Lines Matching refs:cellscore
1480 int cellscore; in read_hidden_DnaMatchBlock() local
1502 … max_hidden_DnaMatchBlock(mat,startj,i,j,state,isspecial,&i,&j,&state,&isspecial,&cellscore); in read_hidden_DnaMatchBlock()
1549 …state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) in max_hidden_DnaMatchBlock() argument
1575 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1576 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,UNMATCHED_TARGET); in max_hidden_DnaMatchBlock()
1586 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1587 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH65); in max_hidden_DnaMatchBlock()
1597 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1598 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-0,j-1,MATCH65); in max_hidden_DnaMatchBlock()
1608 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1609 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,MATCH65); in max_hidden_DnaMatchBlock()
1622 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1623 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,UNMATCHED_TARGET); in max_hidden_DnaMatchBlock()
1633 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1634 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH75); in max_hidden_DnaMatchBlock()
1644 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1645 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-0,j-1,MATCH75); in max_hidden_DnaMatchBlock()
1655 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1656 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,MATCH75); in max_hidden_DnaMatchBlock()
1669 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1670 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,UNMATCHED_TARGET); in max_hidden_DnaMatchBlock()
1680 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1681 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH85); in max_hidden_DnaMatchBlock()
1691 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1692 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-0,j-1,MATCH85); in max_hidden_DnaMatchBlock()
1702 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1703 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,MATCH85); in max_hidden_DnaMatchBlock()
1716 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1717 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,UNMATCHED_TARGET); in max_hidden_DnaMatchBlock()
1727 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1728 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH95); in max_hidden_DnaMatchBlock()
1738 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1739 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-0,j-1,MATCH95); in max_hidden_DnaMatchBlock()
1749 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1750 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-1,MATCH95); in max_hidden_DnaMatchBlock()
1764 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1765 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,UNMATCHED_QUERY); in max_hidden_DnaMatchBlock()
1775 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1776 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH95); in max_hidden_DnaMatchBlock()
1786 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1787 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH85); in max_hidden_DnaMatchBlock()
1797 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1798 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH75); in max_hidden_DnaMatchBlock()
1808 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1809 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-1,j-0,MATCH65); in max_hidden_DnaMatchBlock()
1822 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1823 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-0,j-1,UNMATCHED_TARGET); in max_hidden_DnaMatchBlock()
1833 if( cellscore != NULL) { in max_hidden_DnaMatchBlock()
1834 *cellscore = cscore - DnaMatchBlock_HIDDEN_MATRIX(mat,i-0,j-1,UNMATCHED_QUERY); in max_hidden_DnaMatchBlock()
1867 int cellscore; in read_special_strip_DnaMatchBlock() local
1893 … max_special_strip_DnaMatchBlock(mat,i,j,state,isspecial,&i,&j,&state,&isspecial,&cellscore); in read_special_strip_DnaMatchBlock()
1942 …state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) in max_special_strip_DnaMatchBlock() argument
1991 … j,int state,int cscore,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) in max_matrix_to_special_DnaMatchBlock() argument
2039 if( cellscore != NULL) { in max_matrix_to_special_DnaMatchBlock()
2040 *cellscore = cscore - DnaMatchBlock_DC_SHADOW_SPECIAL(mat,i-1,j-0,START); in max_matrix_to_special_DnaMatchBlock()
4180 int cellscore = (-1); in PackAln_read_generic_DnaMatchBlock() local
4217 … max_calc_special_DnaMatchBlock(mat,i,j,state,isspecial,&i,&j,&state,&isspecial,&cellscore,h); in PackAln_read_generic_DnaMatchBlock()
4219 max_calc_DnaMatchBlock(mat,i,j,state,isspecial,&i,&j,&state,&isspecial,&cellscore,h); in PackAln_read_generic_DnaMatchBlock()
4236 prev->score = cellscore; in PackAln_read_generic_DnaMatchBlock()
4346 …special,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore,DnaMatchBlock_ac… in max_calc_DnaMatchBlock() argument
4372 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4373 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,UNMATCHED_TARGET); in max_calc_DnaMatchBlock()
4383 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4384 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH65); in max_calc_DnaMatchBlock()
4394 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4395 *cellscore = cscore - (*h.access_main)(mat,i-0,j-1,MATCH65); in max_calc_DnaMatchBlock()
4405 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4406 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,MATCH65); in max_calc_DnaMatchBlock()
4419 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4420 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,UNMATCHED_TARGET); in max_calc_DnaMatchBlock()
4430 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4431 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH75); in max_calc_DnaMatchBlock()
4441 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4442 *cellscore = cscore - (*h.access_main)(mat,i-0,j-1,MATCH75); in max_calc_DnaMatchBlock()
4452 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4453 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,MATCH75); in max_calc_DnaMatchBlock()
4466 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4467 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,UNMATCHED_TARGET); in max_calc_DnaMatchBlock()
4477 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4478 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH85); in max_calc_DnaMatchBlock()
4488 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4489 *cellscore = cscore - (*h.access_main)(mat,i-0,j-1,MATCH85); in max_calc_DnaMatchBlock()
4499 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4500 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,MATCH85); in max_calc_DnaMatchBlock()
4513 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4514 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,UNMATCHED_TARGET); in max_calc_DnaMatchBlock()
4524 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4525 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH95); in max_calc_DnaMatchBlock()
4535 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4536 *cellscore = cscore - (*h.access_main)(mat,i-0,j-1,MATCH95); in max_calc_DnaMatchBlock()
4546 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4547 *cellscore = cscore - (*h.access_main)(mat,i-1,j-1,MATCH95); in max_calc_DnaMatchBlock()
4562 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4563 *cellscore = cscore - (*h.access_special)(mat,i-1,j-0,START); in max_calc_DnaMatchBlock()
4574 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4575 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,UNMATCHED_QUERY); in max_calc_DnaMatchBlock()
4585 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4586 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH95); in max_calc_DnaMatchBlock()
4596 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4597 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH85); in max_calc_DnaMatchBlock()
4607 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4608 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH75); in max_calc_DnaMatchBlock()
4618 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4619 *cellscore = cscore - (*h.access_main)(mat,i-1,j-0,MATCH65); in max_calc_DnaMatchBlock()
4632 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4633 *cellscore = cscore - (*h.access_main)(mat,i-0,j-1,UNMATCHED_TARGET); in max_calc_DnaMatchBlock()
4643 if( cellscore != NULL) { in max_calc_DnaMatchBlock()
4644 *cellscore = cscore - (*h.access_main)(mat,i-0,j-1,UNMATCHED_QUERY); in max_calc_DnaMatchBlock()
4676 …special,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore,DnaMatchBlock_ac… in max_calc_special_DnaMatchBlock() argument
4703 if( cellscore != NULL) { in max_calc_special_DnaMatchBlock()
4704 *cellscore = cscore - (*h.access_main)(mat,i-0,j-0,UNMATCHED_TARGET); in max_calc_special_DnaMatchBlock()