This introduces some Doxygen warnings because references broke.  This fixes 
them:
```diff
diff --git a/src/document.c b/src/document.c
index 902c2d4..f3de37c 100644
--- a/src/document.c
+++ b/src/document.c
@@ -3273,9 +3273,9 @@ const GdkColor *document_get_status_color(GeanyDocument 
*doc)
 }
 
 
-/** Accessor function for @ref documents_array items.
+/** Accessor function for @ref GeanyData::documents_array items.
  * @warning Always check the returned document is valid (@c doc->is_valid).
- * @param idx @c documents_array index.
+ * @param idx @c GeanyData::documents_array index.
  * @return @transfer{none} @nullable The document, or @c NULL if @a idx is out 
of range.
  *
  *  @since 0.16
diff --git a/src/document.h b/src/document.h
index 16316f4..9ecf3fb 100644
--- a/src/document.h
+++ b/src/document.h
@@ -75,7 +75,7 @@ GeanyFilePrefs;
  **/
 typedef struct GeanyDocument
 {
-       /** Flag used to check if this document is valid when iterating @ref 
documents_array. */
+       /** Flag used to check if this document is valid when iterating @ref 
GeanyData::documents_array. */
        gboolean                 is_valid;
        gint                     index;         /**< Index in the documents 
array. */
        /** Whether this document supports source code symbols(tags) to show in 
the sidebar. */
@@ -118,7 +118,7 @@ typedef struct GeanyDocument
 }
 GeanyDocument;
 
-/** Wraps @ref documents_array so it can be used with C array syntax.
+/** Wraps @ref GeanyData::documents_array so it can be used with C array 
syntax.
  * @warning Always check the returned document is valid (@c doc->is_valid).
  *
  * Example: @code GeanyDocument *doc = documents[i]; @endcode
@@ -135,7 +135,7 @@ GeanyDocument;
 
 /** Iterates all valid document indexes.
  * Use like a @c for statement.
- * @param i @c guint index for @ref documents_array.
+ * @param i @c guint index for @ref GeanyData::documents_array.
  *
  * Example:
  * @code
```

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