# HG changeset patch
# User mheinzl
# Date 1527100308 14400
# Node ID ea67840d05144fcc0fb46f339f0eb258432ff26b
# Parent  cf7874bb493499e397d437149397775d3410cefe
planemo upload for repository https://github.com/monikaheinzl/galaxyProject/tree/master/tools/hd commit 797ff8e0461392fe4542de33e7b58f9e0abefc7c

diff -r cf7874bb4934 -r ea67840d0514 hd.py
--- a/hd.py	Wed May 23 14:23:00 2018 -0400
+++ b/hd.py	Wed May 23 14:31:48 2018 -0400
@@ -180,7 +180,7 @@
 
     plt.axis((minimumX - 1, maximumX + 1, 0, maximumY * 1.1))
     plt.xticks(numpy.arange(0, maximumX + 1, 1.0))
-    plt.ylim((0, maximumY * 1.1))
+    plt.ylim((0, maximumY * 1.2))
 
     legend = "sample size= {:,} against {:,}".format(len(ham[0]), lenTags, lenTags)
     plt.text(0.14, -0.01, legend, size=12, transform=plt.gcf().transFigure)
@@ -906,7 +906,7 @@
             ##########################       Plot HD within tags          ########################################################
             ######################################################################################################################
            # plotHDwithinSeq_Sum2(HDhalf1, HDhalf2, minHDs, pdf=pdf, lenTags=lenTags, title_file1=name_file)
-            plotHDwithinSeq_Sum2(HDhalf1, HDhalf1min,HDhalf2min, HDhalf2 , minHDs, pdf=pdf, lenTags=lenTags, title_file1=name_file)
+            plotHDwithinSeq_Sum2(HDhalf1, HDhalf1min,HDhalf2, HDhalf2min , minHDs, pdf=pdf, lenTags=lenTags, title_file1=name_file)
             
             
             ##########################       Plot difference between HD's separated after FSD ####################################
diff -r cf7874bb4934 -r ea67840d0514 hd.xml
--- a/hd.xml	Wed May 23 14:23:00 2018 -0400
+++ b/hd.xml	Wed May 23 14:31:48 2018 -0400
@@ -1,5 +1,5 @@
 <?xml version="1.0" encoding="UTF-8"?>
-<tool id="hd" name="Duplex Sequencing Analysis: hd" version="0.0.16">
+<tool id="hd" name="Duplex Sequencing Analysis: hd" version="0.0.17">
     <requirements>
         <requirement type="package" version="2.7">python</requirement>
         <requirement type="package" version="1.4">matplotlib</requirement>
@@ -22,7 +22,7 @@
         <param name="onlyDCS" type="boolean" label="only DCS in the analysis?" truevalue="" falsevalue="--only_DCS" checked="False" help="Only tags, which have a partner tag in the dataset, are included in the analysis."/>
         <param name="subsetTag" type="integer" label="shorten tag in the analysis?" value="0" help="An analysis with shorter tag length, which is specified by this parameter, is simulated. If this parameter is 0 (by default), the tag with its original length is used in the analysis."/>
         <param name="nproc" type="integer" label="number of processors" value="8" help="Number of processor used for computing."/>
-        <param name="nr_above_bars" type="boolean" label="include numbers above bars?" truevalue="--nr_above_bars" falsevalue="" checked="False" help="The absolute and relative values of the bar can be included or removed in the plot. "/>
+        <param name="nr_above_bars" type="boolean" label="include numbers above bars?" truevalue="--nr_above_bars" falsevalue="" checked="True" help="The absolute and relative values of the bar can be included or removed in the plot. "/>
  
     </inputs>
     <outputs>