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format mapping.tax #290

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5 changes: 4 additions & 1 deletion bin/metawrap-modules/classify_bins.sh
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Expand Up @@ -134,9 +134,12 @@ if [[ $? -ne 0 ]]; then error "Failed to remove extra column. Exiting..."; fi


comm "making mapping file"
cat ${out}/megablast_out.pruned.tab | cut -f5,6 > ${out}/mapping.tax
cat ${out}/megablast_out.pruned.tab | cut -f5,6 > ${out}/raw.mapping.tax
if [[ $? -ne 0 ]]; then error "Failed to make mapping file. Exiting..."; fi

comm "format mapping.tax file"
taxknife -f 2 --mode traverse -r species genus family order class phylum superkingdom < ${out}/raw.mapping.tax > ${out}/mapping.tax
if [[ $? -ne 0 ]]; then error "Failed to format mapping file. Exiting..."; fi


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