Replace all /wikis references with /wiki

Author: sbliven

404.html

@@ -3,32 +3,32 @@
 title: 404 Page Not Found
 ---
 <script>
-var allposts = [];  
+var allposts = [];
 function redirectToCorrectPage() {
-	{% for post in site.pages %}  
-		allposts.push("{{ post.url }}");  
-	{% endfor %}  
-	{% for post in site.wikis %}  
-		allposts.push("{{ post.url }}");  
-	{% endfor %}  
+	{% for post in site.pages %}
+		allposts.push("{{ post.url }}");
+	{% endfor %}
+	{% for post in site.wiki %}  
+		allposts.push("{{ post.url }}");
+	{% endfor %}
 	var url = window.location.pathname;
 	// strip trailing /
-	if (url.slice(-1) === "/") {  
-		 url = url.slice(0, -1);  
+	if (url.slice(-1) === "/") {
+		 url = url.slice(0, -1);
 	}
-	var allpostsUpperCase = allposts.map(function(value) {  
+	var allpostsUpperCase = allposts.map(function(value) {
 	  // strip trailing /
-	  if (value.slice(-1) === "/") {  
-		  value = value.slice(0, -1);  
+	  if (value.slice(-1) === "/") {
+		  value = value.slice(0, -1);
 	  }
-		return value.toUpperCase();  
-	});  
-	var i = allpostsUpperCase.indexOf(url.toUpperCase());  
-	if (i != -1) {  
-		console.log(allposts[i]);  
-		window.location = allposts[i];  
-	}  
-}  
+		return value.toUpperCase();
+	});
+	var i = allpostsUpperCase.indexOf(url.toUpperCase());
+	if (i != -1) {
+		console.log(allposts[i]);
+		window.location = allposts[i];
+	}
+}
 window.onload = redirectToCorrectPage;
 </script>
-<p>Sorry this page does not exist =(</p>
+<p>Sorry this page does not exist =(</p>

_config.yml

@@ -74,7 +74,7 @@ release:
  version: 4.2.1
 
 collections:
-  wiki :
+  wiki:
    output: true
    permalink: /wiki/:path/
    post_dirs: false

_wiki/Annotations_List.md

@@ -1,6 +1,6 @@
 ---
 title: Annotations:List
-permalink: wikis/Annotations%3AList
+permalink: wiki/Annotations%3AList
 ---
 
 How do I List the Annotations in a Sequence?

_wiki/BioJava3_Coding_Conventions.md

@@ -1,14 +1,14 @@
 ---
 title: BioJava3:Coding Conventions
-permalink: wikis/BioJava3%3ACoding_Conventions
+permalink: wiki/BioJava3%3ACoding_Conventions
 ---
 
 -   Each file should contain the
-    [BioJava3\_license](/wikis/BioJava3_license "wikilink") LGPL copyright
+    [BioJava3\_license](/wiki/BioJava3_license "wikilink") LGPL copyright
     statement.
 
 <!-- -->
 
 -   For Eclipse developers, here a Code template:
-    [BioJava3\_eclipse\_template](/wikis/BioJava3_eclipse_template "wikilink")
+    [BioJava3\_eclipse\_template](/wiki/BioJava3_eclipse_template "wikilink")
 

_wiki/BioJava3_Design.md

@@ -12,7 +12,7 @@ Implementation
 --------------
 
 For information on the current status of the BioJava 3 implementation go
-to [BioJava3\_project](/wikis/BioJava3_project "wikilink")
+to [BioJava3\_project](/wiki/BioJava3_project "wikilink")
 
 References
 ----------
@@ -214,4 +214,4 @@ Use cases
 
 It is planned to document BioJava in parallel with development. To do
 this, we want to drive development from a set of [ use
-cases](/wikis/BioJava 3 Use Cases "wikilink").
+cases](/wiki/BioJava 3 Use Cases "wikilink").

_wiki/BioJava3_Feature_Requests.md

@@ -21,5 +21,5 @@ There are also a number of algorithms where we would be interested in
 [Java ports](Algorithm_Java_port "wikilink").
 
 You can also take a look at the current list of [ BioJava
-Modules](/wikis/BioJava:Modules#BioJava_3.0.X "wikilink") and suggest other
+Modules](/wiki/BioJava:Modules#BioJava_3.0.X "wikilink") and suggest other
 missing features.

_wiki/BioJava3_HowTo.md

@@ -1,6 +1,6 @@
 ---
 title: BioJava3:HowTo
-permalink: wikis/BioJava3%3AHowTo
+permalink: wiki/BioJava3%3AHowTo
 ---
 
 This page is a work-in-progress, describing each of the key areas in

_wiki/BioJava3_Proposal.md

@@ -8,7 +8,7 @@ BioJava 3 has been released
 This page was used while starting the discussions for creating the new
 version. BioJava 3.0 has been released on Dec. 28th 2010.
 
-[BioJava3\_project](/wikis/BioJava3_project "wikilink")
+[BioJava3\_project](/wiki/BioJava3_project "wikilink")
 
 Executive Summary
 -----------------

_wiki/BioJava3_eclipse.md

@@ -113,7 +113,7 @@ require SCM handler.*
     files (the maven config files) and will understand that it is a
     maven and a git-tracked project.
 
-You should now have source to all the biojava modules (/wikis/BioJava3-core,
+You should now have source to all the biojava modules (/wiki/BioJava3-core,
 biojava3-structure, etc). Viewing the history for any file should show
 you all commits since 2009 which have contributed to that file.
 

_wiki/BioJava3_license.md

@@ -3,7 +3,7 @@ title: BioJava3 license
 ---
 
 BioJava 3 is using the [standard BioJava
-license](/wikis/BioJava:License "wikilink"): LGPL v 2.1
+license](/wiki/BioJava:License "wikilink"): LGPL v 2.1
 
 Developers: Please include the following javadoc in the header of every
 class you commit: