Error during --test execution: The program was terminated by segmentation fault

[lucolotto]

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Description of bug

I downloaded the binaries as suggested here. spades.py is in my $PATH.

I was running the command spades.py --test and got the error: "The program was terminated by segmentation fault". Can you help me fixing this?

spades.log

spades (1).log

params.txt

params.txt

SPAdes version

SPAdes version: 3.15.5

Operating System

Linux-5.15.0-91-generic-x86_64-with-glibc2.35

Python Version

Python version: 3.10.12

Method of SPAdes installation

binaries

No errors reported in spades.log

• [X] Yes

[asl]

Does the problem reproduce if you'd run SPAdes outside of NFS share?

[lucolotto]

I cannot do it. Our server is built so $HOME is mounted on the NFS and we operate using virtual machines that are created by the IT guy that runs the whole thing

[asl]

Well, there might be two reasons:

• One cannot build binaries that could be run on all flavours of Linux. So, I would suggest you to try to build from sources, or
• Your NFS does not support memory-mapped files properly. Then you'd need to ask your IT guys to fix this issue.

[lucolotto]

I will do, thanks!

[ac-simpson]

I am having the exact same issue (just downloaded the latest binaries and tried running it) and I don't use NFS, so I don't think it's that. I'll try building from source and see if that helps. @lucolotto , did you figure it out? spades.log