diff mothur/tools/mothur/make.fastq.xml @ 2:e990ac8a0f58

Migrated tool version 1.19.0 from old tool shed archive to new tool shed repository

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/mothur/tools/mothur/make.fastq.xml	Tue Jun 07 17:39:06 2011 -0400
@@ -0,0 +1,41 @@
+<tool id="mothur_make_fastq" name="Make.fastq" version="1.19.0">
+ <description>Convert fasta and quality to fastq</description>
+ <command interpreter="python">
+  mothur_wrapper.py 
+  --cmd='fastq.info'
+  --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.fastq$:'$fastq
+  --outputdir='$logfile.extra_files_path'
+  --fasta=$fasta
+  --qfile=$qfile
+ </command>
+ <inputs>
+  <param name="fasta" type="data" format="fasta" label="fasta - Fasta Sequence file"/>
+  <param name="qfile" type="data" format="qual" label="qfile - Sequence Quality file"/>
+ </inputs>
+ <outputs>
+  <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" />
+  <data format="fastq" name="fastq" label="${tool.name} on ${on_string}: fastq"/>
+ </outputs>
+ <requirements>
+  <requirement type="binary">mothur</requirement>
+ </requirements>
+ <tests>
+ </tests>
+ <help>
+**Mothur Overview**
+
+Mothur_, initiated by Dr. Patrick Schloss and his software development team 
+in the Department of Microbiology and Immunology at The University of Michigan,  
+provides bioinformatics for the microbial ecology community.
+
+.. _Mothur: http://www.mothur.org/wiki/Main_Page
+
+**Command Documenation**
+
+The fastq.info_ command reads a fasta file and quality file and creates a fastq.
+
+
+.. _fastq.info: http://www.mothur.org/wiki/Make.fastq
+
+ </help>
+</tool>