c014326efaedb835a44760dbe4e2ed4c8e992412 braney Thu Feb 10 14:13:21 2022 -0800 add some tests to subColumn diff --git src/utils/subColumn/tests/expected/skipMissing.tab src/utils/subColumn/tests/expected/skipMissing.tab new file mode 100644 index 0000000..81ee8fe --- /dev/null +++ src/utils/subColumn/tests/expected/skipMissing.tab @@ -0,0 +1,59 @@ +1 11868 14409 ENST00000456328.2 1000 + 11868 11868 0,255,0 3 359,109,1189, 0,744,1352, DDX11L1 none none -1,-1,-1, ENST00000456328.2 DDX11L1 +10 14060 14604 ENST00000562162.1 1000 - 14060 14060 0,255,0 2 239,108, 0,436, RP11-631M21.1 none none -1,-1, ENST00000562162.1 RP11-631M21.1 +11 75779 76143 ENST00000519787.1 1000 + 75779 75779 0,255,0 1 364, 0, RP11-304M2.1 none none -1, ENST00000519787.1 RP11-304M2.1 +KI270721.1 2584 11802 ENST00000612848.1 1000 + 2675 11615 0,255,0 5 108,123,83,74,352, 0,3509,4737,5392,8866, AC004556.1 cmpl cmpl 0,2,2,1,0, ENST00000612848.1 AC004556.1 +12 12309 13501 ENST00000535849.1 1000 + 12309 12309 0,255,0 4 49,85,100,132, 0,430,792,1060, DDX11L8 none none -1,-1,-1,-1, ENST00000535849.1 DDX11L8 +13 18235499 18237167 ENST00000613127.1 1000 + 18235499 18237167 0,255,0 1 1668, 0, AL356585.2 cmpl cmpl 0, ENST00000613127.1 AL356585.2 +14 18333825 18340659 ENST00000553170.1 1000 + 18333825 18333825 0,255,0 3 71,174,46, 0,4417,6788, RP11-754I20.1 none none -1,-1,-1, ENST00000553170.1 RP11-754I20.1 +GL000009.2 56139 58376 ENST00000618686.1 1000 - 58080 58308 0,255,0 1 2237, 0, BX004987.4 cmpl cmpl 0, ENST00000618686.1 BX004987.4 +GL000194.1 53589 115018 ENST00000613230.1 1000 - 53646 54021 0,255,0 3 2087,59,33, 0,59202,61396, MAFIP cmpl cmpl 0,-1,-1, ENST00000613230.1 MAFIP +GL000225.1 37717 37800 ENST00000618260.1 1000 + 37717 37717 0,255,0 1 83, 0, AL671532.1 none none -1, ENST00000618260.1 AL671532.1 +KI270722.1 106374 106457 ENST00000618126.1 1000 + 106374 106374 0,255,0 1 83, 0, AC138774.3 none none -1, ENST00000618126.1 AC138774.3 +KI270723.1 32132 32228 ENST00000617107.1 1000 - 32132 32132 0,255,0 1 96, 0, AC242006.1 none none -1, ENST00000617107.1 AC242006.1 +KI270724.1 1528 1607 ENST00000619704.1 1000 - 1528 1528 0,255,0 1 79, 0, AC242209.2 none none -1, ENST00000619704.1 AC242209.2 +KI270726.1 26240 26534 ENST00000619729.1 1000 + 26240 26534 0,255,0 1 294, 0, AC233755.2 incmpl incmpl 0, ENST00000619729.1 AC233755.2 +15 19878554 19887814 ENST00000524329.1 1000 + 19878554 19878554 0,255,0 6 114,174,107,163,65,91, 0,276,2646,3722,6424,9169, RP11-79C23.1 none none -1,-1,-1,-1,-1,-1, ENST00000524329.1 RP11-79C23.1 +KI270727.1 20740 22392 ENST00000615005.1 1000 - 20740 20740 0,255,0 2 887,764, 0,888, AC136352.9 none none -1,-1, ENST00000615005.1 AC136352.9 +16 11554 14090 ENST00000513886.1 1000 + 11554 11554 0,255,0 3 354,109,1189, 0,739,1347, DDX11L10 none none -1,-1,-1, ENST00000513886.1 DDX11L10 +KI270728.1 17233 19833 ENST00000616638.1 1000 + 17263 18366 0,255,0 2 268,1538, 0,1062, AC133551.1 cmpl cmpl 0,1, ENST00000616638.1 AC133551.1 +17 90795 90899 ENST00000620287.1 1000 - 90795 90795 0,255,0 1 104, 0, U6 none none -1, ENST00000620287.1 U6 +GL000205.2 9150 9226 ENST00000616723.1 1000 + 9150 9150 0,255,0 1 76, 0, AC011841.4 none none -1, ENST00000616723.1 AC011841.4 +18 11190 15928 ENST00000572573.1 1000 + 11190 11190 0,255,0 3 405,203,312, 0,1961,4426, AP005530.1 none none -1,-1,-1, ENST00000572573.1 AP005530.1 +19 60950 70966 ENST00000606728.2 1000 - 60950 60950 0,255,0 3 944,154,39, 0,5395,9977, WASH5P none none -1,-1,-1, ENST00000606728.2 WASH5P +KI270706.1 45988 46061 ENST00000611371.1 1000 + 45988 45988 0,255,0 1 73, 0, MIR3118-2 none none -1, ENST00000611371.1 MIR3118-2 +KI270707.1 1648 1731 ENST00000618762.1 1000 - 1648 1648 0,255,0 1 83, 0, FP325342.2 none none -1, ENST00000618762.1 FP325342.2 +KI270708.1 73354 73437 ENST00000615514.1 1000 + 73354 73354 0,255,0 1 83, 0, AL137861.5 none none -1, ENST00000615514.1 AL137861.5 +KI270711.1 4611 24650 ENST00000614336.1 1000 - 6126 21127 0,255,0 16 1759,112,173,52,173,52,173,52,164,52,206,73,215,103,210,159, 0,2379,3205,3992,4753,5528,6299,7095,8189,12259,13615,14285,15395,16445,18321,19880, AC240274.1 cmpl incmpl 2,1,2,1,2,1,2,1,2,1,2,1,2,0,-1,-1, ENST00000614336.1 AC240274.1 +KI270713.1 21860 22024 ENST00000619109.1 1000 - 21860 21860 0,255,0 1 164, 0, U1 none none -1, ENST00000619109.1 U1 +KI270714.1 10308 10381 ENST00000615341.1 1000 + 10308 10308 0,255,0 1 73, 0, MIR3675 none none -1, ENST00000615341.1 MIR3675 +2 38813 46385 ENST00000327669.4 1000 - 41607 46385 0,255,0 2 2814,946, 0,6626, FAM110C cmpl cmpl 1,0, ENST00000327669.4 FAM110C +20 87709 96533 ENST00000382410.2 1000 + 87709 96417 0,255,0 2 58,529, 0,8295, DEFB125 cmpl cmpl 0,1, ENST00000382410.2 DEFB125 +21 5022492 5040666 ENST00000612610.1 1000 + 5022679 5040616 0,255,0 7 201,41,351,291,165,36,82, 0,2516,3787,5442,9560,10915,18092, FP565260.3 cmpl cmpl 0,2,1,1,1,1,1, ENST00000612610.1 FP565260.3 +22 10736170 10736283 ENST00000615943.1 1000 - 10736170 10736170 0,255,0 1 113, 0, U2 none none -1, ENST00000615943.1 U2 +KI270731.1 10597 13001 ENST00000619792.1 1000 - 11287 12574 0,255,0 1 2404, 0, AC023491.2 incmpl cmpl 0, ENST00000619792.1 AC023491.2 +KI270733.1 117446 117524 ENST00000615878.1 1000 + 117446 117446 0,255,0 1 78, 0, AL353644.7 none none -1, ENST00000615878.1 AL353644.7 +KI270734.1 59710 60316 ENST00000615362.1 1000 + 59710 59710 0,255,0 2 468,135, 0,471, AC007325.2 none none -1,-1, ENST00000615362.1 AC007325.2 +3 23756 24501 ENST00000440867.1 1000 + 23756 23756 0,255,0 2 56,534, 0,211, AY269186.1 none none -1,-1, ENST00000440867.1 AY269186.1 +4 49095 49956 ENST00000616656.1 1000 - 49095 49095 0,255,0 1 861, 0, BNIP3P41 none none -1, ENST00000616656.1 BNIP3P41 +GL000008.2 118090 118173 ENST00000622295.1 1000 + 118090 118090 0,255,0 1 83, 0, AL583842.1 none none -1, ENST00000622295.1 AL583842.1 +5 58197 58915 ENST00000506872.1 1000 + 58197 58197 0,255,0 1 718, 0, RP11-811I15.1 none none -1, ENST00000506872.1 RP11-811I15.1 +6 95123 95454 ENST00000604449.1 1000 + 95123 95123 0,255,0 1 331, 0, RP1-24O22.5 none none -1, ENST00000604449.1 RP1-24O22.5 +7 37031 37477 ENST00000615488.1 1000 + 37031 37031 0,255,0 1 446, 0, ABC7-481722F1.1 none none -1, ENST00000615488.1 ABC7-481722F1.1 +8 64090 64320 ENST00000520139.2 1000 - 64090 64090 0,255,0 2 85,52, 0,178, AC144568.4 none none -1,-1, ENST00000520139.2 AC144568.4 +9 12133 13783 ENST00000421620.2 1000 + 12133 12133 0,255,0 6 57,50,109,70,150,218, 0,157,592,954,1204,1432, DDX11L5 none none -1,-1,-1,-1,-1,-1, ENST00000421620.2 DDX11L5 +MT 576 647 ENST00000387314.1 1000 + 576 576 0,255,0 1 71, 0, MT-TF none none -1, ENST00000387314.1 MT-TF +GL000195.1 37433 37534 ENST00000618679.1 1000 - 37433 37433 0,255,0 1 101, 0, Y_RNA none none -1, ENST00000618679.1 Y_RNA +GL000213.1 25282 25368 ENST00000621528.1 1000 - 25282 25282 0,255,0 1 86, 0, MIR8069 none none -1, ENST00000621528.1 MIR8069 +GL000216.2 93196 93309 ENST00000611062.1 1000 - 93196 93196 0,255,0 1 113, 0, U2 none none -1, ENST00000611062.1 U2 +GL000218.1 51866 54893 ENST00000612565.1 1000 - 53482 54214 0,255,0 1 3027, 0, AL354822.1 cmpl cmpl 0, ENST00000612565.1 AL354822.1 +GL000219.1 47190 47266 ENST00000612537.1 1000 - 47190 47190 0,255,0 1 76, 0, AL592183.3 none none -1, ENST00000612537.1 AL592183.3 +GL000220.1 100713 100791 ENST00000612604.1 1000 + 100713 100713 0,255,0 1 78, 0, AL592188.5 none none -1, ENST00000612604.1 AL592188.5 +GL000224.1 38210 38291 ENST00000614235.1 1000 + 38210 38210 0,255,0 1 81, 0, AL591856.5 none none -1, ENST00000614235.1 AL591856.5 +KI270442.1 217249 217401 ENST00000611690.1 1000 - 217249 217249 0,255,0 1 152, 0, 5_8S_rRNA none none -1, ENST00000611690.1 5_8S_rRNA +KI270741.1 68655 68737 ENST00000619975.1 1000 - 68655 68655 0,255,0 1 82, 0, AUXG01000515.1 none none -1, ENST00000619975.1 AUXG01000515.1 +KI270743.1 102971 103054 ENST00000621468.1 1000 + 102971 102971 0,255,0 1 83, 0, AC138775.5 none none -1, ENST00000621468.1 AC138775.5 +KI270744.1 51008 51114 ENST00000616830.1 1000 - 51008 51008 0,255,0 1 106, 0, U6 none none -1, ENST00000616830.1 U6 +KI270750.1 148667 148843 ENST00000612925.1 1000 + 148667 148667 0,255,0 1 176, 0, U1 none none -1, ENST00000612925.1 U1 +KI270752.1 143 268 ENST00000618580.1 1000 + 143 143 0,255,0 1 125, 0, AF065393.4 none none -1, ENST00000618580.1 AF065393.4 +X 253742 255091 ENST00000431238.3 1000 + 253742 253742 0,255,0 2 104,155, 0,1194, LL0YNC03-29C1.1 none none -1,-1, ENST00000431238.3 LL0YNC03-29C1.1 +Y 253742 255091 ENST00000431238.3 1000 + 253742 253742 0,255,0 2 104,155, 0,1194, LL0YNC03-29C1.1 none none -1,-1, ENST00000431238.3 LL0YNC03-29C1.1