cschin / Peregrine

Peregrine: Fast Genome Assembler Using SHIMMER Index

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core file produced but final output is created #29

Open aclum opened 4 years ago

aclum commented 4 years ago

I'm assembling a ~20MB fungi on a 120 Gb node. The assembly completes successfully and looks reasonable but I'm getting a core file in the 3-asm stage. When I run gdb pg_run.py -c core

I get Core was generated by `/sbin/ldconfig -p'. Program terminated with signal SIGSEGV, Segmentation fault.

0 0x00002aaaaab3a1a7 in ?? ()

I'm running with the docker container cschin/peregrine:0.1.5.5

cschin commented 4 years ago

so you get results but there is core dump? is it possible to share the data so I can do some test? BTW, nice to hear from you again @aclum. Sorry for the late, I think I need to check my mail box filter. I should receive notification when people submit issues.