| 1 | /* |
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| 2 | * ppuzzle.h |
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| 3 | * |
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| 4 | * |
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| 5 | * Part of TREE-PUZZLE 5.0 (June 2000) |
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| 6 | * |
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| 7 | * (c) 1999-2000 by Heiko A. Schmidt, Korbinian Strimmer, |
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| 8 | * M. Vingron, and Arndt von Haeseler |
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| 9 | * (c) 1995-1999 by Korbinian Strimmer and Arndt von Haeseler |
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| 10 | * |
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| 11 | * All parts of the source except where indicated are distributed under |
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| 12 | * the GNU public licence. See http://www.opensource.org for details. |
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| 13 | */ |
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| 14 | |
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| 15 | |
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| 16 | #ifndef _PPUZZLE_ |
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| 17 | #define _PPUZZLE_ |
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| 18 | |
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| 19 | #include "puzzle.h" |
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| 20 | #include "util.h" |
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| 21 | #include "ml.h" |
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| 22 | #include "sched.h" |
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| 23 | |
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| 24 | extern int PP_IamSlave; |
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| 25 | extern int PP_IamMaster; |
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| 26 | |
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| 27 | #ifdef PARALLEL |
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| 28 | # ifdef SEQUENTIAL |
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| 29 | # undef SEQUENTIAL |
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| 30 | # endif |
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| 31 | # define SEQUENTIAL 0 |
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| 32 | # undef PARALLEL |
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| 33 | # define PARALLEL 1 |
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| 34 | # include "mpi.h" |
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| 35 | #else |
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| 36 | # ifdef SEQUENTIAL |
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| 37 | # undef SEQUENTIAL |
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| 38 | # endif |
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| 39 | # define SEQUENTIAL 1 |
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| 40 | # define PARALLEL 0 |
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| 41 | # undef PVERBOSE |
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| 42 | # undef PVERBOSE1 |
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| 43 | # undef PVERBOSE2 |
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| 44 | # undef PVERBOSE3 |
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| 45 | #endif |
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| 46 | |
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| 47 | /* PVERBOSE3 includes PVERBOSE2 includes PVERBOSE1 */ |
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| 48 | /* PVERBOSE1 is default (PVERBOSE) */ |
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| 49 | |
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| 50 | #ifdef PVERBOSE |
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| 51 | # undef PVERBOSE1 |
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| 52 | # define PVERBOSE1 |
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| 53 | #endif |
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| 54 | #ifdef PVERBOSE3 |
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| 55 | # undef PVERBOSE2 |
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| 56 | # define PVERBOSE2 |
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| 57 | #endif |
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| 58 | #ifdef PVERBOSE2 |
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| 59 | # undef PVERBOSE1 |
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| 60 | # define PVERBOSE1 |
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| 61 | #endif |
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| 62 | |
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| 63 | #if PARALLEL |
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| 64 | # define PP_DONE 0 /* Finished M->S */ |
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| 65 | # define PP_SIZES 1 /* Array sizes needed M->S */ |
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| 66 | # define PP_DATA 2 /* Data Arrays M->S */ |
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| 67 | |
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| 68 | # define PP_ALLQUARTS 3 /* All Quartets M->S */ |
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| 69 | |
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| 70 | # define PP_DOQUART 4 /* do 4Specs M->S */ |
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| 71 | # define PP_DOQUARTX2 5 /* do 4Specs + X^2 M->S */ |
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| 72 | # define PP_QUART 6 /* quartet back S->M */ |
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| 73 | # define PP_QUARTX2 7 /* quartet + X^2 back S->M */ |
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| 74 | |
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| 75 | # define PP_DOQUARTBLOCKSPECS 8 /* do block Specs M->S */ |
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| 76 | # define PP_DOQUARTBLOCK 9 /* do block of Quarts M->S */ |
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| 77 | # define PP_QUARTBLOCKSPECS 10 /* block Specs S->M */ |
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| 78 | # define PP_QUARTBLOCK 11 /* block of Quarts S->M */ |
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| 79 | |
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| 80 | # define PP_DOPUZZLE 12 /* do Puzzling step M->S */ |
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| 81 | # define PP_PUZZLE 13 /* Puzzling tree back S->M */ |
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| 82 | # define PP_DOPUZZLEBLOCK 14 /* do Puzzling block M->S */ |
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| 83 | # define PP_DOPUZZLEBLOCKSPECS 15 /* do Puzzling block M->S */ |
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| 84 | # define PP_PUZZLEBLOCK 16 /* Puzzling block S->M */ |
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| 85 | # define PP_PUZZLEBLOCKSPECS 17 /* Puzzling block S->M */ |
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| 86 | |
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| 87 | # define PP_STATS 18 /* Slave Statistics S->M */ |
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| 88 | |
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| 89 | # define PP_WAIT 18 /* waiting for work S->M */ |
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| 90 | # define PP_TEST 100 /* testing */ |
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| 91 | |
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| 92 | # define PERMUTQUEUESIZE 100 |
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| 93 | # define QUARTQUEUESIZE 100 |
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| 94 | |
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| 95 | extern int PP_IamMaster; |
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| 96 | extern int PP_IamSlave; |
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| 97 | extern int PP_Myid; |
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| 98 | extern int PP_MyMaster; |
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| 99 | extern int PP_NumProcs; |
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| 100 | extern MPI_Comm PP_Comm; |
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| 101 | #endif /* PARALLEL */ |
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| 102 | |
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| 103 | extern int *permutsent, |
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| 104 | *permutrecved, |
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| 105 | *quartsent, |
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| 106 | *quartrecved, |
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| 107 | *doquartsent, |
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| 108 | *doquartrecved, |
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| 109 | *splitsent, |
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| 110 | *splitrecved, |
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| 111 | *permutsentn, |
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| 112 | *permutrecvedn, |
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| 113 | *quartsentn, |
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| 114 | *quartrecvedn, |
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| 115 | *doquartsentn, |
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| 116 | *doquartrecvedn, |
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| 117 | *splitsentn, |
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| 118 | *splitrecvedn; |
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| 119 | extern double *walltimes, |
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| 120 | *cputimes; |
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| 121 | extern double *fullwalltimes, |
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| 122 | *fullcputimes; |
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| 123 | extern double *altwalltimes, |
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| 124 | *altcputimes; |
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| 125 | |
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| 126 | extern int PP_permutsent, |
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| 127 | PP_permutrecved, |
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| 128 | PP_quartsent, |
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| 129 | PP_quartrecved, |
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| 130 | PP_doquartsent, |
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| 131 | PP_doquartrecved, |
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| 132 | PP_splitsent, |
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| 133 | PP_splitrecved, |
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| 134 | PP_permutsentn, |
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| 135 | PP_permutrecvedn, |
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| 136 | PP_quartsentn, |
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| 137 | PP_quartrecvedn, |
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| 138 | PP_doquartsentn, |
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| 139 | PP_doquartrecvedn, |
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| 140 | PP_splitsentn, |
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| 141 | PP_splitrecvedn; |
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| 142 | |
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| 143 | extern double PP_starttime, |
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| 144 | PP_stoptime, |
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| 145 | PP_inittime, |
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| 146 | PP_paramcomptime, |
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| 147 | PP_paramsendtime, |
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| 148 | PP_quartcomptime, |
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| 149 | PP_quartsendtime, |
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| 150 | PP_puzzletime, |
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| 151 | PP_treetime; |
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| 152 | |
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| 153 | void num2quart(uli qnum, int *a, int *b, int *c, int *d); |
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| 154 | uli numquarts(int maxspc); |
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| 155 | uli quart2num (int a, int b, int c, int d); |
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| 156 | |
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| 157 | int slave_main(int argc, char *argv[]); |
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| 158 | void PP_Init(int *argc, char **argv[]); |
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| 159 | void PP_Finalize(); |
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| 160 | void PP_Printerror(FILE *of, int id, int err); |
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| 161 | void PP_do_puzzling(ivector trueID); |
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| 162 | |
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| 163 | void PP_RecvDoQuart(int *a, |
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| 164 | int *b, |
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| 165 | int *c, |
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| 166 | int *d, |
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| 167 | int *approx); |
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| 168 | void PP_SendDoQuart(int dest, |
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| 169 | int a, |
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| 170 | int b, |
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| 171 | int c, |
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| 172 | int d, |
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| 173 | int approx); |
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| 174 | void PP_RecvQuart(int *a, |
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| 175 | int *b, |
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| 176 | int *c, |
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| 177 | int *d, |
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| 178 | double *d1, |
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| 179 | double *d2, |
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| 180 | double *d3, |
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| 181 | int *approx); |
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| 182 | void PP_SendQuart(int a, |
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| 183 | int b, |
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| 184 | int c, |
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| 185 | int d, |
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| 186 | double d1, |
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| 187 | double d2, |
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| 188 | double d3, |
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| 189 | int approx); |
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| 190 | void PP_SendSizes(int mspc, |
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| 191 | int msite, |
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| 192 | int ncats, |
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| 193 | int nptrn, |
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| 194 | int rad, |
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| 195 | int outgr, |
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| 196 | double frconst, |
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| 197 | int rseed); |
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| 198 | void PP_RecvSizes(int *mspc, |
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| 199 | int *msite, |
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| 200 | int *ncats, |
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| 201 | int *nptrn, |
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| 202 | int *rad, |
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| 203 | int *outgr, |
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| 204 | double *frconst, |
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| 205 | int *rseed); |
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| 206 | void PP_RecvData( |
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| 207 | cmatrix Seqpat, /* cmatrix (Maxspc x Numptrn) */ |
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| 208 | ivector Alias, /* ivector (Maxsite) */ |
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| 209 | ivector Weight, /* ivector (Numptrn) */ |
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| 210 | ivector constpat, |
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| 211 | dvector Rates, /* dvector (numcats) */ |
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| 212 | dvector Eval, /* dvector (tpmradix) */ |
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| 213 | dvector Freqtpm, |
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| 214 | dmatrix Evec, /* dmatrix (tpmradix x tpmradix) */ |
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| 215 | dmatrix Ievc, |
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| 216 | dmatrix iexp, |
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| 217 | dmatrix Distanmat, /* dmatrix (Maxspc x Maxspc) */ |
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| 218 | dcube ltprobr); /* dcube (numcats x tpmradix x tpmradix) */ |
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| 219 | void PP_SendData( |
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| 220 | cmatrix Seqpat, /* cmatrix (Maxspc x Numptrn) */ |
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| 221 | ivector Alias, /* ivector (Maxsite) */ |
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| 222 | ivector Weight, /* ivector (Numptrn) */ |
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| 223 | ivector constpat, |
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| 224 | dvector Rates, /* dvector (numcats) */ |
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| 225 | dvector Eval, /* dvector (tpmradix) */ |
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| 226 | dvector Freqtpm, |
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| 227 | dmatrix Evec, /* dmatrix (tpmradix x tpmradix) */ |
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| 228 | dmatrix Ievc, |
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| 229 | dmatrix iexp, |
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| 230 | dmatrix Distanmat, /* dmatrix (Maxspc x Maxspc) */ |
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| 231 | dcube ltprobr); /* dcube (numcats x tpmradix x tpmradix) */ |
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| 232 | void PP_SendAllQuarts(unsigned long Numquartets, |
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| 233 | unsigned char *local_quartetinfo); |
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| 234 | void PP_RecvAllQuarts(int taxa, |
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| 235 | unsigned long *Numquartets, |
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| 236 | unsigned char *local_quartetinfo); |
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| 237 | |
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| 238 | void PP_SendDoQuartBlock(int dest, uli firstq, uli amount, int approx); |
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| 239 | void PP_RecvDoQuartBlock(uli *firstq, uli *amount, uli **bq, int *approx); |
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| 240 | void PP_SendQuartBlock(uli startq, |
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| 241 | uli numofq, |
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| 242 | unsigned char *local_quartetinfo, |
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| 243 | uli numofbq, |
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| 244 | uli *bq, |
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| 245 | int approx); |
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| 246 | void PP_RecvQuartBlock(int slave, |
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| 247 | uli *startq, |
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| 248 | uli *numofq, |
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| 249 | unsigned char *local_quartetinfo, |
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| 250 | int *approx); |
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| 251 | |
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| 252 | void PP_SendPermut(int dest, |
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| 253 | int taxa, |
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| 254 | ivector permut); |
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| 255 | void PP_RecvPermut(int taxa, |
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| 256 | ivector permut); |
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| 257 | void PP_SendDoPermutBlock(uli puzzlings); |
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| 258 | void PP_RecvDoPermutBlock(uli *taxa); |
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| 259 | |
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| 260 | void PP_SendSplits(int taxa, |
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| 261 | cmatrix biparts); |
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| 262 | void PP_RecvSplits(int taxa, |
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| 263 | cmatrix biparts); |
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| 264 | void PP_SendDone(); |
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| 265 | void PP_RecvDone(); |
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| 266 | |
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| 267 | int PP_emptyslave(); |
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| 268 | void PP_putslave(int sl); |
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| 269 | int PP_getslave(); |
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| 270 | |
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| 271 | void PP_cmpd(int rank, double a, double b); |
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| 272 | void PP_cmpi(int rank, int a, int b); |
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| 273 | |
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| 274 | #endif /* _PPUZZLE_ */ |
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