2c3bfb6253d13a518eb2f3697d62224bdfa4aa54
markd
  Thu Mar 7 21:01:21 2024 -0800
add new test cases that shows that bamToPsl is broken; restructure tests to match the rest

diff --git src/utils/bamToPsl/tests/expected/test1.psl src/utils/bamToPsl/tests/expected/test1.psl
new file mode 100644
index 0000000..d507b25
--- /dev/null
+++ src/utils/bamToPsl/tests/expected/test1.psl
@@ -0,0 +1,11 @@
+psLayout version 3
+
+match	mis- 	rep. 	N's	Q gap	Q gap	T gap	T gap	strand	Q        	Q   	Q    	Q  	T        	T   	T    	T  	block	blockSizes 	qStarts	 tStarts
+     	match	match	   	count	bases	count	bases	      	name     	size	start	end	name     	size	start	end	count
+---------------------------------------------------------------------------------------------------------------------------------------------------------------
+1579	0	0	0	0	0	6	18460	-	NM_020469.2	1579	0	1579	chr9	138394717	133255175	133275214	8	1181,113,21,36,48,57,70,53,	0,1181,1294,1315,1351,1399,1456,1526,	133255175,133257408,133257521,133258096,133259818,133261317,133262098,133275161,
+310	0	0	0	0	0	6	19	-	NM_020469.2	310	0	310	chr9	138394717	133254914	133255243	8	47,71,41,8,6,25,82,30,	0,47,118,159,167,173,198,280,	133254914,133254961,133255043,133255086,133255095,133255102,133255129,133255213,
+192	0	0	0	0	0	6	116	-	NM_020469.2	192	0	192	chr9	138394717	133254856	133255164	8	35,22,27,17,7,24,29,31,	0,35,57,84,101,108,132,161,	133254856,133254891,133254914,133254943,133254962,133255025,133255102,133255133,
+144	0	0	0	0	0	5	169	-	NM_020469.2	144	0	144	chr9	138394717	133254850	133255163	7	42,2,24,8,6,8,54,	0,42,44,68,76,82,90,	133254850,133254893,133255025,133255049,133255061,133255068,133255109,
+68	0	0	0	0	0	3	233	-	NM_020469.2	68	0	68	chr9	138394717	135261312	135261613	4	15,19,17,17,	0,15,34,51,	135261312,135261372,135261444,135261596,
+36	0	0	0	0	0	0	0	-	NM_020469.2	36	0	36	chr9	138394717	133255461	133255497	1	36,	0,	133255461,