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Kingsford-Group / squid

SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
BSD 3-Clause "New" or "Revised" License
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squid errors #18

Open jchenpku opened 4 years ago

jchenpku commented 4 years ago

[Mon Oct 7 13:51:39 2019] Start reading bam file. [Mon Oct 7 13:51:58 2019] Finish sorting Chimeric bam reads. [Mon Oct 7 13:52:00 2019] Finish removing PCR duplicates. [Mon Oct 7 13:52:01 2019] Building nodes. |bamdiscordant|=502321 [Mon Oct 7 14:17:55 2019] Building nodes, finish seeding. squid: src/SegmentGraph.cpp:664: void SegmentGraph_t::BuildNode_STAR(const std::vector&, SBamrecord_t&, std::string): Assertion `(vNodes[i].Chr!=vNodes[i+1].Chr) || (vNodes[i].Chr==vNodes[i+1].Chr && vNodes[i].Position+vNodes[i].Length<=vNodes[i+1].Position)' failed. Aborted (core dumped)

Congm12 commented 4 years ago

Could you provide more information about in what dataset you have this error and the command you used to process it?