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DaehwanKimLab / tophat

Spliced read mapper for RNA-Seq
http://ccb.jhu.edu/software/tophat
Boost Software License 1.0
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tophat_fusion_post value error GRCh38 #58

Open byb121 opened 4 years ago

byb121 commented 4 years ago

Hi,

When running tophat_fusion_post with multiple threads, I found several of these errors in my log file:

Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack

Strange enough, these errors do not stop the process, and I still have the output.

I suspect this has something to do with contig names in GRCh38, as we have many HLA-* contigs in the reference, and I do not see the error when using GRCh37.

I'm wondering if you can fix it, as I am not sure if these errors could also silently eliminate other fusion events from the output.

The full log is below.

Thanks.

tophat-fusion-post --output-dir ./tophatfusion_108988 --num-fusion-reads 1 --num-fusion-pairs 2 --num-fusion-both 5 --fusion-read-mismatches 2 --fusion-multireads 2 --num-threads 16 /home/ubuntu/ref/human/GRCh38_full_analysis_set_plus_decoy_hla/tophat/tophatpost.genome
[Tue Jul 16 19:47:51 2019] Beginning TopHat-Fusion post-processing run (v2.1.0)
-----------------------------------------------
[Tue Jul 16 19:47:51 2019] Extracting 23-mer around fusions and mapping them using Bowtie
        samples updated
[Tue Jul 16 19:49:04 2019] Filtering fusions
        Processing: tophat_108988.1/fusions.out
        Processing: tophat_108988.2/fusions.out
        Processing: tophat_108988.3/fusions.out
        Processing: tophat_108988.4/fusions.out
        Processing: tophat_108988.5/fusions.out
        Processing: tophat_108988.6/fusions.out
        Processing: tophat_108988.7/fusions.out
        344 fusions are output in ./tophatfusion_108988/potential_fusion.txt
[Wed Jul 17 00:24:12 2019] Blasting 50-mers around fusions
        1. BTF3 exon3(73502486-73502600) MT-RNR2 exon1(1669-3228)
        2. HAPLN1 exon3(83652451-83652823) MT-CO2 exon1(7584-8268)
        3. COX7C exon2(86619351-86619495) MT-CYB exon1(14745-15886)
        4. PAM exon27(103028885-103031103) MT-CO2 exon1(7584-8268)
        5. PAM exon27(103028885-103031103) MT-ND2 exon1(4468-5510)
        6. GM2A exon2(151259753-151259915) MT-ND2 exon1(4468-5510)
        7. HNRNPH1 exon9(179618143-179618322) MT-RNR2 exon1(1669-3228)
        8. CANX exon5(179708237-179708379) MT-CO1 exon1(5902-7444)
        9. TMEM14B intron4(10755232-10758936) MT-RNR2 exon1(1669-3228)
        10. MCUR1 exon1(13786547-13790863) MT-RNR2 exon1(1669-3228)
        11. PPP2R5D exon14(43011147-43012344) MT-RNR2 exon1(1669-3228)
        12. IBTK exon4(82181877-82182027) MT-RNR2 exon1(1669-3228)
        13. OSTM1 exon1(108041407-108044839) MT-CO1 exon1(5902-7444)
        14. SNX3 exon3(108260758-108261259) MT-ND1 exon1(3305-4261)
        15. TRAF3IP2 exon8(111591256-111592093) MT-RNR2 exon1(1669-3228)
        16. CEP85L intron10(118523920-118565526) MT-ND1 exon1(3305-4261)
        17. SASH1 exon9(148514322-148514455) MT-RNR2 exon1(1669-3228)
        18. THBS2 exon19(169246195-169246280) MT-RNR2 exon1(1669-3228)
        19. ADCY1 exon2(45574887-45575181) KIAA1324L exon19(86944897-86945045)
        20. ADCY1 exon2(45574887-45575181) KIAA1324L exon20(86947725-86947921)
        21. ADCY1 exon2(45574887-45575181) KIAA1324L exon21(86964902-86965023)
        22. RUNDC3B exon1(87628411-87628944) LHFPL3 exon2(104736673-104736910)
        23. RUNDC3B exon2(87650820-87650936) LHFPL3 exon2(104736673-104736910)
        24. C15orf57 intron2(40557372-40562769) CBX3 intron1(26201561-26202968)
        25. MAP2K2 intron8(4102453-4110506) LOC407835 exon1(129126269-129127995)
        26. EIF3B exon7(2366315-2366447) MT-RNR2 exon1(1669-3228)
        27. EIF3B exon8(2366523-2366590) MT-ND1 exon1(3305-4261)
        28. ACTB exon4(5529159-5529399) MT-ND1 exon1(3305-4261)
        29. ETV1 exon1(13891229-13896086) MT-ND2 exon1(4468-5510)
        30. TOMM7 exon3(22822675-22822851) MT-ATP8 exon1(8364-8571)
        31. GPNMB exon2(23253305-23253458) MT-ATP8 exon1(8364-8571)
        32. GPNMB exon11(23274063-23275109) MT-RNR2 exon1(1669-3228)
        33. GPNMB exon11(23274063-23275109) MT-ND1 exon1(3305-4261)
        34. HNRNPA2B1 exon1(26189934-26192337) MT-ND3 exon1(10057-10403)
        35. TAX1BP1 exon11(27794321-27794445) MT-RNR2 exon1(1669-3228)
        36. TAX1BP1 exon15(27816888-27817037) MT-CO2 exon1(7584-8268)
        37. GARS exon7(30609583-30609729) MT-ATP6 exon1(8525-9206)
        38. GARS exon11(30621391-30621499) MT-RNR2 exon1(1669-3228)
        39. GARS exon15(30631446-30631540) MT-ND1 exon1(3305-4261)
        40. ATP5J2 exon3(99460084-99460192) MT-RNR2 exon1(1669-3228)
        41. ZNHIT1 exon2(101222602-101222773) MT-RNR2 exon1(1669-3228)
        42. LHFPL3 intron2(104736911-104906184) MT-CO1 exon1(5902-7444)
        43. LHFPL3 intron2(104736911-104906184) MT-ND1 exon1(3305-4261)
        44. LAMB1 exon9(107937091-107937276) MT-ND1 exon1(3305-4261)
        45. MTPN exon1(135926753-135930011) MT-ND2 exon1(4468-5510)
        46. LUC7L2 exon10(139417536-139417728) MT-CO2 exon1(7584-8268)
        47. ASAP1 exon4(130076346-130076405) RP11-30J20.1 exon3(136961738-136961850)
        48. ASAP1 exon6(130091971-130092142) RP11-30J20.1 exon3(136961738-136961850)
        49. TPT1 exon6(45341040-45341283) GAPDH exon9(6538099-6538374)
        50. GAPDH exon8(6537582-6537995) MT-RNR2 exon1(1669-3228)
        51. GAPDH exon9(6538099-6538374) MT-ND4 exon1(10758-12136)
        52. GAPDH exon9(6538099-6538374) MT-ND4 exon1(10758-12136)
        53. M6PR exon1(8940359-8941939) MT-RNR2 exon1(1669-3228)
        54. STRAP exon10(15902915-15903475) MT-RNR2 exon1(1669-3228)
        55. LDHB exon5(21643933-21644107) MT-ND1 exon1(3305-4261)
        56. DAZAP2 intron3(51241116-51246058) MT-ND2 exon1(4468-5510)
        57. CD63 exon2(55725811-55725895) MT-RNR2 exon1(1669-3228)
        58. CD63 exon6(55727149-55727338) MT-CO2 exon1(7584-8268)
        59. PMEL exon5(55956101-55956218) MT-ATP6 exon1(8525-9206)
        60. CDK2 exon1(55966767-55967123) MT-CO1 exon1(5902-7444)
        61. BTG1 exon1(92140276-92144446) MT-ND2 exon1(4468-5510)
        62. SLC25A3 exon3(98597854-98598034) MT-ND1 exon1(3305-4261)
        63. SLC25A3 exon4(98598520-98598702) MT-ND1 exon1(3305-4261)
        64. SLC25A3 exon7(98601366-98601999) MT-RNR2 exon1(1669-3228)
        65. SLC25A3 exon7(98601366-98601999) MT-ND2 exon1(4468-5510)
        66. PPP1CC intron1(110720204-110721102) MT-CO1 exon1(5902-7444)
        67. PEBP1 exon1(118135882-118136343) MT-RNR2 exon1(1669-3228)
        68. PEBP1 exon4(118144584-118145587) MT-RNR2 exon1(1669-3228)
        69. RPLP0 intron6(120199485-120200727) MT-CO2 exon1(7584-8268)
        70. MLEC exon3(120696314-120701863) MT-ND2 exon1(4468-5510)
        71. GTF3A exon9(27435431-27435708) MT-CO2 exon1(7584-8268)
        72. ITM2B exon2(48253806-48253935) MT-CO2 exon1(7584-8268)
        73. DCT exon10(94478959-94479681) MT-RNR2 exon1(1669-3228)
        74. LAMP1 exon9(113322280-113323425) MT-ND2 exon1(4468-5510)
        75. L3MBTL4 exon11(6237962-6238039) GPHN exon13(67100854-67100910)
        76. NDRG2 intron4(21018504-21018760) MT-ND2 exon1(4468-5510)
        77. NEDD8-MDP1 intron4(24215662-24218130) MT-RNR2 exon1(1669-3228)
        78. C14orf1 exon1(75650888-75651633) MT-CO1 exon1(5902-7444)
        79. SERPINA3 exon4(94622339-94622490) MT-CO2 exon1(7584-8268)
        80. SERPINA3 exon5(94623609-94624052) MT-RNR2 exon1(1669-3228)
        81. HSP90AA1 exon5(102083791-102083982) MT-RNR2 exon1(1669-3228)
        82. AKT1 exon1(104769348-104770419) MT-CO2 exon1(7584-8268)
        83. ZNF106 exon1(42412435-42417359) MT-CO1 exon1(5902-7444)
        84. B2M exon4(44717605-44718158) MT-ND1 exon1(3305-4261)
        85. B2M exon4(44717605-44718158) MT-ND2 exon1(4468-5510)
        86. IQGAP1 exon38(90499993-90502242) MT-RNR2 exon1(1669-3228)
        87. NFAT5 exon2(69568493-69568547) CFDP1 intron3(75395209-75411822)
        88. NFAT5 intron2(69568548-69626400) CFDP1 exon3(75395088-75395208)
        89. WWP2 intron4(69799295-69840123) NAPB exon10(23402991-23403071)
        90. WWP2 intron4(69799295-69840123) NAPB exon11(23421303-23421518)
        91. WWP2 intron4(69799295-69840123) NAPB exon9(23397070-23397199)
        92. WWP2 intron4(69799295-69840123) NAPB exon10(23402991-23403071)
        93. WWP2 exon2(69840124-69840262) NAPB intron9(23397200-23402990)
        94. ATP6V0C exon4(2519539-2520222) MT-CO2 exon1(7584-8268)
        95. RSL1D1 exon2(11839693-11839984) MT-CO2 exon1(7584-8268)
        96. UQCRC2 exon7(21965406-21965504) MT-CO2 exon1(7584-8268)
        97. KIF22 exon14(29805113-29805173) MT-CO2 exon1(7584-8268)
        98. ALDOA exon8(30067448-30067660) MT-RNR2 exon1(1669-3228)
        99. ALDOA exon12(30069497-30069672) MT-ND4 exon1(10758-12136)
        100. ALDOA exon14(30070115-30070419) MT-CO1 exon1(5902-7444)
        101. ALDOA exon14(30070115-30070419) MT-ND4 exon1(10758-12136)
        102. FUS exon5(31184207-31184395) MT-RNR2 exon1(1669-3228)
        103. C1QBP exon1(5432777-5433163) MT-ATP8 exon1(8364-8571)
        104. DHX33 exon1(5440910-5444512) MT-ND2 exon1(4468-5510)
        105. CD68 exon5(7580894-7581065) MT-ND4 exon1(10758-12136)
        106. PIGS exon8(28563429-28563521) MT-CO2 exon1(7584-8268)
        107. EIF1 exon2(41689776-41689940) MT-ND1 exon1(3305-4261)
        108. VAT1 exon5(43018590-43018798) MT-ND4 exon1(10758-12136)
        109. KPNB1 exon4(47656858-47657059) MT-CO1 exon1(5902-7444)
        110. NFE2L1 exon3(48056384-48056597) MT-ND1 exon1(3305-4261)
        111. CLTC exon22(59682269-59682427) MT-ND2 exon1(4468-5510)
        112. DCAF7 exon7(63588998-63594280) MT-RNR2 exon1(1669-3228)
        113. DDX5 exon12(64504675-64504841) MT-TL1 exon1(3228-3303)
        114. RPL38 exon4(74209185-74209308) MT-ATP8 exon1(8364-8571)
        115. P4HB exon1(81843156-81844091) MT-CO2 exon1(7584-8268)
        116. DLGAP1 exon6(3729133-3729374) L3MBTL4 exon10(6215748-6215834)
        117. DLGAP1 exon12(4455004-4455265) PTPN2 exon8(12859162-12859253)
        118. L3MBTL4 exon11(6237962-6238039) RP11-888D10.3 exon2(9322060-9322151)
        119. L3MBTL4 intron12(6239872-6241355) TWSG1 exon2(9337191-9337351)
        120. L3MBTL4 intron12(6239872-6241355) TWSG1 intron2(9337352-9359969)
        121. L3MBTL4 intron17(6301957-6311551) TWSG1 exon2(9337191-9337351)
        122. RBMS3 intron1(29281756-29434740) LUZP2 intron5(24763308-24905988)
        123. RBMS3 exon2(29434741-29434914) LUZP2 intron5(24763308-24905988)
        124. RBMS3 exon2(29434741-29434914) LUZP2 intron5(24763308-24905988)
        125. EDEM1 exon5(5202964-5203148) MT-CO1 exon1(5902-7444)
        126. CRTAP exon3(33124406-33124578) MT-RNR2 exon1(1669-3228)
        127. CRTAP exon4(33129937-33130066) MT-ND1 exon1(3305-4261)
        128. CTNNB1 exon9(41233527-41233866) MT-ND2 exon1(4468-5510)
        129. RHOA exon1(49359134-49360381) MT-ND2 exon1(4468-5510)
        130. RPL29 exon1(51993626-51994125) MT-RNR2 exon1(1669-3228)
        131. RAB7A exon6(128813325-128814797) MT-CO2 exon1(7584-8268)
        132. RAB7A exon6(128813325-128814797) MT-ND1 exon1(3305-4261)
        133. CDV3 exon1(133573588-133574283) MT-ND1 exon1(3305-4261)
        134. ATP1B3 exon4(141913650-141913835) MT-RNR2 exon1(1669-3228)
        135. PDS5A exon7(39849518-39849651) MT-RNR2 exon1(1669-3228)
        136. POLR2B exon8(57005244-57005441) MT-CO1 exon1(5902-7444)
        137. GRSF1 exon1(70815780-70820860) MT-ND1 exon1(3305-4261)
        138. G3BP2 exon1(75642767-75645701) MT-RNR2 exon1(1669-3228)
        139. HNRNPDL exon8(82429246-82430224) MT-CO2 exon1(7584-8268)
        140. SPP1 exon8(87982490-87983410) MT-RNR2 exon1(1669-3228)
        141. ANXA5 exon1(121667995-121668526) MT-CO1 exon1(5902-7444)
        142. SSBP2 exon12(81615471-81615556) FAM172A exon7(93964456-93964522)
        143. WDR55 exon7(140669331-140670967) DND1 exon1(140670794-140671749)
        144. PDE4D exon16(60185555-60185686) PITPNA exon2(1521577-1521644)
        145. ASAH1 exon1(18056297-18057622) MT-ATP6 exon1(8525-9206)
        146. SLC39A14 intron8(22417835-22433888) MT-TV exon1(1600-1669)
        147. DUSP4 exon1(29333060-29337410) MT-RNR2 exon1(1669-3228)
        148. GPAT4 exon13(41620891-41625000) MT-RNR2 exon1(1669-3228)
        149. MTDH exon12(97724598-97730259) MT-ND1 exon1(3305-4261)
        150. LAPTM4B exon7(97851395-97852601) MT-RNR2 exon1(1669-3228)
        151. COX6C exon2(99887488-99887617) MT-CO1 exon1(5902-7444)
        152. EIF3H exon1(116644814-116645102) MT-RNR2 exon1(1669-3228)
        153. NDUFB9 exon4(124549759-124549985) MT-RNR2 exon1(1669-3228)
        154. SQLE exon2(125003174-125003427) MT-CO2 exon1(7584-8268)
        155. SQLE exon11(125021751-125022282) MT-ND2 exon1(4468-5510)
        156. MYC exon1(127736067-127736622) MT-CO1 exon1(5902-7444)
        157. GPAA1 exon3(144083387-144083499) MT-RNR2 exon1(1669-3228)
        158. TRAF1 exon3(120911334-120911512) C5 exon11(120971928-120971991)
        159. VCP exon1(35056066-35057221) MT-CO1 exon1(5902-7444)
        160. VCP exon2(35057374-35057529) MT-RNR2 exon1(1669-3228)
        161. TLN1 exon1(35697335-35697915) MT-ND2 exon1(4468-5510)
        162. TOMM5 exon1(37588413-37588931) MT-RNR2 exon1(1669-3228)
        163. BANCR exon2(69304934-69305076) MT-CO1 exon1(5902-7444)
        164. GSN exon17(121332432-121332841) MT-ND1 exon1(3305-4261)
        165. SET exon8(128694639-128696395) MT-RNR2 exon1(1669-3228)
        166. SURF4 exon1(133361447-133363758) MT-ND2 exon1(4468-5510)
        167. MAN1B1 exon4(137096235-137096390) MT-ND1 exon1(3305-4261)
        168. CXCL12 exon2(44378635-44378722) TMEM72-AS1 exon6(44834064-44835318)
        169. CXCL12 exon2(44378635-44378722) TMEM72-AS1 exon6(44834064-44835318)
        170. MARCH8 exon6(45533108-45533288) CXCL12 exon2(44378635-44378722)
        171. TMEM72-AS1 exon6(44834064-44835318) MARCH8 exon6(45533108-45533288)
        172. TMEM72-AS1 exon6(44834064-44835318) MARCH8 exon6(45533108-45533288)
        173. RASSF4 exon3(44971771-44971847) CNTNAP4 intron2(76316523-76355315)
        174. RASSF4 exon3(44971771-44971847) CNTNAP4 intron2(76316523-76355315)
        175. VIM exon2(17229274-17229984) MT-ND4 exon1(10758-12136)
        176. VIM exon3(17230648-17230709) MT-CO2 exon1(7584-8268)
        177. VIM exon5(17233768-17233930) MT-ND1 exon1(3305-4261)
        178. VIM exon8(17235844-17235888) MT-ND3 exon1(10057-10403)
        179. ITGB1 exon1(32900316-32901634) MT-CO2 exon1(7584-8268)
        180. PSAP exon1(71816281-71817475) MT-CO1 exon1(5902-7444)
        181. PSAP exon1(71816281-71817475) MT-ATP6 exon1(8525-9206)
        182. SCD exon1(100347013-100347530) MT-RNR2 exon1(1669-3228)
        183. SCD exon2(100348062-100348345) MT-ND1 exon1(3305-4261)
        184. MGEA5 exon1(101784441-101786586) MT-RNR2 exon1(1669-3228)
        185. RP11-113D6.6 exon2(18188893-18189494) GLTP exon2(109855617-109855768)
        186. GNAS exon13(58910681-58911195) EEF1G exon3(62560280-62560453)
        187. TPP1 exon1(6612764-6614685) MT-CO1 exon1(5902-7444)
        188. EIF4G2 exon18(10805905-10806046) MT-CO2 exon1(7584-8268)
        189. LGR4 exon1(27365959-27369142) MT-CO2 exon1(7584-8268)
        190. CD59 exon1(33703008-33710342) MT-RNR2 exon1(1669-3228)
        191. CD59 exon2(33717368-33717470) MT-CO1 exon1(5902-7444)
        192. CD59 exon3(33722377-33722462) MT-RNR2 exon1(1669-3228)
        193. CD44 exon5(35189833-35190064) MT-RNR2 exon1(1669-3228)
        194. GANAB exon1(62624824-62625923) MT-ND1 exon1(3305-4261)
        195. GANAB exon14(62630599-62630835) MT-ATP6 exon1(8525-9206)
        196. GANAB exon17(62633003-62633100) MT-ND4 exon1(10758-12136)
        197. GANAB exon17(62633003-62633100) MT-CO2 exon1(7584-8268)
        198. INTS5 exon1(62646846-62649998) MT-ATP6 exon1(8525-9206)
        199. PPP2R5B exon2(64925469-64925932) MT-CO1 exon1(5902-7444)
        200. NEAT1 exon1(65422796-65445537) MT-ND4 exon1(10758-12136)
        201. NEAT1 exon1(65422796-65445537) MT-RNR2 exon1(1669-3228)
        202. MALAT1 exon1(65497760-65506511) MT-CO1 exon1(5902-7444)
        203. INPPL1 exon26(72237122-72237795) MT-CO1 exon1(5902-7444)
        204. RPS3 exon5(75404018-75404206) MT-CO3 exon1(9205-9989)
        205. PRCP intron7(82853278-82901590) MT-CO1 exon1(5902-7444)
        206. TYR exon1(89177870-89178771) MT-CO1 exon1(5902-7444)
        207. TYR exon1(89177870-89178771) MT-RNR2 exon1(1669-3228)
        208. TYR exon1(89177870-89178771) MT-CO2 exon1(7584-8268)
        209. APLP2 exon13(130143345-130144810) MT-CO1 exon1(5902-7444)
        210. RERE exon1(8352402-8355119) MT-CO2 exon1(7584-8268)
        211. ENO1 exon4(8863889-8864091) MT-ND1 exon1(3305-4261)
        212. ENO1 exon5(8865283-8865481) MT-ND1 exon1(3305-4261)
        213. ENO1 exon5(8865283-8865481) MT-CO3 exon1(9205-9989)
        214. SDC3 exon1(30869464-30873376) MT-RNR2 exon1(1669-3228)
        215. MARCKSL1 exon1(32333827-32335096) MT-CO1 exon1(5902-7444)
        216. SMAP2 exon10(40421974-40423325) MT-ND2 exon1(4468-5510)
        217. UROD exon8(45014734-45014835) MT-ND2 exon1(4468-5510)
        218. UQCRH exon3(46310153-46310315) MT-ND1 exon1(3305-4261)
        219. GNG12 exon1(67701464-67705575) MT-ND1 exon1(3305-4261)
        220. RABGGTB exon2(75787495-75787603) MT-RNR2 exon1(1669-3228)
        221. RPL5 exon4(92834777-92834912) MT-RNR2 exon1(1669-3228)
        222. SORT1 exon1(109309564-109314056) MT-ND2 exon1(4468-5510)
        223. ATP1A1 exon9(116390211-116390410) MT-ATP6 exon1(8525-9206)
        224. S100A13 intron3(153631111-153632031) MT-RNR2 exon1(1669-3228)
        225. CCT3 exon8(156320837-156321024) MT-CO1 exon1(5902-7444)
        226. LAMC1 exon23(183134658-183134808) MT-CO2 exon1(7584-8268)
        227. PARP1 exon7(226367478-226367607) MT-CO1 exon1(5902-7444)
        228. PARP1 exon12(226379140-226379273) MT-CO2 exon1(7584-8268)
        229. FMN2 exon19(240474126-240475188) MT-ND1 exon1(3305-4261)
        230. SLC36A2 exon5(151335327-151335546) MBD5 exon13(148502434-148502508)
        231. SLC36A2 exon4(151333222-151333321) MBD5 exon13(148502434-148502508)
        232. EPC2 exon1(148644989-148645169) SLC36A2 exon5(151335327-151335546)
        233. RBMS1 exon14(160493287-160493806) IRAK3 intron8(66228370-66244483)
        234. PDIA6 exon6(10789747-10789888) MT-RNR2 exon1(1669-3228)
        235. RAB10 exon1(26033858-26034734) MT-CO1 exon1(5902-7444)
        236. PPP1CB exon9(28799197-28802939) MT-CO1 exon1(5902-7444)
        237. LRPPRC exon7(43901318-43901523) MT-ND2 exon1(4468-5510)
        238. SPTBN1 exon6(54617606-54617687) MT-ND1 exon1(3305-4261)
        239. SPTBN1 exon15(54629890-54630028) MT-CO2 exon1(7584-8268)
        240. RTN4 exon6(54987489-54987697) MT-CO2 exon1(7584-8268)
        241. MDH1 exon6(63604694-63604871) MT-RNR2 exon1(1669-3228)
        242. MRPS5 exon1(95087205-95087580) MT-RNR2 exon1(1669-3228)
        243. GYPC exon5(126695944-126696674) MT-RNR2 exon1(1669-3228)
        244. PLEKHB2 exon6(131146635-131149851) MT-CO2 exon1(7584-8268)
        245. ATP5G3 exon1(175176256-175178401) MT-RNR2 exon1(1669-3228)
        246. SF3B1 exon3(197396054-197396327) MT-RNR2 exon1(1669-3228)
        247. NDUFS1 exon4(206127795-206127971) MT-RNR2 exon1(1669-3228)
        248. CYP27A1 exon9(218814909-218815292) MT-ND2 exon1(4468-5510)
        249. SERPINE2 exon1(223975046-223975903) MT-RNR2 exon1(1669-3228)
        250. SERPINE2 exon2(223977542-223977626) MT-ND4L exon1(10468-10765)
        251. SERPINE2 exon2(223977542-223977626) MT-ND4L exon1(10468-10765)
        252. SERPINE2 exon7(223998113-223998341) MT-ND1 exon1(3305-4261)
        253. SERPINE2 exon7(223998113-223998341) MT-ND2 exon1(4468-5510)
        254. SERPINE2 exon8(224001640-224001921) MT-ND4 exon1(10758-12136)
        255. SERPINE2 exon8(224001640-224001921) MT-CO2 exon1(7584-8268)
        256. SERPINE2 exon8(224001640-224001921) MT-CO1 exon1(5902-7444)
        257. NCL exon4(231456629-231456763) MT-ATP6 exon1(8525-9206)
        258. NCL exon12(231461538-231462016) MT-RNR1 exon1(646-1600)
        259. EDEM1 exon11(5213317-5213521) ARL8B exon7(5178662-5180915)
        260. TFG exon3(100719973-100720057) ADGRG7 exon2(100629596-100629710)
        261. THAP3 exon5(6632389-6632494) LOC100129138 exon1(104073021-104073903)
        262. ENO1 exon7(8867115-8867249) EDARADD exon6(236482265-236484707)
        263. ENO1 exon7(8867115-8867249) EDARADD exon6(236482265-236484707)
        264. TAGLN2 exon1(159918105-159918940) OXR1 intron7(106692877-106702903)
        265. OTUD7B exon11(149977424-149977575) MARCH8 exon6(45533108-45533288)
        266. OTUD7B exon11(149977424-149977575) RP11-540N6.1 intron1(130439089-130482878)
        267. OTUD7B exon11(149977424-149977575) RP11-540N6.1 intron1(130439089-130482878)
        268. OTUD7B exon11(149977424-149977575) RP11-540N6.1 intron1(130439089-130482878)
        269. OTUD7B exon11(149977424-149977575) RP11-540N6.1 exon2(130482879-130483153)
        270. OTUD7B exon12(150010446-150010736) RP11-540N6.1 intron1(130439089-130482878)
        271. OTUD7B exon12(150010446-150010736) RP11-540N6.1 exon2(130482879-130483153)
        272. RP5-857K21.4 intron2(608056-720029) PPP1CC exon1(110719806-110720203)
        273. FAM210A exon1(13663345-13666712) MT-CO1 exon1(5902-7444)
        274. LMAN1 exon5(59338758-59338952) MT-CO1 exon1(5902-7444)
        275. CTD-2583A14.10 exon1(57819804-57819944) ZNF552 exon2(57813292-57813419)
        276. BSG exon4(581313-581590) MT-RNR2 exon1(1669-3228)
        277. BSG exon7(582748-583492) MT-ND4 exon1(10758-12136)
        278. BSG exon7(582748-583492) MT-CO2 exon1(7584-8268)
        279. TMEM259 exon1(1009649-1010894) MT-CO1 exon1(5902-7444)
        280. NDUFS7 exon8(1395389-1395588) MT-ND2 exon1(4468-5510)
        281. MBD3 intron5(1584677-1585052) MT-ND1 exon1(3305-4261)
        282. AP3D1 exon13(2115217-2115417) MT-RNR2 exon1(1669-3228)
        283. OAZ1 exon5(2272970-2273487) MT-ND4 exon1(10758-12136)
        284. OAZ1 exon5(2272970-2273487) MT-RNR2 exon1(1669-3228)
        285. EEF2 exon1(3976054-3976746) MT-ND4L exon1(10468-10765)
        286. EEF2 exon4(3977817-3978171) MT-ND4 exon1(10758-12136)
        287. EEF2 exon6(3979806-3980065) MT-CO2 exon1(7584-8268)
        288. EEF2 exon9(3981337-3981451) MT-ND4L exon1(10468-10765)
        289. EEF2 exon10(3981945-3982051) MT-CO3 exon1(9205-9989)
        290. EEF2 exon11(3982244-3982423) MT-CO1 exon1(5902-7444)
        291. EEF2 exon12(3982805-3983017) MT-CO1 exon1(5902-7444)
        292. EEF2 exon12(3982805-3983017) MT-ND1 exon1(3305-4261)
        293. EEF2 exon13(3983108-3983290) MT-ND4 exon1(10758-12136)
        294. EEF2 exon13(3983108-3983290) MT-ND1 exon1(3305-4261)
        295. ICAM1 exon7(10285113-10286614) MT-ND1 exon1(3305-4261)
        296. CDC37 exon6(10395433-10395542) MT-RNR2 exon1(1669-3228)
        297. PRKCSH exon2(11436039-11436195) MT-ND1 exon1(3305-4261)
        298. WDR83 intron1(12666992-12668505) MT-CO1 exon1(5902-7444)
        299. GIPC1 exon1(14477757-14478566) MT-RNR2 exon1(1669-3228)
        300. SYDE1 exon8(15113558-15114987) MT-RNR2 exon1(1669-3228)
        301. GDF15 exon2(18388284-18389175) MT-RNR2 exon1(1669-3228)
        302. GDF15 exon2(18388284-18389175) MT-ND4 exon1(10758-12136)
        303. NDUFA13 exon4(19527699-19527769) MT-RNR2 exon1(1669-3228)
        304. ACTN4 exon3(38701000-38701120) MT-CO1 exon1(5902-7444)
        305. RPL18 exon3(48616077-48616201) MT-ND1 exon1(3305-4261)
        306. NUCB1 exon13(48922316-48923282) MT-CO1 exon1(5902-7444)
        307. FTL exon1(48965307-48965608) MT-RNR2 exon1(1669-3228)
        308. FTL exon4(48966581-48966878) MT-CO1 exon1(5902-7444)
        309. PLCB4 exon2(9217388-9217451) MACROD2 intron5(14684959-15229937)
        310. MACROD2 intron4(14493508-14684840) POLR3F exon5(18475073-18475186)
        311. NCOA3 exon2(47583181-47583260) SEMG2 exon2(45221707-45223424)
        312. YWHAB exon2(44901529-44901832) MT-CO1 exon1(5902-7444)
        313. CTSA exon6(45893218-45893310) MT-CO2 exon1(7584-8268)
        314. GNAS exon5(58903670-58903790) MT-CO2 exon1(7584-8268)
        315. GNAS exon8(58909348-58909422) MT-ND2 exon1(4468-5510)
        316. GNAS exon9(58909519-58909578) MT-ATP8 exon1(8364-8571)
        317. GNAS exon13(58910681-58911195) MT-ATP6 exon1(8525-9206)
        318. ADRM1 intron4(62306320-62306645) MT-ND2 exon1(4468-5510)
        319. BIRC7 exon1(63235881-63236444) MT-RNR2 exon1(1669-3228)
        320. BIRC7 intron1(63236445-63237900) MT-ATP6 exon1(8525-9206)
        321. NKAIN4 intron3(63244084-63247575) MT-RNR2 exon1(1669-3228)
        322. APP exon1(25880548-25881770) MT-RNR2 exon1(1669-3228)
        323. APP exon1(25880548-25881770) MT-CO2 exon1(7584-8268)
        324. APP exon5(25911739-25911961) MT-ND1 exon1(3305-4261)
        325. GART exon12(33524767-33524999) MT-CO2 exon1(7584-8268)
        326. PTTG1IP exon1(44849583-44851626) MT-CO2 exon1(7584-8268)
        327. PRAME exon1(22547694-22548642) MT-RNR2 exon1(1669-3228)
        328. H1F0 exon1(37805105-37807435) MT-RNR2 exon1(1669-3228)
        329. EIF3L exon11(37877672-37878170) MT-RNR2 exon1(1669-3228)
        330. POLR2F intron4(37967170-37986151) MT-ND1 exon1(3305-4261)
        331. POLR3H exon1(41525799-41529335) MT-RNR2 exon1(1669-3228)
        332. XRCC6 exon8(41650721-41650890) MT-RNR2 exon1(1669-3228)
        333. PACSIN2 exon1(42869764-42871468) MT-RNR2 exon1(1669-3228)
        334. PACSIN2 exon2(42876135-42876332) MT-CO1 exon1(5902-7444)
        335. TRABD exon10(50198343-50199598) MT-ND1 exon1(3305-4261)
        336. SLC25A6 exon2(1387277-1387418) MT-CO1 exon1(5902-7444)
        337. SAT1 exon1(23783156-23783416) MT-RNR2 exon1(1669-3228)
        338. MAGED2 exon4(54810819-54811128) MT-ND4 exon1(10758-12136)
        339. MAGED2 exon12(54815246-54815689) MT-ND1 exon1(3305-4261)
        340. RPS4X exon1(72272601-72272771) MT-CO1 exon1(5902-7444)
        341. PGRMC1 exon3(119243149-119244465) MT-CO2 exon1(7584-8268)
        342. PGRMC1 exon3(119243149-119244465) MT-CO1 exon1(5902-7444)
        343. PHF6 exon10(134425199-134428791) MT-RNR2 exon1(1669-3228)
        344. RENBP exon4(153941476-153941652) MT-CO1 exon1(5902-7444)
[Wed Jul 17 01:34:15 2019] Generating read distributions around fusions
        108988.1 (1-48)
                chr5-chrM 73502543 2408 ff
                chr5-chrM 83652486 7784 rf
                chr5-chrM 86619430 15537 ff
                chr5-chrM 103029049 7824 ff
                chr5-chrM 103029143 4804 ff
                chr5-chrM 151259796 5347 ff
                chr5-chrM 179618205 2698 rf
                chr5-chrM 179708358 6172 ff
                chr6-chrM 10756738 2226 ff
                chr6-chrM 13789719 2877 rf
                chr6-chrM 43011627 2682 ff
                chr6-chrM 82181997 2778 rf
                chr6-chrM 108041631 6170 rf
                chr6-chrM 108260815 3322 rf
                chr6-chrM 111591958 2683 rf
                chr6-chrM 118559901 3677 ff
                chr6-chrM 148514370 1682 ff
                chr6-chrM 169246198 2331 rf
                chr7-chr7 45575180 86945046 fr
                chr7-chr7 45575180 86947922 fr
                chr7-chr7 45575180 86965024 fr
                chr7-chr7 87628944 104736674 ff
                chr7-chr7 87650933 104736671 ff
                chr15-chr7 40561980 26201744 rf
                chr19-chr7 4110358 129126964 rf
                chr7-chrM 2366431 1734 ff
                chr7-chrM 2366565 4055 ff
                chr7-chrM 5529202 3526 rf
                chr7-chrM 13893971 5337 rf
                chr7-chrM 22822738 8454 rf
                chr7-chrM 23253331 8462 ff
                chr7-chrM 23274527 1684 ff
                chr7-chrM 23274583 4110 ff
                chr7-chrM 26192054 10266 rf
                chr7-chrM 27794350 2671 ff
                chr7-chrM 27816988 7917 ff
                chr7-chrM 30609730 8612 ff
                chr7-chrM 30621455 2501 ff
                chr7-chrM 30631512 3862 ff
                chr7-chrM 99460125 2235 rf
                chr7-chrM 101222718 2861 ff
                chr7-chrM 104779107 7189 rf
                chr7-chrM 104796806 3343 rf
                chr7-chrM 107937237 3676 rf
                chr7-chrM 135928210 4794 rf
                chr7-chrM 139417687 7930 ff
                chr8-chr8 130076347 136961739 rf
                chr8-chr8 130091972 136961739 rf
        108988.2 (1-50)
                chr13-chr12 45341072 6538227 rf
                chr12-chrM 6537694 3130 ff
                chr12-chrM 6538293 11298 ff
                chr12-chrM 6538324 10918 ff
                chr12-chrM 8941163 2690 rf
                chr12-chrM 15902970 2816 ff
                chr12-chrM 21644060 4098 rf
                chr12-chrM 51243535 5432 ff
                chr12-chrM 55725864 1682 rf
                chr12-chrM 55727270 7698 rf
                chr12-chrM 55956167 8619 rf
                chr12-chrM 55967041 6171 ff
                chr12-chrM 92143450 5435 rf
                chr12-chrM 98598031 3542 ff
                chr12-chrM 98598658 4047 ff
                chr12-chrM 98601427 1694 ff
                chr12-chrM 98601547 5141 ff
                chr12-chrM 110720449 7188 rf
                chr12-chrM 118136259 1682 ff
                chr12-chrM 118145083 2678 ff
                chr12-chrM 120200718 7798 rf
                chr12-chrM 120697776 5133 ff
                chr13-chrM 27435532 7809 ff
                chr13-chrM 48253899 7936 ff
                chr13-chrM 94479380 1749 rf
                chr13-chrM 113323109 4592 ff
                chr18-chr14 6237965 67100853 rf
                chr14-chrM 21018645 5155 rf
                chr14-chrM 24217145 1751 rf
                chr14-chrM 75651257 6172 rf
                chr14-chrM 94622455 8054 ff
                chr14-chrM 94623768 2408 ff
                chr14-chrM 102083919 2340 rf
                chr14-chrM 104769944 7989 rf
                chr15-chrM 42413676 6432 rf
                chr15-chrM 44717677 3486 ff
                chr15-chrM 44717972 5447 ff
                chr15-chrM 90500402 2832 ff
                chr16-chr16 69568547 75403049 ff
                chr16-chr16 69577593 75395089 ff
                chr16-chr20 69824002 23402992 ff
                chr16-chr20 69837800 23421302 ff
                chr16-chr20 69837802 23397071 ff
                chr16-chr20 69837802 23402992 ff
                chr16-chr20 69840261 23397915 ff
                chr16-chrM 2519754 7612 ff
                chr16-chrM 11839788 7749 rf
                chr16-chrM 21965441 7930 ff
                chr16-chrM 29805148 7768 ff
                chr16-chrM 30067591 2278 ff
        108988.2 (51-73)
                chr16-chrM 30069563 11228 ff
                chr16-chrM 30070215 6506 ff
                chr16-chrM 30070394 11133 ff
                chr16-chrM 31184363 2841 ff
                chr17-chrM 5433123 8456 rf
                chr17-chrM 5444421 4698 rf
                chr17-chrM 7580949 11959 ff
                chr17-chrM 28563451 7904 rf
                chr17-chrM 41689916 4099 ff
                chr17-chrM 43018618 10930 rf
                chr17-chrM 47657020 6388 ff
                chr17-chrM 48056506 3821 ff
                chr17-chrM 59682359 5242 ff
                chr17-chrM 63592596 2029 ff
                chr17-chrM 64504721 3292 rf
                chr17-chrM 74209232 8561 ff
                chr17-chrM 81843845 7821 rf
                chr18-chr18 3729132 6215832 rr
                chr18-chr18 4455005 12859253 rr
                chr18-chr18 6237960 9322148 rr
                chr18-chr18 6240234 9337351 rr
                chr18-chr18 6240234 9341274 rr
                chr18-chr18 6302037 9337351 rr
        108988.3 (1-23)
                chr3-chr11 29384925 24891958 rf
                chr3-chr11 29434742 24891958 rf
                chr3-chr11 29434745 24891958 rf
                chr3-chrM 5203071 6990 ff
                chr3-chrM 33124500 1864 ff
                chr3-chrM 33130026 3527 ff
                chr3-chrM 41233613 4596 ff
                chr3-chrM 49360356 4616 rf
                chr3-chrM 51994060 2421 rf
                chr3-chrM 128813952 7991 ff
                chr3-chrM 128814215 3768 ff
                chr3-chrM 133574087 3863 ff
                chr3-chrM 141913739 1688 ff
                chr4-chrM 39849601 3014 rf
                chr4-chrM 57005343 6152 ff
                chr4-chrM 70820404 3760 rf
                chr4-chrM 75644242 2268 rf
                chr4-chrM 82429287 7880 rf
                chr4-chrM 87982539 2360 ff
                chr4-chrM 121668296 6982 rf
                chr5-chr5 81615472 93964522 rr
                chr5-chr5 140669613 140671315 rr
                chr5-chr17 60185556 1521644 rr
        108988.4 (1-50)
                chr8-chrM 18056695 8755 rf
                chr8-chrM 22420059 1666 ff
                chr8-chrM 29334771 2234 rf
                chr8-chrM 41621364 2549 ff
                chr8-chrM 97724826 3803 ff
                chr8-chrM 97852079 2229 ff
                chr8-chrM 99887591 6938 rf
                chr8-chrM 116644970 2319 rf
                chr8-chrM 124549923 2697 ff
                chr8-chrM 125003230 7856 ff
                chr8-chrM 125022272 5270 ff
                chr8-chrM 127736550 6556 ff
                chr8-chrM 144083491 1682 ff
                chr9-chr9 120911335 120971991 rr
                chr9-chrM 35057063 6574 rf
                chr9-chrM 35057415 1682 rf
                chr9-chrM 35697586 5363 rf
                chr9-chrM 37588474 3006 rf
                chr9-chrM 69305018 6876 rf
                chr9-chrM 121332507 3318 ff
                chr9-chrM 128695943 2331 ff
                chr9-chrM 133363642 4633 rf
                chr9-chrM 137096282 3753 ff
                chr10-chr10 44378722 44835107 fr
                chr10-chr10 44378722 44835213 fr
                chr10-chr10 45533109 44378722 rr
                chr10-chr10 44835018 45533112 rf
                chr10-chr10 44835038 45533112 rf
                chr10-chr16 44971847 76335211 fr
                chr10-chr16 44971847 76349439 fr
                chr10-chrM 17229506 10940 ff
                chr10-chrM 17230705 7828 ff
                chr10-chrM 17233798 3431 ff
                chr10-chrM 17235886 10348 ff
                chr10-chrM 32901233 8120 rf
                chr10-chrM 71816896 7192 rf
                chr10-chrM 71817160 8950 rf
                chr10-chrM 100347442 1682 ff
                chr10-chrM 100348345 3324 ff
                chr10-chrM 101784829 1788 rf
                chr11-chr12 18189302 109855736 fr
                chr20-chr11 58910882 62560330 fr
                chr11-chrM 6613310 7073 rf
                chr11-chrM 10805940 7801 rf
                chr11-chrM 27368043 7800 rf
                chr11-chrM 33709854 3006 rf
                chr11-chrM 33717369 7189 rf
                chr11-chrM 33722411 2262 rf
                chr11-chrM 35189882 1752 ff
                chr11-chrM 62625809 3636 rf
        108988.4 (51-65)
                chr11-chrM 62630776 8755 rf
                chr11-chrM 62633019 11766 rf
                chr11-chrM 62633029 7697 rf
                chr11-chrM 62649519 8747 rf
                chr11-chrM 64925842 6325 rf
                chr11-chrM 65423758 11979 ff
                chr11-chrM 65425951 3157 ff
                chr11-chrM 65503096 6435 ff
                chr11-chrM 72237768 6171 ff
                chr11-chrM 75404098 9710 ff
                chr11-chrM 82860090 6007 rf
                chr11-chrM 89178276 6540 ff
                chr11-chrM 89178499 2778 ff
                chr11-chrM 89178670 7904 ff
                chr11-chrM 130143829 7001 ff
        108988.5 (1-50)
                chr1-chrM 8353270 7674 rf
                chr1-chrM 8864007 3570 rf
                chr1-chrM 8865407 3765 rf
                chr1-chrM 8865444 9518 rf
                chr1-chrM 30873185 1757 rf
                chr1-chrM 32334186 6171 rf
                chr1-chrM 40422818 5194 ff
                chr1-chrM 45014836 4897 ff
                chr1-chrM 46310307 3322 ff
                chr1-chrM 67705144 4123 rf
                chr1-chrM 75787529 2687 ff
                chr1-chrM 92834827 1687 ff
                chr1-chrM 109312045 4945 rf
                chr1-chrM 116390342 9054 ff
                chr1-chrM 153631880 1682 ff
                chr1-chrM 156320835 6937 rf
                chr1-chrM 183134725 7650 ff
                chr1-chrM 226367560 6440 rf
                chr1-chrM 226379194 7939 rf
                chr1-chrM 240474523 3782 ff
                chr5-chr2 151335331 148502432 rf
                chr5-chr2 151333224 148502434 rf
                chr2-chr5 148645169 151335546 fr
                chr2-chr12 160493288 66235214 rr
                chr2-chrM 10789853 1688 rf
                chr2-chrM 26034572 6241 ff
                chr2-chrM 28799472 6801 ff
                chr2-chrM 43901399 5325 rf
                chr2-chrM 54617687 3697 ff
                chr2-chrM 54629980 7818 ff
                chr2-chrM 54987524 7904 rf
                chr2-chrM 63604825 2653 ff
                chr2-chrM 95087368 2246 rf
                chr2-chrM 126696264 2233 ff
                chr2-chrM 131149207 7935 ff
                chr2-chrM 175178336 1682 rf
                chr2-chrM 197396277 2817 rf
                chr2-chrM 206127908 2977 rf
                chr2-chrM 218815084 4603 ff
                chr2-chrM 223975853 2230 rf
                chr2-chrM 223977559 10644 rf
                chr2-chrM 223977584 10552 rf
                chr2-chrM 223998116 3519 rf
                chr2-chrM 223998161 4904 rf
                chr2-chrM 224001640 11604 rf
                chr2-chrM 224001720 7822 rf
                chr2-chrM 224001743 6343 rf
                chr2-chrM 231456652 8654 rf
                chr2-chrM 231461624 995 rf
                chr3-chr3 5213521 5178663 ff
        108988.5 (51-51)
                chr3-chr3 100720057 100629597 ff
        108988.6 (1-12)
                chr1-chr1 6632494 104073372 ff
                chr1-chr1 8867148 236483705 rf
                chr1-chr1 8867159 236483709 rf
                chr1-chr8 159918685 106697559 rr
                chr1-chr10 149977425 45533288 rr
                chr1-chr10 149977425 130451655 rf
                chr1-chr10 149977425 130461275 rf
                chr1-chr10 149977425 130475509 rf
                chr1-chr10 149977425 130482880 rf
                chr1-chr10 150010447 130461275 rf
                chr1-chr10 150010447 130482880 rf
                chr1-chr12 630412 110720195 fr
        108988.7 (1-50)
                chr18-chrM 13666146 5987 rf
                chr18-chrM 59338760 6534 rf
                chr19-chr19 57819944 57813419 fr
                chr19-chrM 581519 2798 ff
                chr19-chrM 583232 11806 ff
                chr19-chrM 583289 7950 ff
                chr19-chrM 1010012 6229 rf
                chr19-chrM 1395585 4824 ff
                chr19-chrM 1584924 3938 rf
                chr19-chrM 2115354 2346 rf
                chr19-chrM 2273050 11169 ff
                chr19-chrM 2273159 1758 ff
                chr19-chrM 3976338 10630 rf
                chr19-chrM 3978040 11140 rf
                chr19-chrM 3979895 7837 rf
                chr19-chrM 3981372 10533 rf
                chr19-chrM 3982010 9738 rf
                chr19-chrM 3982279 6534 rf
                chr19-chrM 3982869 6468 rf
                chr19-chrM 3982937 3501 rf
                chr19-chrM 3983206 10793 rf
                chr19-chrM 3983235 3416 rf
                chr19-chrM 10285629 4178 ff
                chr19-chrM 10395438 2393 rf
                chr19-chrM 11436078 3565 ff
                chr19-chrM 12668305 6065 rf
                chr19-chrM 14478172 2888 rf
                chr19-chrM 15114079 2997 ff
                chr19-chrM 18388506 1688 ff
                chr19-chrM 18388816 11813 ff
                chr19-chrM 19527749 2687 ff
                chr19-chrM 38701028 6212 ff
                chr19-chrM 48616077 3581 rf
                chr19-chrM 48922841 6064 ff
                chr19-chrM 48965459 2683 ff
                chr19-chrM 48966679 5908 ff
                chr20-chr20 9217451 14850735 fr
                chr20-chr20 14538431 18475186 fr
                chr20-chr20 47583256 45221704 ff
                chr20-chrM 44901797 6485 ff
                chr20-chrM 45893302 7916 ff
                chr20-chrM 58903727 7781 ff
                chr20-chrM 58909390 5325 ff
                chr20-chrM 58909562 8495 ff
                chr20-chrM 58911141 8990 ff
                chr20-chrM 62306636 4488 ff
                chr20-chrM 63236309 3018 ff
                chr20-chrM 63237305 8653 ff
                chr20-chrM 63246342 1757 ff
                chr21-chrM 25881254 1684 rf
        108988.7 (51-72)
                chr21-chrM 25881256 8160 rf
                chr21-chrM 25911756 3444 rf
                chr21-chrM 33524850 8160 rf
                chr21-chrM 44850633 7864 rf
                chr22-chrM 22547905 2197 rf
                chr22-chrM 37806508 2233 ff
                chr22-chrM 37877847 2227 ff
                chr22-chrM 37977914 3477 rf
                chr22-chrM 41528574 2023 ff
                chr22-chrM 41650838 2544 ff
                chr22-chrM 42871055 1864 rf
                chr22-chrM 42876134 6376 rf
                chr22-chrM 50198515 3694 ff
                chrX-chrM 1387281 6432 rf
                chrX-chrM 23783385 2787 ff
                chrX-chrM 54811071 10865 ff
                chrX-chrM 54815534 3687 ff
                chrX-chrM 72272614 6804 rf
                chrX-chrM 119243854 7885 ff
                chrX-chrM 119244043 6552 ff
                chrX-chrM 134428058 1731 ff
                chrX-chrM 153941521 7174 rf
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
Traceback (most recent call last):
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2924, in <module>
    sys.exit(main())
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 2901, in main
    read_dist(params)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1491, in read_dist
    parallel_work(pids, work)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1024, in parallel_work
    work()
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1486, in work
    alignments_region(sample_name, bam_file_name, alignments_list)
  File "/opt/wtsi-cgp/bin/tophat-fusion-post", line 1269, in alignments_region
    chr1, chr2 = chr1.split('-')
ValueError: too many values to unpack
[Wed Jul 17 02:31:57 2019] Reporting final fusion candidates in html format
        num of fusions: 214
[Wed Jul 17 02:32:08 2019] Run complete [06:44:17 elapsed]