X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fapi%2FDBRefEntryI.java;h=52ee381454316a90ba1cd0b3d268c1c5bf688204;hb=ac93424cd4c19aa35f7831e4f3da7bbcaf6baf15;hp=701acb663ce60ad3b3e5fe30fa5d437f5b40a210;hpb=168ef5a045478ef56a5d9f8c71fbddb53a6b8a58;p=jalview.git
diff --git a/src/jalview/api/DBRefEntryI.java b/src/jalview/api/DBRefEntryI.java
index 701acb6..52ee381 100644
--- a/src/jalview/api/DBRefEntryI.java
+++ b/src/jalview/api/DBRefEntryI.java
@@ -72,26 +72,23 @@ public interface DBRefEntryI
public boolean updateFrom(DBRefEntryI otherEntry);
/**
- * Method to distinguish between direct and indirect database references
- *
- * primary references indicate the local sequence data directly corresponds
- * with the database record. All other references are secondary. direct
+ * Answers true if the ref looks like a primary (direct) database reference.
+ * The only way a dbref's mappings can be fully verified is via the local
+ * sequence frame, so rather than use isPrimaryCandidate directly, please use
+ * SequenceI.getPrimaryDbRefs().
+ * Primary references indicate the local sequence data directly corresponds
+ * with the database record. All other references are secondary. Direct
* references indicate that part or all of the local sequence data can be
* mapped with another sequence, enabling annotation transfer.
- * cross-references indicate the local sequence data can be corresponded to
- * some other linear coordinate system via a transformation.
- *
+ * Cross-references indicate the local sequence data can be corresponded to
+ * some other linear coordinate system via a transformation.
* This method is also sufficient to distinguish direct DBRefEntry mappings
* from other relationships - e.g. coding relationships (imply a 1:3/3:1
* mapping), but not transcript relationships, which imply a (possibly
- * non-contiguous) 1:1 mapping
- *
- * The only way a dbref's mappings can be fully verified is via the local
- * sequence frame, so rather than use isPrimary directly, please use
- * SequenceI.getPrimaryDbRefs()
+ * non-contiguous) 1:1 mapping.
*
* @return true if this reference provides a primary accession for the
* associated sequence object
*/
- public boolean isPrimary();
+ public boolean isPrimaryCandidate();
}