diff fasta2fastq.xml @ 0:8ab09593f2eb draft default tip

planemo upload commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/fasta2fastq.xml	Wed Oct 07 18:48:40 2020 +0000
@@ -0,0 +1,36 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<tool id="fasta2fastq" name="FASTA-to-FASTQ" version="1.0.0" profile="19.01">
+    <description>Convert a FASTA file to a FASTQ file</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <command><![CDATA[
+        python '$__tool_directory__/fasta2fastq.py' 
+        -i '$file1'
+        -o '$file2'
+        -s '$score'
+    ]]>
+    </command>
+    <inputs>
+        <param name="file1" type="data" format="fasta" label="FASTA file" optional="false"/>
+        <param name="score" type="integer" label="Quality score" value="40" help="Quality score for each base in all reads. Default = 40."/>
+    </inputs>
+    <outputs>
+        <data name="file2" format="fastq" label="${tool.name} on ${on_string}: FASTQ"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="file1" value="Reads_in.fasta"/>
+            <output name="file2" file="Reads_out.fastq"/>
+            <param name="score" value="40"/>
+        </test>
+    </tests>
+    <help> <![CDATA[
+**What it does**
+
+Takes a FASTA file and converts it to a FASTQ file by adding a static quality score. The default quality score for each base in all reads is 40.
+
+    ]]> 
+    </help>
+    <expand macro="citation" />
+</tool>