# HG changeset patch
# User devteam
# Date 1401813586 14400
# Node ID d31417e25765a925e1cfd77145fb779a6d191094
# Parent  5c3984014c07d7abd4986c6bd00fedf51cfe73bb
Uploaded

diff -r 5c3984014c07 -r d31417e25765 pileup_parser.xml
--- a/pileup_parser.xml	Tue Aug 20 11:07:42 2013 -0400
+++ b/pileup_parser.xml	Tue Jun 03 12:39:46 2014 -0400
@@ -320,7 +320,7 @@
  
 To call all variants (with no restriction by coverage) with quality above phred value of 20, we will need to set the parameters as follows:
 
-.. image:: ${static_path}/images/pileup_parser_help1.png 
+.. image:: pileup_parser_help1.png 
 
 Running the tool with these parameters will return::
 
@@ -336,7 +336,7 @@
 
 In addition to calling variants, it is often useful to know the quality adjusted coverage. Running the tool with these parameters:
 
-.. image:: ${static_path}/images/pileup_parser_help2.png 
+.. image:: pileup_parser_help2.png 
 
 will report everything from the original file::
 
@@ -355,7 +355,7 @@
 
 If you set the **Print total number of differences?** to **Yes** the tool will print an additional column with the total number of reads where a devinat base is above the quality threshold. So, seetiing parametrs like this:
 
-.. image:: ${static_path}/images/pileup_parser_help3.png
+.. image:: pileup_parser_help3.png
 
 will produce this::
 
@@ -371,7 +371,7 @@
 
 Setting **Print quality and base string?** to **Yes** as shown here:
 
-.. image:: ${static_path}/images/pileup_parser_help4.png
+.. image:: pileup_parser_help4.png
 
 will produce this::
 
diff -r 5c3984014c07 -r d31417e25765 pileup_parser_help1.png
Binary file pileup_parser_help1.png has changed
diff -r 5c3984014c07 -r d31417e25765 pileup_parser_help2.png
Binary file pileup_parser_help2.png has changed
diff -r 5c3984014c07 -r d31417e25765 pileup_parser_help3.png
Binary file pileup_parser_help3.png has changed
diff -r 5c3984014c07 -r d31417e25765 pileup_parser_help4.png
Binary file pileup_parser_help4.png has changed