# HG changeset patch
# User iuc
# Date 1488192264 18000
# Node ID c9413b0ba604cf70b028e08e2acb7a06334ca7e2
# Parent  77e29e6a6101eac372856637bc9396a72c48d669
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks commit 9401451df4a985ef5686864eaadafa077ffc0877

diff -r 77e29e6a6101 -r c9413b0ba604 macros.xml
--- a/macros.xml	Mon Sep 26 11:45:03 2016 -0400
+++ b/macros.xml	Mon Feb 27 05:44:24 2017 -0500
@@ -38,9 +38,9 @@
 
 **Project links:**
 
-`Stacks website <http://creskolab.uoregon.edu/stacks/>`_
+`Stacks website <http://catchenlab.life.illinois.edu/stacks/>`_
 
-`Stacks manual <http://creskolab.uoregon.edu/stacks/stacks_manual.pdf>`_
+`Stacks manual <http://catchenlab.life.illinois.edu/stacks/manual/>`_
 
 `Stacks google group <http://groups.google.com/group/stacks-users>`_
 ]]></token>
diff -r 77e29e6a6101 -r c9413b0ba604 stacks_pstacks.xml
--- a/stacks_pstacks.xml	Mon Sep 26 11:45:03 2016 -0400
+++ b/stacks_pstacks.xml	Mon Feb 27 05:44:24 2017 -0500
@@ -13,7 +13,7 @@
 
         &&
 
-        #if $sample.ext == "sam":
+        #if $sample.is_of_type('sam'):
             #set $data_path = splitext($sample.element_identifier)[0]
             #set $data_path = re.sub(r'\.1$', '', $data_path)
             #set $data_path = "stacks_inputs/" + $data_path + ".sam"