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DaehwanKimLab / centrifuge

Classifier for metagenomic sequences
GNU General Public License v3.0
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Centrifuge-class segfaulting #76

Open ben-heil opened 7 years ago

ben-heil commented 7 years ago

Hello,

I'm trying to run centrifuge on a computer cluster, and it's failing with the message "(ERR): centrifuge-class died with signal 11 (SEGV) (core dumped)"

When I step through in the perl debugger, the problem seems to be at line 439 of centrifuge, if(defined($cap_out))

To the best of my knowledge all the dependencies are installed correctly (blast+, jellyfish, and nucmer are all in my path).

Do you know what might be causing this issue?

Thanks -Ben

ben-heil commented 7 years ago

This is likely the same issue as #41 . I didn't notice it earlier, but it's worth checking out for more information

brooksomics commented 7 years ago

The same error is also mentioned here #47.

I recently switched from a Gentoo to Ubuntu system (on AWS) and have yet to get Centrifuge working on the new system - which is a shame because it's quite useful!