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r917: added --max-chain-iter to avoid worst case

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Resolves #324
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Heng Li
2019-02-27 14:41:01 -05:00
parent ccf1680aaf
commit d431dc0181
8 changed files with 20 additions and 9 deletions
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minimap.h
+1 -1
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@@ -112,7 +112,7 @@ typedef struct {
int bw; // bandwidth
int max_gap, max_gap_ref; // break a chain if there are no minimizers in a max_gap window
int max_frag_len;
int max_chain_skip;
int max_chain_skip, max_chain_iter;
int min_cnt; // min number of minimizers on each chain
int min_chain_score; // min chaining score