diff --git a/bwamem_extra.c b/bwamem_extra.c
index a87e18b5..22c3f33c 100644
--- a/bwamem_extra.c
+++ b/bwamem_extra.c
@@ -110,7 +110,7 @@ mem_alnreg_v mem_align1(const mem_opt_t *opt, const bwt_t *bwt, const bntseq_t *
 	memcpy(seq, seq_, l_seq); // makes a copy of seq_
 	ar = mem_align1_core(opt, bwt, bns, pac, l_seq, seq, 0);
 	//mem_mark_primary_se(opt, ar.n, ar.a, lrand48());
-	uint32_t k = __ac_Wang_hash(__ac_X31_hash_string(seq) ^ 1337); //Jeremiah
+	//uint32_t k = __ac_Wang_hash(__ac_X31_hash_string(seq) ^ 1337); //Jeremiah
 	free(seq);
 	return ar;
 }
diff --git a/bwtsw2_core.c b/bwtsw2_core.c
index 11196015..66979016 100644
--- a/bwtsw2_core.c
+++ b/bwtsw2_core.c
@@ -450,7 +450,7 @@ bwtsw2_t **bsw2_core(const bntseq_t *bns, const bsw2opt_t *opt, const bwtl_t *ta
 {
 	bsw2stack_t *stack = (bsw2stack_t*)pool->stack;
 	bwtsw2_t *b, *b1, **b_ret;
-	int i, j, score_mat[16], *heap, heap_size, n_tot = 0;
+	int i, j, score_mat[16], *heap, heap_size; //, n_tot = 0;
 	struct rusage curr, last;
 	khash_t(qintv) *rhash;
 	khash_t(64) *chash;
@@ -483,7 +483,7 @@ bwtsw2_t **bsw2_core(const bntseq_t *bns, const bsw2opt_t *opt, const bwtl_t *ta
 		bwtint_t k, l;
 
 		v = stack_pop(stack); old_n = v->n;
-		n_tot += v->n;
+		//n_tot += v->n;
 
 		for (i = 0; i < v->n; ++i) { // test max depth and band width
 			bsw2cell_t *p = v->array + i;