Mercurial > repos > dereeper > pangenome_explorer

annotate COG/bac-genomics-scripts/rod_finder/blast_rod_finder_legacy.sh @ 9:24676ef2945d draft

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author dereeper
date Thu, 30 May 2024 16:18:04 +0000
parents e42d30da7a74
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1 #!/bin/bash
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2 echo "###Running legacy BLASTN with subject '$1' and query '$2'"
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3 formatdb -p F -i $1 -n ROD
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4 blastall -p blastn -d ROD -i $2 -o blastn.out -e 2e-11 -F F
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5 echo "###Running blast_rod_finder.pl with query '$3' and minimum ROD size '$4'"
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6 perl blast_rod_finder.pl -q $3 -r blastn.out -m $4