Mercurial > repos > iracooke > protk
comparison make_decoy.xml @ 2:418f42b34049 draft
Reuploading
| author | iracooke |
|---|---|
| date | Mon, 23 Jul 2012 00:20:58 -0400 |
| parents | a929e27eb203 |
| children |
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| 1:deaedec14cc8 | 2:418f42b34049 |
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| 1 <tool id="make_decoy_1" name="Create decoy databases" version="1.0.0"> | |
| 2 <requirements> | |
| 3 <requirement type="package">protk</requirement> | |
| 4 </requirements> | |
| 5 | |
| 6 <description>Creates a random protein database with similar properties to a real protein database</description> | |
| 7 | |
| 8 <command>make_decoy.rb $input_file -o $output -L $length -P $prefix $append</command> | |
| 9 | |
| 10 <inputs> | |
| 11 | |
| 12 <param name="input_file" type="data" format="fasta" multiple="false" label="Input File" help="Real protein sequences. Take care that these are fasta formatted with no more than 80 amino acids per line. There should be no whitespace in the sequences."/> | |
| 13 <param name="prefix" type="text" label="String to prepend to generated protein ID's" size="60" value="decoy_"/> | |
| 14 <param name="length" type="text" label="Number of random sequences to generate" help="If 0, a database of equal size to the input database will be generated" size="60" value="0"/> | |
| 15 <param name="append" type="boolean" checked="true" label="Append input dataset to the generated sequences" truevalue="-A" falsevalue=""/> | |
| 16 </inputs> | |
| 17 | |
| 18 <outputs> | |
| 19 <data format="fasta" name="output" metadata_source="input_file" label="Random sequences from ${input_file.display_name}" from_work_dir="random.fasta"/> | |
| 20 </outputs> | |
| 21 | |
| 22 <help> | |
| 23 Create random protein sequences | |
| 24 </help> | |
| 25 | |
| 26 </tool> |