--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rapsodyn/PrepareFastqLight.xml~	Tue Oct 07 10:34:34 2014 -0400
@@ -0,0 +1,27 @@
+<tool id="PrepareFastqLight" name="PrepareFastqLight" version="1.01">
+<description>Fastq preparation</description>
+<command interpreter="perl">
+    PrepareFastqLight.pl -read1_file $input_read1_file -read2_file $input_read2_file -output1 $output_read1_file -output2 $output_read2_file -log_file $log_file -type $quality_type -min_quality $min_quality -min_length $min_length
+</command>
+<inputs>
+	<param name="input_read1_file"  type="data" format="txt,fastq" label="Select a suitable FASTQ READ 1 file from your history"/>
+	<param name="input_read2_file"  type="data" format="txt,fastq" label="Select a suitable FASTQ READ 2 file from your history"/>
+	<param name="quality_type" type="select" label="Select input quality format">
+		<option value="sanger">Sanger</option>
+		<option value="illumina">Illumina 1.3-1.7</option>
+	</param>
+	<param name="min_quality" type="integer" value="30" label="Minimum quality for 5' and 3' trimming "/>
+	<param name="min_length" type="integer" value="30" label="Minimum sequence length after trimming"/>
+</inputs>
+<outputs>
+	<data name="output_read1_file" format="fastqsanger" label="${tool.name} on ${on_string}"/>
+	<data name="output_read2_file" format="fastqsanger" label="${tool.name} on ${on_string}"/>
+	<data name="log_file" format="txt" label="${tool.name} LOG on ${on_string}"/>
+</outputs>
+
+<help>
+
+
+
+</help>
+</tool>