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tasks/NGScheckMates.wdl
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| @@ -11,7 +11,7 @@ task NGScheckMates { | |||
| set -e | |||
| nt=$(nproc) | |||
| export NCM_HOME=/opt/NGSCheckMate | |||
| python /opt/NGSCheckMate/ncm_fastq.py -l ${input_file} -pt /opt/NGSCheckMate/SNP/SNP.pt -O '.' -p $nt -f -s 0.1 | |||
| python /opt/NGSCheckMate/ncm_fastq.py -l ${input_file} -pt /opt/NGSCheckMate/SNP/SNP.pt -O '.' -p $nt -f -s 0.3 | |||
| # rename | |||
| mv output_all.txt ${sample_id}_output_all.txt | |||
| mv output_corr_matrix.txt ${sample_id}_output_corr_matrix.txt | |||
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