a97f8a0fffb31a2b3521e573a03f454fb60275d3
markd
  Tue May 30 21:30:12 2023 -0700
Add mechnaism to fix problem with mapping prot-prot via prot-na alignment by explictly specifying the type of alignments

diff --git src/utils/pslMap/tests/expected/testSpGencode.psl src/utils/pslMap/tests/expected/testSpGencode.psl
index e88cf25..5a18e4b 100644
--- src/utils/pslMap/tests/expected/testSpGencode.psl
+++ src/utils/pslMap/tests/expected/testSpGencode.psl
@@ -1 +1 @@
-162	0	0	0	1	13	0	0	+	Q9Y215-1#11541	175	0	175	ENST00000679838.1	2947	190	352	2	124,38,	0,137,	190,314,
+525	0	0	0	0	0	0	0	+	Q9Y215-1#11541	525	0	525	ENST00000679838.1	2947	367	892	1	525,	0,	367,