ablab/spades

spades-core: /opt/conda/conda-bld/spades_1664217775513/work/src/project/spades/main.cpp:101: int main(int, char**): Assertion `cfg::get().K >= runtime_k::MIN_K && cfg::get().K < runtime_k::MAX_K' failed.finished abnormally, OS return value: -6

GuillaumeDore11 opened this issue · 2 comments

GuillaumeDore11 commented

Description of bug

OS return value: -6 after the use of K149 but it's working for K55.

spades.log

spades.log

params.txt

params.txt

SPAdes version

SPAdes 3.15.

Operating System

Linux-3.10.0-1160.76.1.el7.x86_64-x86_64-with-glibc2.17

Python Version

Python 3.12.3

Method of SPAdes installation

conda

No errors reported in spades.log

  • Yes
andrewprzh commented

Dear @GuillaumeDore11

This looks quite odd, since 127 is the maximal possible value and there are multiple checks for that.
Is it possible you SPAdes version was modified by someone?

Meanwhile, I suggest setting K-mer size manually -k 55,127.

Best
Andrey

  • 👍1
GuillaumeDore11 commented

Hi @andrewprzh,
Thanks for the answer.
I thought that the kmer size limit had been increased in a latest update. If that's not the case I don't quite understand why it has been able to set a value > 127. I just installed with conda and didn't modified it. Guess, I will use -k 55, 127.
Thanks again.

  • 👍1