--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/blastx_to_scaffold.xml	Sun Oct 15 13:16:03 2017 -0400
@@ -0,0 +1,42 @@
+<tool id="blastx2scaffold" name="blastx_to_scaffold" version="1.0.0">
+<description>Generate DNA scaffold from blastx alignment of Contigs</description>
+<requirements>
+</requirements>
+<command interpreter="python">
+        blastx_to_scaffold.py --sequences $sequences
+                              --blastx-tab $blastx_tab
+                              --output $output
+</command>
+<inputs>
+<param name="sequences" type="data" format="fasta" label="Select a fasta contigs file"/> 
+<param name="blastx_tab"  type="data" format="tabular" label="Select a blastx output from your history" help="must have 13 columns with column 13 containing the subject lenght, other columns are standard"/> 
+
+</inputs>
+<outputs>
+ <data format="fasta" name="output"/>
+</outputs>
+
+
+<tests>
+  <test>
+    <param name="sequences" value="contigs.fa" ftype="fasta"/>
+    <param name="blastx_tab" value="blastx.tab" ftype="tabular"/>
+    <output name="output" file="scaffold.fa" ftype="fasta"/>
+  </test>
+</tests>
+        
+
+<help>
+
+
+**What it Does**
+This tool starts from DNA contigs that aligned to a subject protein sequence through blastx.
+The contigs must be provided in fasta format. The blastx output must be tabular, the 12 standard column plus column 13 with the length of the blastx subject.
+The final scaffold is a DNA sequence.
+Sequences of the subject protein which were not aligned to the contigs are replaced by Ns in this scaffold.
+
+**Attribution**
+This Galaxy tool was created by drosofff@gmail.com on 28/05/2015
+</help>
+
+</tool>