view tools/ncbi_blast_plus/ncbi_blastdbcmd_info.xml @ 14:2fe07f50a41e draft

Uploaded v0.1.01 - Requires blastdbd datatype (blast_datatypes v0.0.19). Support for makeprofiledb to create protein domain databases and use them in RPS-BLAST and RPS-TBLASTN. Tools now support GI and SeqID filters, and embed the citations.

<tool id="ncbi_blastdbcmd_info" name="NCBI BLAST+ database info" version="0.1.01">
    <description>Show BLAST database information from blastdbcmd</description>
    <macros>
        <token name="@BINARY@">blastdbcmd</token>
        <import>ncbi_macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <command>
blastdbcmd -dbtype $db_opts.db_type -db "${db_opts.database.fields.path}" -info -out "$info"
    </command>
    <expand macro="stdio" />
    <inputs>
        <expand macro="input_conditional_choose_db_type" />
    </inputs>
    <outputs>
        <data name="info" format="txt" label="${db_opts.database.fields.name} info" />
    </outputs>
    <help>
    
**What it does**

Calls the NCBI BLAST+ blastdbcmd command line tool with the -info
switch to give summary information about a BLAST database, such as
the size (number of sequences and total length) and date.

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**References**

If you use this Galaxy tool in work leading to a scientific publication please
cite the following papers:

@REFERENCES@
    </help>
    <expand macro="blast_citations" />
</tool>