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1 <tool id="extract_align" name="Extract sub sequence of multifasta file." version="0.1.0">
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2
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2 <description>Extract sub sequence of multifasta file.</description>
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1
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3 <stdio>
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4 <exit_code range="1:" />
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5 </stdio>
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5
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6 <command interpreter="python3">
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7 exseq_multi.py -i $inputfile -s $startpos -e $endpos -o $output
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8 </command>
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9 <inputs>
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10 <param type="data" name="inputfile" format="fasta" label="Select your multifasta file :" />
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11 <param type="text" name="startpos" label="Start position to cut :" />
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12 <param type="text" name="endpos" label="End position to stop the cut :" />
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13 </inputs>
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14 <outputs>
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3
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15 <data name="output" format="fasta" />
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1
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16 </outputs>
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17 <help>
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18 usage: exseq_multi.py [-h] [-i INFILE] [-s START] [-e END] [-o OUTFILE]
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19
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20 Extract sequence of multifasta file from position start/end.
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21
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22 optional arguments:
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23 -h, --help show this help message and exit
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24 -i INFILE, --input_file INFILE
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25 Multifasta file.
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26 -s START, --start_position START
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27 Start position to extract.
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28 -e END, --end_position END
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29 End position to extract.
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30 -o OUTFILE, --output_file OUTFILE
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31 Output file.
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32
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33 </help>
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34 </tool>
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