Update footers

lafita · lafita · commit b49ea81b755d · 2015-08-06T11:06:54.000+02:00
diff --git a/alignment/README.md b/alignment/README.md
@@ -59,8 +59,8 @@ The content of this tutorial is available under the [CC-BY](http://creativecommo
 
 Navigation:
 [Home](../README.md)
-| Book 2: The Alignment module
+| Book 2: The Alignment Module
 
-Prev: [Book 1: The Core module](../core/README.md)
+Prev: [Book 1: The Core Module](../core/README.md)
 
-Next: [Book 3: The Structure modules](../structure/README.md)
+Next: [Book 3: The Structure Modules](../structure/README.md)
diff --git a/alignment/installation.md b/alignment/installation.md
@@ -41,5 +41,5 @@ If you run
 
 Navigation:
 [Home](../README.md)
-| [Book 2: The Alignment module](README.md)
+| [Book 2: The Alignment Module](README.md)
 | Chapter 1 : Installation
diff --git a/core/README.md b/core/README.md
@@ -55,6 +55,6 @@ The content of this tutorial is available under the [CC-BY](http://creativecommo
 
 Navigation:
 [Home](../README.md)
-| Book 1: The Core module
+| Book 1: The Core Module
 
-Next: [Book 2: The Alignment module](../alignment/README.md)
+Next: [Book 2: The Alignment Module](../alignment/README.md)
diff --git a/core/installation.md b/core/installation.md
@@ -42,7 +42,7 @@ If you run
 
 Navigation:
 [Home](../README.md)
-| [Book 1: The Core module](README.md)
+| [Book 1: The Core Module](README.md)
 | Chapter 1 : Installation
 
 Next: [Chapter 2 : Basic Sequence types](sequences.md)
diff --git a/core/readwrite.md b/core/readwrite.md
@@ -62,3 +62,16 @@ BioJava can be used to parse large FASTA files. The example below can parse a 1G
             }
         }
 ```
+
+<!--automatically generated footer-->
+
+---
+
+Navigation:
+[Home](../README.md)
+| [Book 1: The Core Module](README.md)
+| Chapter 3 : Reading and Writing sequences
+
+Prev: [Chapter 2 : Basic Sequence types](sequences.md)
+
+Next: [Chapter 4 : Translating](translating.md)
diff --git a/core/sequences.md b/core/sequences.md
@@ -60,9 +60,9 @@ See the Cookbook for [more details on dealing with sequences] (http://biojava.or
 
 Navigation:
 [Home](../README.md)
-| [Book 1: The Core module](README.md)
+| [Book 1: The Core Module](README.md)
 | Chapter 2 : Basic Sequence types
 
 Prev: [Chapter 1 : Installation](installation.md)
 
-Next: [Chapter 4 : Translating](translating.md)
+Next: [Chapter 3 : Reading and Writing sequences](readwrite.md)
diff --git a/core/translating.md b/core/translating.md
@@ -110,7 +110,7 @@ Translated Frame:REVERSED_THREE : HRGS*AFG*LCAISSL*ANNQSHHSDGHSLSGEDSRTGQLLLRQMS
 
 Navigation:
 [Home](../README.md)
-| [Book 1: The Core module](README.md)
+| [Book 1: The Core Module](README.md)
 | Chapter 4 : Translating
 
-Prev: [Chapter 2 : Basic Sequence types](sequences.md)
+Prev: [Chapter 3 : Reading and Writing sequences](readwrite.md)
diff --git a/genomics/README.md b/genomics/README.md
@@ -64,4 +64,4 @@ Navigation:
 [Home](../README.md)
 | Book 4: The Genomics Module
 
-Prev: [Book 3: The Structure modules](../structure/README.md)
+Prev: [Book 3: The Structure Modules](../structure/README.md)
diff --git a/structure/README.md b/structure/README.md
@@ -88,8 +88,8 @@ The content of this tutorial is available under the [CC-BY](http://creativecommo
 
 Navigation:
 [Home](../README.md)
-| Book 3: The Structure modules
+| Book 3: The Structure Modules
 
-Prev: [Book 2: The Alignment module](../alignment/README.md)
+Prev: [Book 2: The Alignment Module](../alignment/README.md)
 
 Next: [Book 4: The Genomics Module](../genomics/README.md)
diff --git a/structure/alignment.md b/structure/alignment.md
@@ -385,7 +385,7 @@ Thanks to P. Bourne, Yuzhen Ye and A. Godzik for granting permission to freely u
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 8 : Structure Alignments
 
 Prev: [Chapter 7 : SEQRES and ATOM Records](seqres.md)
diff --git a/structure/asa.md b/structure/asa.md
@@ -41,7 +41,7 @@ See [DemoAsa](https://github.com/biojava/biojava/blob/master/biojava3-structure/
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 11 : Accessible Surface Areas
 
 Prev: [Chapter 10 : External Databases](externaldb.md)
diff --git a/structure/bioassembly.md b/structure/bioassembly.md
@@ -233,7 +233,7 @@ The RCSB PDB web site has a great [tutorial on Biological Assemblies](http://www
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 9 : Biological Assemblies
 
 Prev: [Chapter 8 : Structure Alignments](alignment.md)
diff --git a/structure/caching.md b/structure/caching.md
@@ -89,7 +89,7 @@ There are quite a number of external database IDs that are supported here. See t
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 4 : Local Installations
 
 Prev: [Chapter 3 : Structure Data Model](structure-data-model.md)
diff --git a/structure/chemcomp.md b/structure/chemcomp.md
@@ -89,7 +89,7 @@ If you want to enable the second behaviour (slow loading of all chem comps at st
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 5 : Chemical Component Dictionary
 
 Prev: [Chapter 4 : Local Installations](caching.md)
diff --git a/structure/contact-map.md b/structure/contact-map.md
@@ -68,7 +68,7 @@ See [DemoContacts](https://github.com/biojava/biojava/blob/master/biojava3-struc
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 12 : Contacts Within a Chain and between Chains
 
 Prev: [Chapter 11 : Accessible Surface Areas](asa.md)
diff --git a/structure/crystal-contacts.md b/structure/crystal-contacts.md
@@ -65,9 +65,9 @@ One can also cluster the interfaces based on their similarity. The similarity is
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 13 - Finding all Interfaces in Crystal: Crystal Contacts
 
 Prev: [Chapter 12 : Contacts Within a Chain and between Chains](contact-map.md)
 
-Next: [Chapter 16 : Special Cases](special.md)
+Next: [Chapter 14 : Protein Symmetry](symmetry.md)
diff --git a/structure/externaldb.md b/structure/externaldb.md
@@ -205,7 +205,7 @@ got 4 domains
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 10 : External Databases
 
 Prev: [Chapter 9 : Biological Assemblies](bioassembly.md)
diff --git a/structure/firststeps.md b/structure/firststeps.md
@@ -123,7 +123,7 @@ BioJava provides a number of algorithms and visualisation tools that you can use
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 2 : First Steps
 
 Prev: [Chapter 1 : Installation](installation.md)
diff --git a/structure/installation.md b/structure/installation.md
@@ -43,7 +43,7 @@ If you run
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 1 : Installation
 
 Next: [Chapter 2 : First Steps](firststeps.md)
diff --git a/structure/lists.md b/structure/lists.md
@@ -26,7 +26,7 @@ The following provides information about the status of a PDB entry
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 17 : Status Information
 
 Prev: [Chapter 16 : Special Cases](special.md)
diff --git a/structure/mmcif.md b/structure/mmcif.md
@@ -144,7 +144,7 @@ See the [http://mmcif.rcsb.org/](http://mmcif.rcsb.org/) site for more documenta
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 6 : Work with mmCIF/PDBx Files
 
 Prev: [Chapter 5 : Chemical Component Dictionary](chemcomp.md)
diff --git a/structure/seqres.md b/structure/seqres.md
@@ -103,7 +103,7 @@ This gives the following output:
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 7 : SEQRES and ATOM Records
 
 Prev: [Chapter 6 : Work with mmCIF/PDBx Files](mmcif.md)
diff --git a/structure/special.md b/structure/special.md
@@ -130,9 +130,9 @@ DYG is an unusual group - it has 3 characters as a result of .getOne_letter_code
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 16 : Special Cases
 
-Prev: [Chapter 13 - Finding all Interfaces in Crystal: Crystal Contacts](crystal-contacts.md)
+Prev: [Chapter 14 : Protein Symmetry](symmetry.md)
 
 Next: [Chapter 17 : Status Information](lists.md)
diff --git a/structure/structure-data-model.md b/structure/structure-data-model.md
@@ -165,7 +165,7 @@ This prints all the compounds/entities in a structure
 
 Navigation:
 [Home](../README.md)
-| [Book 3: The Structure modules](README.md)
+| [Book 3: The Structure Modules](README.md)
 | Chapter 3 : Structure Data Model
 
 Prev: [Chapter 2 : First Steps](firststeps.md)
diff --git a/structure/symmetry.md b/structure/symmetry.md
@@ -202,3 +202,16 @@ below:
 
 This results can gives hints about the function and evolution of proteins and biological
 structures.
+
+<!--automatically generated footer-->
+
+---
+
+Navigation:
+[Home](../README.md)
+| [Book 3: The Structure Modules](README.md)
+| Chapter 14 : Protein Symmetry
+
+Prev: [Chapter 13 - Finding all Interfaces in Crystal: Crystal Contacts](crystal-contacts.md)
+
+Next: [Chapter 16 : Special Cases](special.md)
