/tools/emboss_5/emboss_freak.xml

 1<tool id="EMBOSS: freak36" name="freak" version="5.0.0">
 2  <description>Residue/base frequency table or plot</description>
 3  <command>freak -seqall $input1 -outfile $out_file1 -window $window -letters $letters -graph png -step $step -auto</command>
 4  <inputs>
 5    <param format="data" name="input1" type="data">
 6      <label>Sequences</label>
 7    </param>
 8    <param name="letters" size="5" type="text" value="gc">
 9      <label>Residue letters</label>
10    </param>
11    <param name="step" size="5" type="text" value="1">
12      <label>Stepping value</label>
13    </param>
14    <param name="window" size="5" type="text" value="30">
15      <label>Averaging window</label>
16    </param>
17  </inputs>
18  <outputs>
19    <data format="freak" name="out_file1" />
20  </outputs>
21  <tests>
22    <test>
23      <param name="input1" value="2.fasta"/>
24      <param name="letters" value="gc"/>
25      <param name="step" value="1"/>
26      <param name="window" value="30"/>
27      <output name="out_file1" file="emboss_freak_out.freak"/>
28    </test>
29  </tests>
30  <help>
31    You can view the original documentation here_.
32    
33    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/freak.html
34  </help>
35</tool>