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culpinnis avatar culpinnis commented on September 2, 2024

I am getting random segmentation faults on our linux machine, too. Red Hat Linux with Kernel 3.10.0-327.18.2.el7.x86_64 and perl v5.16.3 .
I will upload my code into our git repository in the next days.
I am using a lot of different kmers with the MerDNA-function. Interestingly the segmentation fault is deterministic to the used perl code. It is always crashing for the same kmer. But if I change my code (just creating a new variable is enough), it will crash at another kmer. Seems to be an issue with pointers.
For me it is not the $mer->canonicalize-function causing this, it is the creation of the mer-object.

Cheers
Chris

ps. If it is necessary to debug the code in detail, just give me the instructions.

from jellyfish.

gmarcais avatar gmarcais commented on September 2, 2024

This Perl binding bugs has been reported a couple of times now, on both Mac and Linux system. I am looking into it.

from jellyfish.

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