dbifasta indexes a FASTA format flat file database of one or more files, and builds EMBL CD-ROM format index files.

Here is a sample session with dbifasta, using data in the test/wormpep directory of the distribution (normally indexed as wormpep):

% dbifasta
Index a fasta database
    simple : >ID
     idacc : >ID ACC
     gcgid : >db:ID
  gcgidacc : >db:ID ACC
      ncbi : >blah|...[|ACC]|ID
ID line format [idacc]: idacc
Database name: wormpep
Database directory [.]: /data/worm/
Wildcard database filename [*.dat]: wormpep
Release number [0.0]: 1.0
Index date [00/00/00]: 04/02/00

Mandatory qualifiers:

-idformat (menu)

ID line format.

-directory (string)

Database directory.

-filenames (string)

Wildcard database filename.

[-dbname] (string)

Database name.

-release (string)

Release number.

-date (string)

Index date.

Advanced qualifiers:

-fields (menu)

Index fields.

-exclude (string)

Wildcard filename(s) to exclude.

-indexdirectory (string)

Index directory.

-maxindex (integer)

Maximum index length.

-sortoptions (string)

Sort options, typically -T . to use current directory for work files, or -k 1,1 to force GNU sort to use the first field.

-[no]systemsort (boolean)

Use system sort utility.

-[no]cleanup (boolean)

Clean up temporary files.