I am trying to Majiq with mouse NCBI annotated mm10 genome from UCSC.
Majiq Build v2.2-e25c4ac crashes after:
INFO - Detecting LSVs ngenes: 50563
2021-04-27 11:20:40,444 (PID:2625700) - DEBUG - b'Gm18510'] Connect introns
2021-04-27 11:20:40,444 (PID:2625700) - DEBUG - b'Rack1'] Connect introns
/usr/include/c++/8/bits/stl_vector.h:932: std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::operator[](std::vector<_Tp, _Alloc>::size_type) [with _Tp = grimoire::Intron*; _Alloc = std::allocator<grimoire::Intron*>; std::vector<_Tp, _Alloc>::reference = grimoire::Intron*&; std::vector<_Tp, _Alloc>::size_type = long unsigned int]: Assertion '__builtin_expect(__n < this->size(), true)' failed.
2021-04-27 11:20:40,444 (PID:2625700) - DEBUG - b'Gm13733'] Connect introns
This appears to be parsing the GFF file for the example above removing the following entry continues until the one
chr2 ncbiRefSeq.2020-10-27 gene 86953975 86954791 . - . Name=Gm13733;ID=Gm13733;Name=Gm13733
chr2 ncbiRefSeq.2020-10-27 transcript 86953975 86954791 . - . Parent=Gm13733;ID=Gm13733
chr2 ncbiRefSeq.2020-10-27 exon 86953975 86954791 . - . Parent=Gm13733;ID=exon:Gm13733:1