapaa );
175 …lhom_ext( char *al1, char *al2, LocalHom *localhompt, int off1, int off2, int opt, int overlapaa );
176 …ocalhom3( char *al1, char *al2, LocalHom *localhompt, int off1, int off2, int opt, int overlapaa );
177 …localhom( char *al1, char *al2, LocalHom *localhompt, int off1, int off2, int opt, int overlapaa );
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| H A D | mltaln.h | 197 int overlapaa; member
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| H A D | dndfast7.c | 321 …fprintf( hat3p, "%d %d %d %6.3f %d %d %d %d %p\n", i, j, tmpptr->overlapaa, tmpptr->opt, tmpptr->s… in main()
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| H A D | multi2hat3s.c | 214 …fprintf( hat3p, "%d %d %d %6.3f %d %d %d %d k\n", i+seedoffset, j+seedoffset, tmpptr->overlapaa, t… in pairalign()
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| H A D | dndblast.c | 267 …fprintf( hat3p, "%d %d %d %6.3f %d %d %d %d %p\n", i, j, tmpptr->overlapaa, tmpptr->opt, tmpptr->s… in main()
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| H A D | pairlocalalign.c | 199 tmppt->overlapaa = tmppt->end2-tmppt->start2+1; in putlocalhom_last()
200 tmppt->opt = (double)iscore / tmppt->overlapaa * 5.8 / 600; in putlocalhom_last()
220 tmppt2->overlapaa = sumoverlap; in putlocalhom_last()
2873 …fprintf( hat3p, "%d %d %d %7.5f %d %d %d %d h\n", i, j, tmpptr->overlapaa, tmpptr->opt, tmpptr->st… in pairalign()
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| H A D | dvtditr.c | 530 localhomtable[i][j].overlapaa = -1.0; in main()
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| H A D | pairash.c | 1241 …fprintf( hat3p, "%d %d %d %7.5f %d %d %d %d k\n", i, j, tmpptr->overlapaa, tmpptr->opt, tmpptr->st… in pairalign()
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| H A D | mltaln9.c | 6758 ptr->importance = ptr->opt / ptr->overlapaa; in dontcalcimportance()
6865 importance[pos] += ieff[j] * tmpptr->opt / tmpptr->overlapaa; in calcimportance()
6933 …art1, tmpptr->end1, tmpptr->start2, tmpptr->end2, tmpptr->opt / tmpptr->overlapaa, eff[i] * tmpptr… in calcimportance()
6981 …art1, tmpptr->end1, tmpptr->start2, tmpptr->end2, tmpptr->opt / tmpptr->overlapaa, tmpptr->importa… in calcimportance()
7336 pt->overlapaa = overlp; in addlocalhom2_e()
7493 …fprintf( hat3p, "%d %d %d %6.3f %d %d %d %d %p\n", i, j, tmpptr->overlapaa, tmpptr->opt, tmpptr->s…
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| H A D | addsingle.c | 3004 localhomtable[i][j].overlapaa = -1.0; in main()
3042 localhomtable[i][j].overlapaa = -1.0; in main()
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| H A D | tbfast.c | 1487 localhomtable[i][j].overlapaa = -1.0; in main()
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