fixed old wiki links

pporrasebi · Aug 5, 2015 · 34464b2 · 34464b2
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diff --git a/_includes/docs_toc.md b/_includes/docs_toc.md
@@ -2,22 +2,22 @@
 
 Operations committee
 
-  * [Mission statement](http://code.google.com/p/obo-foundry-operations-committee/wiki/MissionStatement)
-  * [Membership](http://code.google.com/p/obo-foundry-operations-committee/wiki/Membership)
-  * [Meetings](http://code.google.com/p/obo-foundry-operations-committee/wiki/CommitteeMeetings)
-  * [Policy decisions](http://code.google.com/p/obo-foundry-operations-committee/wiki/OperationsCommitteePolicyDecisions)
-  * [Mailing-lists](http://code.google.com/p/obo-foundry-operations-committee/wiki/MailingLists)
-  * [OBO calendar](http://code.google.com/p/obo-foundry-operations-committee/wiki/OBOCalendar)
+  * [Mission statement](/docs/MissionStatement.html)
+  * [Membership](/docs/Membership.html)
+  * [Meetings](/docs/CommitteeMeetings.html)
+  * [Policy decisions](/docs/OperationsCommitteePolicyDecisions.html)
+  * [Mailing-lists](/docs/MailingLists.html)
+  * [OBO calendar](/docs/OBOCalendar.html)
 
-[Outreach group](http://code.google.com/p/obo-foundry-operations-committee/wiki/OutreachWG)
+[Outreach group](/docs/OutreachWG.html)
 
-[Editorial group](http://code.google.com/p/obo-foundry-operations-committee/wiki/EditorialWG)
+[Editorial group](/docs/EditorialWG.html)
 
-  * [Review process](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewProcessGuidelines)
-  * [Review criteria](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewCriteriaPolicies)
+  * [Review process](/docs/ReviewProcessGuidelines.html)
+  * [Review criteria](/docs/ReviewCriteriaPolicies.html)
 
-[Technical group](http://code.google.com/p/obo-foundry-operations-committee/wiki/TechnicalWG)
+[Technical group](/docs/TechnicalWG.html)
 
-  * [PURL requests](http://code.google.com/p/obo-foundry-operations-committee/wiki/Policy_for_OBO_namespace_and_associated_PURL_requests)
-  * [OBO PURL configuration](http://code.google.com/p/obo-foundry-operations-committee/wiki/OBOPURLDomain)
-  * [Setting up Protege 4.3](http://code.google.com/p/obo-foundry-operations-committee/wiki/SettingUpProtege)
+  * [PURL requests](/docs/Policy_for_OBO_namespace_and_associated_PURL_requests.html)
+  * [OBO PURL configuration](/docs/OBOPURLDomain.html)
+  * [Setting up Protege 4.3](/docs/SettingUpProtege.html)
diff --git a/_includes/navbar.html b/_includes/navbar.html
@@ -23,8 +23,7 @@
         <li class="dropdown">
           <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">About <span class="caret"></span></a>
           <ul class="dropdown-menu">
-            <li><a href="/coordination.html">Coordination</a></li>
-            <li><a href="/related.html">Related</a></li>
+            <li><a href="/docs/ProjectHome.html">Documentation</a></li>
             <li><a href="https://github.com/OBOFoundry">GitHub Organization</a></li>
             <li><a href="https://github.com/OBOFoundry/OBOFoundry.github.io">GitHub project</a></li>
           </ul>
@@ -45,20 +44,20 @@
           <ul class="dropdown-menu">
             <li><a href="/id-policy.html">ID Policy</a></li>
             <li><a href="/literature.html">Literature</a></li>
-            <li><a href="http://wiki.obofoundry.org">Wiki (LEGACY)</a></li>
             <li><a href="http://www.nature.com/nbt/journal/v25/n11/full/nbt1346.html">Citation</a></li>
           </ul>
         </li>
 
         <li class="dropdown">
-          <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Participate <span class="caret"></span></a>
+          <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Legacy <span class="caret"></span></a>
           <ul class="dropdown-menu">
-            <li><a href="/id-policy.html">ID Policy</a></li>
             <li><a href="/literature.html">Literature</a></li>
-            <li role="separator" class="divider"></li>
             <li><a href="/participate.html">Participate</a></li>
-            <li role="separator" class="divider"></li>
-            <li><a href="#">One more separated link</a></li>
+            <li><a href="/coordination.html">Coordination</a></li>
+            <li><a href="/related.html">Related</a></li>
+            <li><a href="/publications.html">Publications</a></li>
+            <li><a href="http://wiki.obofoundry.org">Old Wiki</a></li>
+            <li><a href="https://code.google.com/p/obo-foundry-operations-committee/wiki/">Old Operation Wiki</a></li>
           </ul>
         </li>
 

diff --git a/_layouts/doc.html b/_layouts/doc.html
@@ -19,9 +19,6 @@ <h1>
 
     <div class="row">
       <div class="col-md-3">
-        <p>
-          TOC GOES HERE
-        </p>
         {% capture my_include %}{% include docs_toc.md %}{% endcapture %}
         {{ my_include | markdownify }}
 

diff --git a/docs/EditorialWG.md b/docs/EditorialWG.md
@@ -10,7 +10,7 @@ This page describes members and activities of the OBO Foundry Editorial Working
 
 # Details #
 
-From the [MissionStatement](http://code.google.com/p/obo-foundry-operations-committee/wiki/MissionStatement): OBO Foundry Editorial WG is involved in reviewing OBO Foundry ontologies and policy setting. Primary tasks are to conduct reviews, but also include all activities that enable that process, such as tool building for automated validation, website maintenance of the review results, or leading calls and taking notes.
+From the [MissionStatement](/docs/MissionStatement.html): OBO Foundry Editorial WG is involved in reviewing OBO Foundry ontologies and policy setting. Primary tasks are to conduct reviews, but also include all activities that enable that process, such as tool building for automated validation, website maintenance of the review results, or leading calls and taking notes.
 
 ## Scope ##
 The OBO Foundry Editorial WG will:
@@ -22,11 +22,11 @@ Current activities are focused on creating guidelines for reviews. Once those gu
 
 ## Draft guidelines and policies ##
 
-[Ontology review process guidelines](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewProcessGuidelines)
+[Ontology review process guidelines](/docs/ReviewProcessGuidelines.html)
 
-[Ontology review criteria policies](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewCriteriaPolicies)
+[Ontology review criteria policies](/docs/ReviewCriteriaPolicies.html)
 
-[Ontology review management guidelines](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewManagementGuidelines)
+[Ontology review management guidelines](/docs/ReviewManagementGuidelines.html)
 
 # Members #
 (in alphabetical order)<br>

diff --git a/docs/OBOPURLDomain.md b/docs/OBOPURLDomain.md
@@ -25,7 +25,7 @@ Create a group with the name obo-IDSPACE (e.g., obo-IAO), and add the OBO group
 
   * Create the top-level PURL
 
-Please check the [PURLGuide](http://code.google.com/p/obo-foundry-operations-committee/wiki/PURLGuide) beforehand if you are not familiar with the PURL software/interface.
+Please check the [PURLGuide](/docs/PURLGuide.html) beforehand if you are not familiar with the PURL software/interface.
 
 Go to [http://purl.org](http://purl.org) and register the new domain as a subdomain of /obo/. Once logged in, go to the tab "Domains", option "create a new domain", and create the domain /obo/prefix (where prefix is the prefix chosen by the resource, e.g., IAO). Note that you need to have writing permission on the OBO domain to create subdomains.
 

diff --git a/docs/Policy_for_OBO_namespace_and_associated_PURL_requests.md b/docs/Policy_for_OBO_namespace_and_associated_PURL_requests.md
@@ -21,7 +21,7 @@ The technical working group reserves the right to make decisions based on their
 
 ## Requestor ##
 
-  1. You will get a PURL for your main file under the OBO PURL domain as well as a PURL domain. You will be part of the administrator group for those resources. Please familiarize yourself with the PURL guide at http://code.google.com/p/obo-foundry-operations-committee/wiki/PURLGuide .
+  1. You will get a PURL for your main file under the OBO PURL domain as well as a PURL domain. You will be part of the administrator group for those resources. Please familiarize yourself with the PURL guide at [PULRGuide](PURLGuide.html) .
   1. As of today (April 7th, 2013), when your prefix is registered it is automatically included for display on the OBO Foundry site. This may change in the future as we modify our registration system.
   1. Once your domain is created under OBO you will automatically benefit from our dereferencing tool [Ontobee](http://www.ontobee.org). If preferred you can, of course, redirect your pages towards your own web pages.
   1. Please keep the OBO PURL group (group ID: OBO) to the maintainers/members of your PURL group
@@ -68,4 +68,4 @@ If you don't hear back from us after 2 weeks, please send a note to the [obo-fou
 
 # For more information #
 
-For instructions on how to create the prefix/domain at purl.org, or to understand how the OBO PURL domain/redirection works, see http://code.google.com/p/obo-foundry-operations-committee/wiki/OBOPURLDomain
+For instructions on how to create the prefix/domain at purl.org, or to understand how the OBO PURL domain/redirection works, see [OBOPURLDomain](OBOPURLDomain.html)
diff --git a/docs/ReviewCriteriaPolicies.md b/docs/ReviewCriteriaPolicies.md
@@ -5,7 +5,7 @@ title: ReviewCriteriaPolicies
 
 # Ontology Review Criteria #
 
-This page deals with policies and guidelines for the criteria by which an ontology should be reviewed. [ReviewProcessGuidelines](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewProcessGuidelines) covers guidelines and policies for the operational aspects of ontology review.
+This page deals with policies and guidelines for the criteria by which an ontology should be reviewed. [ReviewProcessGuidelines](/docs/ReviewProcessGuidelines.html) covers guidelines and policies for the operational aspects of ontology review.
 
 
 # Draft criteria/policies #

diff --git a/docs/ReviewManagementGuidelines.md b/docs/ReviewManagementGuidelines.md
@@ -5,4 +5,4 @@ title: ReviewManagementGuidelines
 
 # Ontology Review Management #
 
-This page was originally created to cover guidelines for managing reviews. That material is not covered in the [ontology review process guidelines](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewProcessGuidelines) and the [ontology review criteria policies](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewCriteriaPolicies).
+This page was originally created to cover guidelines for managing reviews. That material is not covered in the [ontology review process guidelines](/docs/ReviewProcessGuidelines.html) and the [ontology review criteria policies](/docs/ReviewCriteriaPolicies.html).
diff --git a/docs/ReviewProcessGuidelines.md b/docs/ReviewProcessGuidelines.md
@@ -10,7 +10,7 @@ This page deals with policies and guidelines for the process of ontology review,
   * what is the workflow for conducting a review?
   * how will conflicts be resolved?
 
-[ReviewCriteriaPolicies](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewCriteriaPolicies) covers guidelines and policies for the criteria by which an ontology should be reviewed.
+[ReviewCriteriaPolicies](/docs/ReviewCriteriaPolicies.html) covers guidelines and policies for the criteria by which an ontology should be reviewed.
 
 # How to request an ontology review #
 

diff --git a/docs/SettingUpProtege.md b/docs/SettingUpProtege.md
@@ -7,7 +7,7 @@ title: SettingUpProtege
 
 This page explains how to set up Protege 4.3 to comply with the OBO Foundry [ID policy](http://obofoundry.org/id-policy.shtml)
 
-In the following, the example of the Epidemiology Ontology, EPO, will be used (with permission from Catia Pesquita). It is assumed that you requested and obtained a PURL and prefix from the OBO Foundry administrators. Instructions to do so are available [here](http://code.google.com/p/obo-foundry-operations-committee/wiki/Policy_for_OBO_namespace_and_associated_PURL_requests)
+In the following, the example of the Epidemiology Ontology, EPO, will be used (with permission from Catia Pesquita). It is assumed that you requested and obtained a PURL and prefix from the OBO Foundry administrators. Instructions to do so are available [here](/docs/Policy_for_OBO_namespace_and_associated_PURL_requests.html)
 
 In summary, following the policy entails that:
   * your main file is available at http://purl.obolibrary.org/obo/epo.owl (and this is your Ontology IRI)

diff --git a/docs/TableOfContents.md b/docs/TableOfContents.md
@@ -6,22 +6,22 @@ title: TableOfContents
 
 Operations committee
 
-  * [Mission statement](http://code.google.com/p/obo-foundry-operations-committee/wiki/MissionStatement)
-  * [Membership](http://code.google.com/p/obo-foundry-operations-committee/wiki/Membership)
-  * [Meetings](http://code.google.com/p/obo-foundry-operations-committee/wiki/CommitteeMeetings)
-  * [Policy decisions](http://code.google.com/p/obo-foundry-operations-committee/wiki/OperationsCommitteePolicyDecisions)
-  * [Mailing-lists](http://code.google.com/p/obo-foundry-operations-committee/wiki/MailingLists)
-  * [OBO calendar](http://code.google.com/p/obo-foundry-operations-committee/wiki/OBOCalendar)
+  * [Mission statement](/docs/MissionStatement.html)
+  * [Membership](/docs/Membership.html)
+  * [Meetings](/docs/CommitteeMeetings.html)
+  * [Policy decisions](/docs/OperationsCommitteePolicyDecisions.html)
+  * [Mailing-lists](/docs/MailingLists.html)
+  * [OBO calendar](/docs/OBOCalendar.html)
 
-[Outreach group](http://code.google.com/p/obo-foundry-operations-committee/wiki/OutreachWG)
+[Outreach group](/docs/OutreachWG.html)
 
-[Editorial group](http://code.google.com/p/obo-foundry-operations-committee/wiki/EditorialWG)
+[Editorial group](/docs/EditorialWG.html)
 
-  * [Review process](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewProcessGuidelines)
-  * [Review criteria](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewCriteriaPolicies)
+  * [Review process](/docs/ReviewProcessGuidelines.html)
+  * [Review criteria](/docs/ReviewCriteriaPolicies.html)
 
-[Technical group](http://code.google.com/p/obo-foundry-operations-committee/wiki/TechnicalWG)
+[Technical group](/docs/TechnicalWG.html)
 
-  * [PURL requests](http://code.google.com/p/obo-foundry-operations-committee/wiki/Policy_for_OBO_namespace_and_associated_PURL_requests)
-  * [OBO PURL configuration](http://code.google.com/p/obo-foundry-operations-committee/wiki/OBOPURLDomain)
-  * [Setting up Protege 4.3](http://code.google.com/p/obo-foundry-operations-committee/wiki/SettingUpProtege)
+  * [PURL requests](/docs/Policy_for_OBO_namespace_and_associated_PURL_requests.html)
+  * [OBO PURL configuration](/docs/OBOPURLDomain.html)
+  * [Setting up Protege 4.3](/docs/SettingUpProtege.html)
diff --git a/docs/TechnicalWG.md b/docs/TechnicalWG.md
@@ -26,7 +26,7 @@ Carlo Torniai (on leave)<br>
 <br>
 <h1>Meetings</h1>
 
-See <a href='http://code.google.com/p/obo-foundry-operations-committee/wiki/TechnicalWGMeetings'>here</a>
+See <a href='TechnicalWGMeetings.html'>here</a>
 
 <h1>HOWTOs</h1>
Original file line number	Diff line number	Diff line change
Expand Up		@@ -5,4 +5,4 @@ title: ReviewManagementGuidelines

		# Ontology Review Management #

		This page was originally created to cover guidelines for managing reviews. That material is not covered in the [ontology review process guidelines](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewProcessGuidelines) and the [ontology review criteria policies](http://code.google.com/p/obo-foundry-operations-committee/wiki/ReviewCriteriaPolicies).
		This page was originally created to cover guidelines for managing reviews. That material is not covered in the [ontology review process guidelines](/docs/ReviewProcessGuidelines.html) and the [ontology review criteria policies](/docs/ReviewCriteriaPolicies.html).