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annotate fasta_add_barcode.xml @ 1:0ea7700e08ba draft

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planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/fasta_add_barcode commit 5c45ed58045ce1686aa069403f8a9426ea20bac5-dirty
author bebatut
date Tue, 12 Apr 2016 03:00:11 -0400
parents 8b37115e8d6b
children 2ca5fde7a2bb
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0ea7700e08ba planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/fasta_add_barcode commit 5c45ed58045ce1686aa069403f8a9426ea20bac5-dirty
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1 <tool id="fasta_add_barcode" name="Add barcodes" version="1.0">
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3 <description>to FASTA sequences</description>
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5 <requirements>
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6 <requirement type='package' version="1.0">fasta_add_barcode</requirement>
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7 </requirements>
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9 <stdio>
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10 </stdio>
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12 <version_command>python -version</version_command>
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14 <!--<command>-->
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15 <command><![CDATA[
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16 python $__tool_directory__/fasta_add_barcode.py
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17 --input_sequence_file $sequence_file
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18 --input_mapping_file $mapping_file
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19 --output_sequence_file $output_sequence_file
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20 ]]>
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21 </command>
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23 <inputs>
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24 <param name="sequence_file" type="data" format="fasta" label="Sequence
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25 zfile" help=""/>
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26 <param name="mapping_file" type="data" format="tabular"
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27 label="Mapping file between sequence identifier and barcode to add"
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28 help="The mapping file must be a tabular delimited file with
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29 two columns. The first column contains sequence identifier and
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30 the second column corresponding barcode to add at the beginning
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31 of each sequence."/>
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32 </inputs>
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34 <outputs>
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35 <data format="fasta" name="output_sequence_file" metadata_source="sequence_file"
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36 label="Sequences with added barcodes from ${on_string}" />
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37 </outputs>
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39 <tests>
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40 <test>
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41 <param name="sequence_file" value="input_sequence_file"/>
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42 <param name="mapping_file" value="mapping_file"/>
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43 <param name="output_sequence_file" value="output_sequence_file" />
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44 </test>
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45 </tests>
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47 <help><![CDATA[
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49 **What it does**
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51 This tool takes a FASTA file and add at the beginning of each sequence a barcode.
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52 The barcode of each sequence is determined given sequence identifier and the mapping
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53 file.
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55 ]]>
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56 </help>
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58 <citations>
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59 </citations>
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60 </tool>
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