view tools/ncbi_blast_plus/ncbi_blastdbcmd_info.xml @ 11:4c4a0da938ff draft

Uploaded v0.0.22, now wraps BLAST+ 2.2.28 allowing extended tabular output to include the hit descriptions as column 25. Supports $GALAXY_SLOTS. Includes more tests and heavy use of macros.

<tool id="ncbi_blastdbcmd_info" name="NCBI BLAST+ database info" version="0.0.22">
    <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>
</tool>