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If you have not resolved this issue yet, it appears that you are listing the directory where the Cog database is located and not the full path to the database; in your case it would be "/Users/Laura/Desktop/rspblast/Cog_LE/Cog".
Hi, I think this has a simple answer, I get this error when running the rpsblast command:
rpsblast -query ROD1.txt -db /Users/Laura/Desktop/rspblast/Cog_LE/ -out rps.blast.out -evalue 1e-5 -outfmt 6
Cannot retrieve path to RPS database
Thanks!
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