Home
last modified time | relevance | path

Searched refs:sufflookback (Results 1 – 4 of 4) sorted by relevance

/dports/biology/gmap/gmap-2020-09-12/src/
H A Dstage2.c121 static int sufflookback; variable
145 sufflookback = sufflookback_in; in Stage2_setup()
1120 lookback = sufflookback; in score_querypos_lookback_one()
1158 lookback = sufflookback/2; in score_querypos_lookback_one()
1663 if (nseen <= /*nlookback*/1 || querydistance - indexsize_nt <= /*lookback*/sufflookback/2) { in score_querypos_lookback_mult()
1666 …(nseen <= /*nlookback*/nsufflookback || querydistance - indexsize_nt <= /*lookback*/sufflookback) { in score_querypos_lookback_mult()
2055 lookback = sufflookback; in score_querypos_lookforward_one()
2092 lookback = sufflookback/2; in score_querypos_lookforward_one()
2587 if (nseen <= /*nlookback*/1 || querydistance - indexsize_nt <= /*lookback*/sufflookback/2) { in score_querypos_lookforward_mult()
2590 …(nseen <= /*nlookback*/nsufflookback || querydistance - indexsize_nt <= /*lookback*/sufflookback) { in score_querypos_lookforward_mult()
H A Dgsnap.c174 static int sufflookback = 60;
H A Dgmap.c274 static int sufflookback = 60; variable
7013 suboptimal_score_start,suboptimal_score_end,sufflookback,nsufflookback,maxintronlen,mode, in main()
/dports/biology/gmap/gmap-2020-09-12/
H A DChangeLog22328 instead of gendistance. Making sufflookback depend on mapfraction.
27377 * snap.c, gmap.c: Added parameter for sufflookback, potentially different
27378 from maxlookback, but found that setting maxlookback >> sufflookback led
27379 to long, poor alignments, so set maxlookback = sufflookback.
27382 sufflookback, to be used in stage 2, and possibly different from