# HG changeset patch
# User yating-l
# Date 1533060299 14400
# Node ID 2d143f0ac72769402ba93af0a4157896d2449342
# Parent  7c8b327f298ccd8c7d6bddb1dbd9f2f51c4e571f
planemo upload commit 921e3c4788a88874c4ac7b7097e609d0b1e646c9

diff -r 7c8b327f298c -r 2d143f0ac727 rename.py
--- a/rename.py	Tue Jul 31 13:50:21 2018 -0400
+++ b/rename.py	Tue Jul 31 14:04:59 2018 -0400
@@ -1,5 +1,5 @@
 """
-Call rename to rename scaffolds in reference genome so that the sequence names are less than 31 characters. Rename all scaffolds to scaffold_1, scaffold_2, ..., scaffold_N and provide a name mapping file
+Call rename to rename scaffolds in target genome so that the sequence names are less than 31 characters. Rename all scaffolds to scaffold_1, scaffold_2, ..., scaffold_N and provide a name mapping file
 Call truncate to truncate the scaffold names that are more than 31 characters. Replace each invalid character (non-ASCII, '\t', '\n', '\x0b', '\x0c', '\r') with '_'
 """
 import sys
diff -r 7c8b327f298c -r 2d143f0ac727 rename_scaffold.xml
--- a/rename_scaffold.xml	Tue Jul 31 13:50:21 2018 -0400
+++ b/rename_scaffold.xml	Tue Jul 31 14:04:59 2018 -0400
@@ -1,5 +1,5 @@
-<tool id="rename_scaffold" name="rename the scaffolds" version="2.2">
-    <description>a Galaxy tool to rename or truncate the scaffold names in the reference genome so that they won't exceed 31 characters</description>
+<tool id="rename_scaffold" name="rename the scaffolds" version="2.3">
+    <description>a Galaxy tool to rename or truncate the scaffold names in the target genome so that they won't exceed 31 characters</description>
 <stdio>
     <exit_code range="1:" />
 </stdio>
@@ -60,7 +60,7 @@
     </test>
 </tests>
 <help><![CDATA[
-This tool is to rename scaffolds in the reference genome so that the sequence names are less than 31 characters. Rename all scaffolds to scaffold_1, scaffold_2, ..., scaffold_N and also output a name mapping file.
+This tool is to rename scaffolds in the target genome so that the sequence names are less than 31 characters. Rename all scaffolds to scaffold_1, scaffold_2, ..., scaffold_N and also output a name mapping file.
 
 Or truncate the scaffold names that are more than 31 characters and replace each invalid character (non-ASCII, '\\t', '\\n', '\\x0b', '\\x0c', '\\r') with '_' and also output a name mapping file.
 ]]></help>