comparison get_chrom_sizes/get_chrom_sizes.xml @ 1:27f3669eda60 draft

Uploaded

0:6d5d1b56c286

<tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="1.0">
    <description>order of storing aligned sequences</description>
    <command><![CDATA[
        cut -f1,2 '${input1}' > '${output1}' 
    ]]></command>
    <inputs>
        <param name="input1" type="data" format="fai" label="FASTA FAI File" />
    </inputs>
    <outputs>
       <data name="output1" format="tabular"/>
    </outputs>
    <tests>
        <test>
            <param name="input1" value="test.fasta.fai" ftype="fai" />
            <output name="output1" file="test.fasta.sizes" ftype="tabular" lines_diff="4" />
        </test>
    </tests>
    <help>
**What it does**

creates a chromosome sizes file from a fai index
    </help>
    <citations/>
</tool>

1:27f3669eda60

<tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="2.0">
    <description>Chromosome sizes are needed for the creation of ribosome profiles. This tool generates a tab delimited chrom.sizes file from an inputted fasta</description>
    <command>
        python $__tool_directory__/calculating_chrom.sizes.py ${input1} ${output1}
    </command>
    <inputs>
        <param name="input1" type="data" format="fasta" label="FASTA File" />
    </inputs>
    <outputs>
       <data name="output1" format="tabular"/>
    </outputs>
    <tests>
        <test>
            <param name="input1" value="test.fasta" ftype="fasta" />
            <output name="output1" file="test.fasta.sizes" ftype="tabular" lines_diff="4" />
        </test>
    </tests>
    <help>
**What it does**

creates a chromosome sizes file from a fasta file
    </help>
    <citations/>
</tool>