SOAPaligner- 2bwt-builder segmentation fault

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3.5 years ago

lafced • 0

I am trying to run the 2bwt-builder command from soapaligner but I keep getting a segmentation fault error. I tried with different fasta file of different size. I also tried with the conda, sudo and github install and they all give me the same error. here is my code:

2bwt-builder fasta.fasta
segmentation fault

I have a computer with 32 gb of ram, so memory shouldn't be an issue.

soapaligner c linux • 1.2k views

ADD COMMENT • link updated 3.5 years ago by Ram 44k • written 3.5 years ago by lafced • 0

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I have a computer with 32 gb of ram, so memory shouldn't be an issue.

How much data are you aligning?

SOAP is also kinda old now, you might want to try a newer aligner (depending on the source of your data).

ADD REPLY • link 3.5 years ago by Joe 21k

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I would like to align k-mers to a reference genome. What do you suggest that I use instead of soap? thank you

ADD REPLY • link 3.5 years ago by lafced • 0

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What is the origin of the read? Bacterial? Eukaryotic?

ADD REPLY • link 3.5 years ago by Joe 21k

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