AME Segmentation fault (core dumped)

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Yulong Liu

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Nov 13, 2019, 3:04:54 PM11/13/19
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When I try to run AME on our server for 3'utr motif enrichment, some of the files will return "Segmentation fault (core dumped)" error. I will attach my script, 2 fasta files, and 2 error logs in the thread below.  
File name "sct_nmf_mX0_top10p.fasta" and "motif_memec_542261_0.err" is an working example. 
"sct_nmf_mX3_top10p.fasta" and "motif_memec_542261_3.err" is an not working example. 
All the fasta files are generated together and all runs are in the same submission. 
Thanks for the help!

Yulong Liu

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Nov 13, 2019, 3:10:47 PM11/13/19
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cegrant

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Nov 20, 2019, 3:22:15 PM11/20/19
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In the file sct_nmf_mX3_top10p.fasta there is one sequence that is extremely short:

>npm1a_ENSDART00000143461
GTC

This sequence is shorter then almost any of the motifs in the database, which triggers a bug that was fixed in release 5.0.1. Sequences shorter than the widest motif are now omitted.

You can either delete this sequence or upgrade to a version newer then 5.0.0 (5.1.0 is the most recent release).

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