Entering edit mode
11.0 years ago
John St. John
★
1.2k
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