/dports/biology/mafft/mafft-7.267-without-extensions/core/ |
H A D | MSalign11.c | 8 static void extendmseq( char **mseq1, char **mseq2, char **seq1, char **seq2, int i, int j, int pre… in extendmseq() 49 char **mseq1, char **mseq2, in Atracking() 121 …icalw, double *m, int *mp, int iin, int jin, char **seq1, char **seq2, char **mseq1, char **mseq2 ) in backdp() 316 static char **mseq2; in MSalign11() local
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H A D | getlag.c | 157 void treebase( char **name, int nlen[M], char **seq, char **aseq, char **mseq1, char **mseq2, doubl… in treebase() 330 static char **mseq1, **mseq2; in main() local
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H A D | mafft-profile.c | 179 …nseq2, char **name, int *nlen, char **seq, char **aseq, char **mseq1, char **mseq2, int ***topol, … in GroupAlign() 312 static char **mseq1, **mseq2; in main() local
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H A D | SAalignmm.c | 51 char **mseq1, char **mseq2, in Atracking() 178 static TLS char **mseq2; in Aalign() local
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H A D | pairash.c | 332 static double calltmalign( char **mseq1, char **mseq2, double *equiv, char *fname1, char *chain1, c… in calltmalign() 409 static double callrash( int mem1, int mem2, char **mseq1, char **mseq2, double *equiv, char *fname1… in callrash() 1024 …ign( char **name, int nlen[M], char **seq, char **aseq, char **mseq1, char **mseq2, double *equiv,… in pairalign() 1318 static char **mseq1, **mseq2; in main() local
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H A D | rnatest.c | 329 static char **mseq1, **mseq2; in main() local
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H A D | pairlocalalign.c | 236 static double recallpairfoldalign( char **mseq1, char **mseq2, int m1, int m2, int *of1pt, int *of2… in recallpairfoldalign() 1214 static double recalllara( char **mseq1, char **mseq2, int alloclen ) in recalllara() 1277 static double calldafs_giving_bpp( char **mseq1, char **mseq2, char **bpp1, char **bpp2, int allocl… in calldafs_giving_bpp() 1394 static double callmxscarna_giving_bpp( char **mseq1, char **mseq2, char **bpp1, char **bpp2, int al… in callmxscarna_giving_bpp() 1939 char **mseq1, **mseq2, **distseq1, **distseq2, **dumseq1, **dumseq2; in athread() local 2329 …*seq, char **aseq, char **dseq, int *thereisxineachseq, char **mseq1, char **mseq2, int alloclen, … in pairalign() 2926 char **mseq1, **mseq2; in main() local
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H A D | MSalignmm.c | 176 char **mseq1, char **mseq2, in Atracking() 323 …jst, int jen, int alloclen, int fulllen1, int fulllen2, char **mseq1, char **mseq2, double **gapin… in MSalignmm_tanni() 635 …jst, int jen, int alloclen, int fulllen1, int fulllen2, char **mseq1, char **mseq2, int depth, dou… in MSalignmm_rec() 1655 char **mseq2 in freearrays() 1681 char **mseq2; in MSalignmm() local 1928 …jst, int jen, int alloclen, int fulllen1, int fulllen2, char **mseq1, char **mseq2, double **gapin… in MSalignmm_tanni_variousdist() 2243 …jst, int jen, int alloclen, int fulllen1, int fulllen2, char **mseq1, char **mseq2, int depth, dou… in MSalignmm_rec_variousdist() 3294 char **mseq2 in freearrays_variousdist() 3322 char **mseq2; in MSalignmm_variousdist() local
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H A D | genalign11.c | 32 char **mseq1, char **mseq2, in gentracking() 142 static TLS char **mseq2; in genL__align11() local
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H A D | Lalignmm.c | 346 …pmx2, int ist, int ien, int jst, int jen, int alloclen, char **mseq1, char **mseq2, int depth, dou… in MSalign2m2m_rec() 1246 …pmx2, int ist, int ien, int jst, int jen, int alloclen, char **mseq1, char **mseq2, int depth, dou… in MSalignmm_rec() 2169 char **mseq2; in Lalignmm_hmout() local 2372 char **mseq2; in Lalign2m2m_hmout() local
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H A D | makedirectionlist.c | 334 char **mseq1, **mseq2; in directionthread() local 414 static char **mseq1f, **mseq1r, **mseq2; in main() local
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H A D | suboptalign11.c | 40 char **mseq1, char **mseq2, in gentracking() 159 static char **mseq2; in suboptalign11() local
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H A D | iteration.c | 103 static char *mseq1, **mseq2 = NULL; in iteration() local
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H A D | Galign11.c | 29 char **mseq1, char **mseq2, in Atracking() 199 static TLS char **mseq2 = NULL; in G__align11() local
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H A D | Lalign11.c | 93 char **mseq1, char **mseq2, in Ltracking() 233 static TLS char **mseq2; in L__align11() local
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H A D | tbfast.c | 540 char **mseq1, **mseq2; in treebasethread() local 915 void treebase( int *nlen, char **aseq, int nadd, char *mergeoralign, char **mseq1, char **mseq2, in… in treebase() 1372 static char **mseq1, **mseq2; in main() local
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H A D | Salignmm.c | 743 char **mseq1, char **mseq2, in Atracking_localhom() 882 char **mseq1, char **mseq2, in Atracking() 1044 static TLS char **mseq2; in A__align() local 1811 static TLS char **mseq2; in A__align_variousdist() local
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H A D | partSalignmm.c | 669 char **mseq1, char **mseq2, in Atracking_localhom() 817 char **mseq1, char **mseq2, in Atracking() 982 static TLS char **mseq2; in partA__align() local 1670 static TLS char **mseq2; in partA__align_variousdist() local
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H A D | tditeration.c | 256 char **mseq1, char **mseq2, in freelocalarrays() 369 char **mseq1, **mseq2; in athread() local 1267 static char **mseq1, **mseq2; local
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H A D | disttbfast.c | 903 char **mseq1, **mseq2; in treebasethread() local 1299 …( int *nlen, char **aseq, int nadd, char *mergeoralign, char **mseq1, char **mseq2, int ***topol, … in treebase() argument 1836 char **mseq1 = NULL, **mseq2 = NULL; in disttbfast() local
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H A D | mltaln9.c | 197 char *mseq1, *mseq2; in intergroup_score_consweight() local 262 char *mseq1, *mseq2; in intergroup_score_gapnomi() local 328 char *mseq1, *mseq2; in intergroup_score_multimtx() local 406 char *mseq1, *mseq2; in intergroup_score_dynmtx() local 482 char *mseq1, *mseq2; in intergroup_score() local 556 char *mseq1, *mseq2; in intergroup_score_new() local 619 char *mseq1, *mseq2; in score_calc5() local 740 char *mseq1, *mseq2; in score_calc4() local 5798 void FreeTmpSeqs( char **mseq2, char *mseq1 ) in FreeTmpSeqs() 6174 char *mseq1, *mseq2; in score_calc_for_score() local [all …]
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H A D | addfunctions.c | 451 char **mseq2, **mseq0, **mseq1; in insertnewgaps() local 682 char **mseq2, **mseq0, **mseq1; in insertnewgaps_bothorders() local
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H A D | splittbfast.c | 937 static char **mseq1, **mseq2; in pairalign() local 1201 static char **mseq2 = NULL; in splitseq_mq() local
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H A D | Dalignmm.c | 635 char **mseq1, char **mseq2, in Atracking_localhom() 774 char **mseq1, char **mseq2, in Atracking() 2738 static TLS char **mseq2; in D__align() local 4574 static TLS char **mseq2; in D__align_variousdist() local
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H A D | addsingle.c | 1150 …, int *nlen, char **aseq, int nadd, char *mergeoralign, char **mseq1, char **mseq2, int ***topol, … in treebase() 1549 char **mseq1 = NULL, **mseq2 = NULL; in addsinglethread() local
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