JAL-2629 adjust log parameter slightly and reduce granularity

[jalview.git] / src / jalview / api / AlignViewportI.java

diff --git a/src/jalview/api/AlignViewportI.java b/src/jalview/api/AlignViewportI.java
index 4b6dc4e..a35c2a4 100644 (file)
--- a/src/jalview/api/AlignViewportI.java
+++ b/src/jalview/api/AlignViewportI.java
@@ -108,8 +108,6 @@ public interface AlignViewportI extends ViewStyleI
 
   ProfilesI getSequenceConsensusHash();
 
-  ProfilesI getSequenceInformationHash();
-
   /**
    * Get consensus data table for the cDNA complement of this alignment (if any)
    * 
@@ -137,13 +135,6 @@ public interface AlignViewportI extends ViewStyleI
   AlignmentAnnotation getAlignmentConsensusAnnotation();
 
   /**
-   * get the container for alignment information content annotation
-   * 
-   * @return
-   */
-  AlignmentAnnotation getAlignmentInformationAnnotation();
-
-  /**
    * get the container for alignment gap annotation
    * 
    * @return
@@ -190,13 +181,6 @@ public interface AlignViewportI extends ViewStyleI
   void setSequenceConsensusHash(ProfilesI hconsensus);
 
   /**
-   * set the information result object for the viewport
-   * 
-   * @param hconsensus
-   */
-  void setSequenceInformationHash(ProfilesI hinformation);
-
-  /**
    * Set the cDNA complement consensus for the viewport
    * 
    * @param hconsensus
@@ -521,5 +505,28 @@ public interface AlignViewportI extends ViewStyleI
   @Override
   void setProteinFontAsCdna(boolean b);
 
-  ProfilesI setSequenceInformationHash();
+  void setSequenceInformationHashes(List<ProfilesI> info);
+
+  List<ProfilesI> getSequenceInformationHashes();
+
+  ProfilesI getSequenceInformationHash(int index);
+
+  List<AlignmentAnnotation> getInformationAnnotations();
+
+  AlignmentAnnotation getInformationAnnotation(int index);
+
+  void setSequenceInformationHash(ProfilesI info, int index);
+
+  /**
+   * Initiates the information annotation for all uninitiated sequences.
+   */
+  void initInformation();
+
+  /**
+   * Updates all information annotations.
+   * 
+   * @param ap
+   */
+  void updateInformation(AlignmentViewPanel ap);
+
 }