# HG changeset patch
# User devteam
# Date 1444753228 14400
# Node ID f695662366e2d4142c305ab493ce5ec80d635a1c
# Parent  5070dd2069274579911aa994cc86094ab7892745
planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734

diff -r 5070dd206927 -r f695662366e2 fastq_trimmer_by_quality.xml
--- a/fastq_trimmer_by_quality.xml	Thu Jan 23 12:31:18 2014 -0500
+++ b/fastq_trimmer_by_quality.xml	Tue Oct 13 12:20:28 2015 -0400
@@ -125,6 +125,8 @@
     </test>
   </tests>
   <help>
+**What it does**
+
 This tool allows you to trim the ends of reads based upon the aggregate value of quality scores found within a sliding window; a sliding window of size 1 is equivalent to 'simple' trimming of the ends. 
 
 The user specifies the aggregating action (min, max, sum, mean) to perform on the quality score values found within the sliding window to be used with the user defined comparison operation and comparison value.
@@ -139,10 +141,9 @@
 
 ------
 
-**Citation**
-
-If you use this tool, please cite `Blankenberg D, Gordon A, Von Kuster G, Coraor N, Taylor J, Nekrutenko A; Galaxy Team. Manipulation of FASTQ data with Galaxy. Bioinformatics. 2010 Jul 15;26(14):1783-5. &lt;http://www.ncbi.nlm.nih.gov/pubmed/20562416&gt;`_
-
 
   </help>
+  <citations>
+    <citation type="doi">10.1093/bioinformatics/btq281</citation>
+  </citations>
 </tool>
diff -r 5070dd206927 -r f695662366e2 tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jan 23 12:31:18 2014 -0500
+++ b/tool_dependencies.xml	Tue Oct 13 12:20:28 2015 -0400
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
   <package name="galaxy_sequence_utils" version="1.0.0">
-      <repository changeset_revision="195699b1562a" name="package_galaxy_utils_1_0" owner="devteam" prior_installation_required="False" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+      <repository changeset_revision="195699b1562a" name="package_galaxy_utils_1_0" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>