02336754147822f5aa61ba13277123b2cc629001 markd Thu May 20 08:38:55 2021 -0700 Moved pslMap, pslMapPostChain, pslRc, pslSwap to src/utils, as they do not have hg/lib dependencies. diff --git src/utils/pslMap/tests/expected/testMapFileWithInQName.psl src/utils/pslMap/tests/expected/testMapFileWithInQName.psl new file mode 100644 index 0000000..ffa291a --- /dev/null +++ src/utils/pslMap/tests/expected/testMapFileWithInQName.psl @@ -0,0 +1,17 @@ +166 0 0 0 0 0 0 0 - ENSMUST00000145003.1 1424 0 166 scaffold-66687 460899 103520 103686 1 166, 1258, 103520, +440 0 0 0 0 0 2 3808 - ENSMUST00000145003.1 1424 166 606 scaffold-153183 66466 14455 18703 3 106,127,207, 818,924,1051, 14455,15780,18496, +538 0 0 0 0 0 4 91592 - ENSMUST00000145003.1 1424 606 1144 scaffold-290469 110530 11498 103628 5 95,108,171,34,130, 280,375,483,654,688, 11498,61470,96697,97127,103498, +280 0 0 0 0 0 0 0 - ENSMUST00000145003.1 1424 1144 1424 scaffold-100687 188060 127380 127660 1 280, 0, 127380, +166 0 0 0 0 0 0 0 - ENSMUST00000123498.1 2117 0 166 scaffold-66687 460899 103520 103686 1 166, 1951, 103520, +440 0 0 0 0 0 2 3808 - ENSMUST00000123498.1 2117 166 606 scaffold-153183 66466 14455 18703 3 106,127,207, 1511,1617,1744, 14455,15780,18496, +538 0 0 0 0 0 4 91592 - ENSMUST00000123498.1 2117 606 1144 scaffold-290469 110530 11498 103628 5 95,108,171,34,130, 973,1068,1176,1347,1381, 11498,61470,96697,97127,103498, +231 0 0 0 0 0 0 0 - ENSMUST00000123498.1 2117 1144 1375 scaffold-100687 188060 127429 127660 1 231, 742, 127429, +742 0 0 0 0 0 0 0 + ENSMUST00000123498.1 2117 1375 2117 scaffold-225031 201486 91009 91751 1 742, 1375, 91009, +660 0 0 0 0 0 4 24711 - ENSMUST00000153137.1 2158 0 660 scaffold-153183 66466 14455 39826 5 106,127,207,82,138, 1498,1604,1731,1938,2020, 14455,15780,18496,39043,39688, +538 0 0 0 0 0 4 91592 - ENSMUST00000153137.1 2158 660 1198 scaffold-290469 110530 11498 103628 5 95,108,171,34,130, 960,1055,1163,1334,1368, 11498,61470,96697,97127,103498, +960 0 0 0 0 0 2 9143 - ENSMUST00000153137.1 2158 1198 2158 scaffold-100687 188060 117557 127660 3 586,143,231, 0,586,729, 117557,123630,127429, +660 0 0 0 0 0 4 24711 - ENSMUST00000130447.1 2171 0 660 scaffold-153183 66466 14455 39826 5 106,127,207,82,138, 1511,1617,1744,1951,2033, 14455,15780,18496,39043,39688, +538 0 0 0 0 0 4 91592 - ENSMUST00000130447.1 2171 660 1198 scaffold-290469 110530 11498 103628 5 95,108,171,34,130, 973,1068,1176,1347,1381, 11498,61470,96697,97127,103498, +231 0 0 0 0 0 0 0 - ENSMUST00000130447.1 2171 1198 1429 scaffold-100687 188060 127429 127660 1 231, 742, 127429, +742 0 0 0 0 0 0 0 + ENSMUST00000130447.1 2171 1429 2171 scaffold-225031 201486 91009 91751 1 742, 1429, 91009, +283 0 0 0 0 0 2 37246 - ENSMUST00000128945.1 283 0 283 scaffold-290469 110530 59199 96728 3 144,108,31, 0,144,252, 59199,61470,96697,