dbiflat

dbiflat

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

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

% dbiflat       EMBL : EMBL      SWISS : Swiss-Prot, SpTrEMBL, TrEMBLnew         GB : Genbank, DDBJ Entry format [SWISS]: EMBL Database name: tembl Database directory [.]: /nfs/disk42/pmr/emboss/osf/emboss/test/embl/ Wildcard database filename [*.dat]: Release number [0.0]: 1.0 Index date [00/00/00]: 04/02/00

Mandatory qualifiers:

-idformat (menu)

Entry 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.



Sequence Analysis in a Nutshell
Sequence Analysis in a Nutshell: A Guide to Common Tools and Databases
ISBN: 059600494X
EAN: 2147483647
Year: 2005
Pages: 312

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