dbget(1e)

Usage

dbget -database string -datatype string -identifier string [-outfile outfile] -outdir outdir

dbget -help

Overview

dbget is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”). It is part of the "Utils:Misc" command group(s).

Options

Input section

-database string: This is the name of a database from the catalogue of public databases in the EMBOSS data file DRCAT.dat. If you are unsure of the available databases use dbfind. If you have a database name but are not sure its valid, use isdbname.

-datatype string: This is the name of a retrievable datatype from the catalogue of public databases in the EMBOSS data file DRCAT.dat. The names are terms from the 'data' branch of the EDAM ontology, http://edamontology.sourceforge.net/. If you are unsure of the available retrievable datatypes for a given database, use dbtellquery. If you have a datatype name but are not sure its valid, use isdbdata.

-identifier string: This is a data identifier (e.g. a sequence accession number) that is used to specify the data (of type 'datatype') to retrieve. If you're unsure of the data identifier(s) that are used for a given query (database/datatype) use dbtellquery. The types of data identifier are listed under the 'Data identifier' branch of the EDAM ontology (http://edamontology.sourceforge.net/). For example values, see the catalogue of public databases in the EMBOSS data file DRCAT.dat. If you have a data identifier but are unsure of its type, use idtell.

Required section

Additional section

Advanced section

Output section

-outfile outfile: Default value: stdout

-outdir outdir: Default value: .

Releases

Unchanged in 7 releases since Debian 7 (Wheezy).

7–13