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Samtools faidx "Segmentation fault (core dumped)"

E.ScienceE.Science London, UKMember


I am preparing my fasta file so I can apply it to HaplotypeCaller. At the stage where I use samtools faidx tmp.fasta I'm getting segmentation fault (core dumped). At first it specified the errors so I got rid of the blank lines in the sequence and also the header.

Now, it just gives me that and I looked online but I couldn't find any help. Do you think it's a matter of size of the file? What should I do in such case?

Thank you very much.

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