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1 <tool id="EMBOSS: cai_custom6" name="cai custom" version="5.0.0">
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2 <description>CAI codon adaptation index using custom codon usage file</description>
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3 <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
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4 <command>cai -seqall $input1 -outfile $out_file1 -cfile $input2 -auto</command>
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5 <inputs>
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6 <param format="fasta" name="input1" type="data">
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7 <label>On query</label>
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8 </param>
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9 <param format="txt" name="input2" type="data">
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10 <label>Codon Usage File</label>
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11 </param>
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12 </inputs>
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13 <outputs>
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14 <data format="txt" name="out_file1" />
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15 </outputs>
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16 <help>
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17 .. class:: warningmark
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18
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19 The input dataset needs to be sequences.
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20
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21 -----
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22
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23 You can view the original documentation here_.
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24
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25 .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/cai_custom.html
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26 </help>
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27 </tool>
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