Improve code coverage.

cli.c

@@ -182,7 +182,7 @@ int main(int argc, char *argv[])
 	ksw_extz_t ez;
 	gzFile fp[2];
 
-	while ((c = getopt(argc, argv, "t:w:R:e:rscxvgz:A:B:O:E:Ka")) >= 0) {
+	while ((c = getopt(argc, argv, "t:w:R:e:rscxvgqz:A:B:O:E:Ka")) >= 0) {
 		if (c == 't') algo = optarg;
 		else if (c == 'w') w = atoi(optarg);
 		else if (c == 'R') rep = atoi(optarg);
@@ -194,6 +194,7 @@ int main(int argc, char *argv[])
 		else if (c == 'x') flag |= KSW_EZ_EXTZ_ONLY;
 		else if (c == 'v') flag |= KSW_EZ_REV_CIGAR;
 		else if (c == 'g') flag |= KSW_EZ_APPROX_MAX | KSW_EZ_APPROX_DROP;
+		else if (c == 'q') flag |= KSW_EZ_EQX;
 		else if (c == 'K') no_kalloc = 1;
 		else if (c == 'A') a = atoi(optarg);
 		else if (c == 'B') b = atoi(optarg);

coverage.sh

@@ -3,7 +3,7 @@ if [ -z "$KSW2COV" ]; then
     KSW2COV=./ksw2-test
 fi
 
-# Test code coverage of ksw2 
+# Test code coverage of ksw2
 u=$1
 t=$2
 
@@ -13,14 +13,21 @@ $KSW2COV $u $t ${@:2}
 # Enables KSW_EZ_RIGHT
 $KSW2COV $u $t -r ${@:2}
 
-## Enables KSW_EZ_GENERIC_SC  
-$KSW2COV $u $t -c ${@:2} 
+## Enables KSW_EZ_GENERIC_SC
+$KSW2COV $u $t -c ${@:2}
 
-# Enables KSW_EZ_REV_CIGAR  
-$KSW2COV $u $t -v ${@:2} 
+# Enables KSW_EZ_REV_CIGAR
+$KSW2COV $u $t -v ${@:2}
 
-# Enables KSW_EZ_EXTZ_ONLY  
-$KSW2COV $u $t -x ${@:2} 
+# Enables KSW_EZ_EXTZ_ONLY
+$KSW2COV $u $t -x ${@:2}
+
+# Enables KSW_EZ_APPROX_MAX
+$KSW2COV $u $t -g ${@:2}
+
+# Enables KSW_EZ_EQX
+# This option is disabled because the baseline kernel segmentation faults with this option enabled
+# $KSW2COV $u $t -q ${@:2}
 
 # Sets end_bonus and zdrop
 $KSW2COV $u $t ${@:2} -x -e 1 -z 1