source "$BP_DIR/bp_test/lib/test.sh"
-run "$bp -a TCGTATGCCGTCTTCTGCTTG -I $in -O $tmp"
+run "$bp -m 0 -i 0 -d 0 -f TCGTATGCCGTCTTCTGCTT -I $in -O $tmp"
assert_no_diff $tmp $out.1
clean
-run "$bp -a TCGTATGCCGTCTTCTGCTTG -p 25 -I $in -O $tmp"
+run "$bp -m 0 -i 0 -d 0 -F TCGTATGCCGTCTTCTGCTT -I $in -O $tmp"
assert_no_diff $tmp $out.2
clean
-run "$bp -a TCGTATGCCGTCTTCTGCTTG -p -35 -I $in -O $tmp"
+run "$bp -m 0 -i 0 -d 0 -r TGACTACGACTACGACTACT -I $in -O $tmp"
assert_no_diff $tmp $out.3
clean
-run "$bp -a TCGTATGCCGTCTTCTGCTTG -e 5 -I $in -O $tmp"
+run "$bp -m 0 -i 0 -d 0 -R TGACTACGACTACGACTACT -I $in -O $tmp"
assert_no_diff $tmp $out.4
clean
-run "$bp -a TCGTATGCCGTCTTCTGCTTG -e 30 -I $in -O $tmp"
+run "$bp -m 0 -i 0 -d 0 -f TCGTATGCCGTCTTCTGCTT -r TGACTACGACTACGACTACT -I $in -O $tmp"
assert_no_diff $tmp $out.5
clean
+
+run "$bp -m 0 -i 0 -d 0 -f TCGTATGCCGTCTTCTGCTT -l 1 -r TGACTACGACTACGACTACT -I $in -O $tmp"
+assert_no_diff $tmp $out.6
+clean
+
+run "$bp -m 0 -i 0 -d 0 -f TCGTATGCCGTCTTCTGCTT -l 1 -r TGACTACGACTACGACTACT -L 1 -I $in -O $tmp"
+assert_no_diff $tmp $out.7
+clean
+
+run "$bp -m 10 -i 0 -d 0 -f TCGTATGCCGTCTTCTGCTT -r TGACTACGACTACGACTACT -I $in -O $tmp"
+assert_no_diff $tmp $out.8
+clean
+
+run "$bp -m 0 -i 10 -d 0 -f TCGTATGCCGTCTTCTGCTT -r TGACTACGACTACGACTACT -I $in -O $tmp"
+assert_no_diff $tmp $out.9
+clean
+
+run "$bp -m 0 -i 0 -d 10 -f TCGTATGCCGTCTTCTGCTT -r TGACTACGACTACGACTACT -I $in -O $tmp"
+assert_no_diff $tmp $out.10
+clean