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Searched refs:pairlength_deviation (Results 1 – 5 of 5) sorted by relevance

/dports/biology/gmap/gmap-2020-09-12/src/
H A Dgsnap.c322 static int pairlength_deviation = 100; variable
2021 pairlength_deviation = atoi(check_valid_int(optarg)); in parse_command_line()
3498 min_intronlength,expected_pairlength,pairlength_deviation, in worker_setup()
3510 expected_pairlength,pairlength_deviation, in worker_setup()
3520 expected_pairlength,pairlength_deviation,circularp,merge_samechr_p); in worker_setup()
4591 ",pairlength_deviation); in print_program_usage()
H A Dconcordance.c28 static Chrpos_T pairlength_deviation; variable
1858 pairlength_deviation = pairlength_deviation_in; in Concordance_setup()
1859 adjacent_pairlength = expected_pairlength + pairlength_deviation; in Concordance_setup()
H A Dstage3hr.c211 static Chrpos_T pairlength_deviation; variable
291 pairlength_deviation = pairlength_deviation_in; in Stage3hr_setup()
293 if (pairlength_deviation > expected_pairlength) { in Stage3hr_setup()
296 expected_pairlength_low = expected_pairlength - pairlength_deviation; in Stage3hr_setup()
298 expected_pairlength_high = expected_pairlength + pairlength_deviation; in Stage3hr_setup()
299 expected_pairlength_very_high = expected_pairlength + 10*pairlength_deviation; in Stage3hr_setup()
11715 if (new->absdifflength <= pairlength_deviation) { in Stage3pair_new()
12632 } else if (best_hitpair->absdifflength <= (Chrpos_T) pairlength_deviation && in hitpair_goodness_cmp()
12633 hitpair->absdifflength > (Chrpos_T) pairlength_deviation) { in hitpair_goodness_cmp()
12637 } else if (hitpair->absdifflength <= (Chrpos_T) pairlength_deviation && in hitpair_goodness_cmp()
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H A Dstage1hr.c201 static Chrpos_T pairlength_deviation; variable
3099 pairlength_deviation = pairlength_deviation_in; in Stage1hr_setup()
/dports/biology/gmap/gmap-2020-09-12/
H A DChangeLog10294 pairlength_deviation variables.
12132 expected_pairlength and pairlength_deviation values in Stage3hr_setup, and
15108 * stage3hr.c: Using pairlength_deviation to eliminate pairs, even if
15322 for pairlength_deviation