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Genome Music Path-Scan Negative P-Value?

Hello,

Genome MuSic path-scan crashes with the following error on one of my datasets, and works fine with another that has identical format. Here is the error from the dataset that crashes out:

...
Skipping Silent mutation in gene POMT1.
Skipping Silent mutation in gene ABCD1.
ERROR: Error running genome music path-scan: '-1.62633954011268e-15' is not a p-val at /usr/share/perl5/Genome/Model/Tools/Music/PathScan/PopulationPathScan.pm line 615
ERROR: Please see 'genome music play --help' for more information.

Has anyone experienced this kind of error before? Unfortunately I am running this on patient data, so I cannot share the dataset that it crashes on.

This is using genome music play version 0.4, and is running on ubuntu version 12.04. 

genome music play  \
    --bam-list filelist.bams   \
    --roi-file ensembl_67_cds_ncrna_and_splice_sites_hg19   \
    --genetic-data-type gene   --reference-sequence genome.fa  \
    --pathway-file KEGG.txt    --maf-file VariantCalls.maf   \
    --output-dir VariantCalls_play_out

Edit: this question has been asked and answered before: MuSIC path-scan pvalue error

music
• 3,225 views • link
updated by Chris Miller Chris Miller • written by John St. John John St. John

Thanks for digging up that post for me!

• 0 views • link
written by John St. John John St. John

Np. Your question contains the actual error message. So folks are more likely to find this post first, rather than that older one.

• 0 views • link
written by Cyriac Kandoth Cyriac Kandoth

Closing as a duplicate, and also marking with the "resolved" tag, in case we ever get around to excluding such posts from automatic bumping.

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written by Chris Miller Chris Miller

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