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run_sourmash.sh
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| #!/usr/bin/env bash | |
| for line in $(cat list); do | |
| FILE=/global/cfs/cdirs/img/web-data/sandbox.blast.data/${line}/${line}.a.fna | |
| if [ -f "$FILE" ]; then | |
| mamba activate sourmash | |
| sourmash sketch dna -p k=31,scaled=1000 -o ${line}.fna.sig "$FILE" | |
| fi | |
| done | |
| sourmash gather 3300009984.fna.sig gtdb-rs207.genomic-reps.dna.k31.zip --save-matches matches.zip | |
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