diff fasta_add_barcode.xml @ 0:04699558a38a draft default tip

planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/fasta_add_barcode commit e857f7126443e115f11954085423f8999bc870aa-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/fasta_add_barcode.xml	Fri Apr 15 06:04:56 2016 -0400
@@ -0,0 +1,60 @@
+<tool id="fasta_add_barcode" name="Add barcodes" version="1.0">
+
+    <description>to FASTA sequences</description>
+
+    <requirements>
+    </requirements>
+
+    <stdio>
+    </stdio>
+
+    <version_command>python -version</version_command>
+
+    <!--<command>-->
+    <command><![CDATA[
+        python $__tool_directory__/fasta_add_barcode.py 
+            --input_sequence_file $sequence_file
+            --input_mapping_file $mapping_file
+            --output_sequence_file $output_sequence_file
+        ]]>
+    </command>
+
+    <inputs>
+        <param name="sequence_file" type="data" format="fasta" label="Sequence 
+        zfile" help=""/>
+        <param name="mapping_file" type="data" format="tabular" 
+            label="Mapping file between sequence identifier and barcode to add" 
+            help="The mapping file must be a tabular delimited file with
+            two columns. The first column contains sequence identifier and
+            the second column corresponding barcode to add at the beginning
+            of each sequence."/>
+    </inputs>
+
+    <outputs>
+        <data format="fasta" name="output_sequence_file" metadata_source="sequence_file" 
+            label="Sequences with added barcodes from ${on_string}" />
+    </outputs>
+
+    <tests>
+        <test>
+            <param name="sequence_file" value="input_sequences.fasta"/>
+            <param name="mapping_file" value="mapping_file.txt"/>
+            <output name="output_sequence_file" file="output_test.fasta" />
+        </test>
+    </tests>
+
+    <help><![CDATA[
+
+**What it does**
+
+This tool takes a FASTA file and add at the beginning of each sequence a barcode.
+
+The barcode of each sequence is determined given its sequence identifier. The mapping between sequence identifier and corresponding barcode is defined inside the mapping file. This file must be a tabular delimited file with two columns: the first with sequence identifiers and the second the corresponding barcode.
+
+]]>
+    </help>
+
+    <citations>
+    </citations>
+</tool>
+