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EMBOSS: dbiflat |
% 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 (* if not always prompted): -idformat list Entry format [-dbname] string Database name * -directory string Database directory * -filenames string Wildcard database filename -release string Release number -date string Index date Optional qualifiers: (none) Advanced qualifiers: -staden bool Use staden index file names -exclude string wildcard filename(s) to exclude -indexdirectory string Index directory -sortoptions string Sort options, typically '-T .' to use current directory for work files and '-k 1,1' to force GNU sort to use the first field -[no]systemsort bool Use system sort utility -[no]cleanup bool Clean up temporary files |
Mandatory qualifiers | Allowed values | Default | |||||||
---|---|---|---|---|---|---|---|---|---|
-idformat | Entry format |
|
SWISS | ||||||
[-dbname] (Parameter 1) |
Database name | A string from 1 to 19 characters | Required | ||||||
-directory | Database directory | Any string is accepted | . | ||||||
-filenames | Wildcard database filename | Any string is accepted | *.dat | ||||||
-release | Release number | A string up to 9 characters | 0.0 | ||||||
-date | Index date | Date string dd/mm/yy | 00/00/00 | ||||||
Optional qualifiers | Allowed values | Default | |||||||
(none) | |||||||||
Advanced qualifiers | Allowed values | Default | |||||||
-staden | Use staden index file names | Yes/No | No | ||||||
-exclude | wildcard filename(s) to exclude | Any string is accepted | An empty string is accepted | ||||||
-indexdirectory | Index directory | Any string is accepted | . | ||||||
-sortoptions | Sort options, typically '-T .' to use current directory for work files and '-k 1,1' to force GNU sort to use the first field | Any string is accepted | -T . -k 1,1 | ||||||
-[no]systemsort | Use system sort utility | Yes/No | Yes | ||||||
-[no]cleanup | Clean up temporary files | Yes/No | Yes |
Program name | Description |
---|---|
dbiblast | Index a BLAST database |
dbifasta | Index a fasta database |
dbigcg | Index a GCG formatted database |