view tabular_to_fasta.xml @ 1:7f7a1bea4653 draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/tabular_to_fasta commit 01140c0ac1a926856c55853a0028e5d44935d9e6"

<tool id="tab2fasta" name="Tabular-to-FASTA" version="1.1.1" profile="16.04">
    <description>converts tabular file to FASTA format</description>
    <requirements>
        <requirement type="package" version="3.7">python</requirement>
    </requirements>
    <command><![CDATA[
python '$__tool_directory__/tabular_to_fasta.py'
'$input'
$title_col
$seq_col
'$output'
    ]]></command>
    <inputs>
        <param name="input" type="data" format="tabular" label="Tab-delimited file"/>
        <param name="title_col" type="data_column" data_ref="input" multiple="true" numerical="false" label="Title column(s)" help="Multi-select list - hold the appropriate key while clicking to select multiple columns"/>
        <param name="seq_col" type="data_column" data_ref="input" numerical="false" label="Sequence column" />
    </inputs>
    <outputs>
        <data name="output" format="fasta"/>
    </outputs>
    <tests>
        <test>
            <param name="input" value="solexa.tabular" />
            <param name="title_col" value="1,2,3,4" />
            <param name="seq_col" value="5" />
            <output name="output" file="tabular_to_fasta_out1.fasta" />
        </test>
    </tests>
    <help><![CDATA[
**What it does**

Converts tab delimited data into FASTA formatted sequences.

-----------

**Example**

Suppose this is a sequence file produced by Illumina (Solexa) sequencer::

    5	300	902	419	GACTCATGATTTCTTACCTATTAGTGGTTGAACATC
    5	300	880	431	GTGATATGTATGTTGACGGCCATAAGGCTGCTTCTT

Selecting **c3** and **c4** as the **Title column(s)** and **c5** as the **Sequence column** will result in::

    >902_419
    GACTCATGATTTCTTACCTATTAGTGGTTGAACATC
    >880_431
    GTGATATGTATGTTGACGGCCATAAGGCTGCTTCTT
    ]]></help>
</tool>