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biscuit asm fails on generated epiread files #13
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Hey I think I have an idea, maybe this is just off-by-one or off-by-two? Here is what epiread.txt (above) looks like:
Unless something funny is happening, in wztsv.h, https://github.com/zwdzwd/utils/blob/3281eb6f70e431480a036d33ba587c70f6fc26c7/wztsv.h#L86, tsv_read should fill up the tsv struct "in" as follows:
So it looks like this is maybe an off-by-one error? If I replace the code with
it looks like we are OK, although then it's going to corrupt the _snp / _cg code following. Let's see... |
nb. It's not an issue of single-end vs paired-end epiread format:
|
followup: changing
to
allows things to proceed and eventually the program exits normally, although I haven't come across an ASM-possessing region in my osteosarcoma to test it out on. So maybe it is an off-by-one error? I need a positive control before I'm willing to send in a patch :-) |
Compiled with debug symbols and run under gdb...
I'm having a hard time figuring out why it is asserting that a coordinate should be length 1...
epiread.txt
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