This might work:
Code:
makeblastdb -in $(cat Strains/*.fasta) -dbtype 'nucl' -out db/stec_samples
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makeblastdb -in Strains/example1.fasta Strains/example2.fasta -dbtype nucl -out db/stec_samples
makeblastdb -in "Strains/example1.fasta Strains/example2.fasta" -dbtype nucl -out db/stec_samples
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