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  • nufangdeshengming
    Member
    • Oct 2015
    • 10

    blast fomatdb error

    I use blast-2.2.17 to perform blast ,but when i type "formatdb -i db.seq -o T -p F",i get nothing new in the result,and there is also no error information,i donnot konw why.
    Here is the sequence of db.seq which is in FASTA format:
    >fake_seq
    AGGAAGAGGAGCTCCTTTCGTTCCAATTCAGGAGAGGAAGTGGTAGGATGCAGCTGCCGATTCATGGATA
    CCTCTGGAGTGCATGCAGCAATGCTGTAGGCCTGCACTTGCATGGGTTTGCATGACCCGGCGAGATGAAC
    CCACCATTGTCTTCCTCTATTGATTGGATTGAAGGGAGCTCCACATCTCT
  • GenoMax
    Senior Member
    • Feb 2008
    • 7142

    #2
    That looks like an older version of blast (current is 2.3.0). For blast+, the command you should use is makeblastdb. Type makeblastdb -h to get inline help.

    Comment

    • nufangdeshengming
      Member
      • Oct 2015
      • 10

      #3
      But i am using blast now

      Originally posted by GenoMax View Post
      That looks like an older version of blast (current is 2.3.0). For blast+, the command you should use is makeblastdb. Type makeblastdb -h to get inline help.
      i know blast+,but i am using blast now ,so how can i solve this problem?

      Comment

      • GenoMax
        Senior Member
        • Feb 2008
        • 7142

        #4
        Are you able to run
        formatdb -h
        and get help printed to the screen? Want to check that you are using the correct executable for your OS.

        If you are using the -o option then fasta headers need to be formatted in a specific way (see this link for help).
        Last edited by GenoMax; 05-23-2016, 01:26 AM.

        Comment

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