import java.util.HashMap;
import java.util.HashSet;
+// JBPComment: this isn't a top-level Jalview API - should be in its own package api
+
public interface SiftsClientI
{
/**
public String getDbCoordSys();
/**
- * Get DB Evidence for the SIFTs Entry
- *
- * @return
- */
- public String getDbEvidence();
-
- /**
* Get DB Source for the SIFTs Entry
*
* @return
public boolean isAccessionMatched(String accessionId);
/**
- * Get the standard DB referenced by the SIFTs Entry
- *
- * @return
- */
- public String[] getEntryDBs();
-
- /**
*
* @param mop
* MappingOutputPojo
* @return Sequence<->Structure mapping as int[][]
* @throws SiftsException
*/
- public StringBuffer getMappingOutput(MappingOutputPojo mop)
+ public StringBuilder getMappingOutput(MappingOutputPojo mop)
throws SiftsException;
/**
*/
public StructureMapping getSiftsStructureMapping(SequenceI seq,
String pdbFile, String chain) throws SiftsException;
-
+
/**
* Get residue by residue mapping for a given Sequence and SIFTs entity
*
* @throws Exception
*/
public HashMap<Integer, int[]> getGreedyMapping(String entityId,
- SequenceI seq,
- java.io.PrintStream os) throws SiftsException;
+ SequenceI seq, java.io.PrintStream os) throws SiftsException;
}
\ No newline at end of file