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[jalview.git]
/
forester
/
java
/
src
/
org
/
forester
/
surfacing
/
DomainSimilarity.java
diff --git
a/forester/java/src/org/forester/surfacing/DomainSimilarity.java
b/forester/java/src/org/forester/surfacing/DomainSimilarity.java
index
b6ae576
..
bf9cef4
100644
(file)
--- a/
forester/java/src/org/forester/surfacing/DomainSimilarity.java
+++ b/
forester/java/src/org/forester/surfacing/DomainSimilarity.java
@@
-30,7
+30,6
@@
import java.util.Map;
import java.util.SortedMap;
import java.util.SortedSet;
import java.util.SortedMap;
import java.util.SortedSet;
-import org.forester.protein.DomainId;
import org.forester.species.Species;
import org.forester.surfacing.PrintableDomainSimilarity.PRINT_OPTION;
import org.forester.species.Species;
import org.forester.surfacing.PrintableDomainSimilarity.PRINT_OPTION;
@@
-48,9
+47,9
@@
public interface DomainSimilarity extends Comparable<DomainSimilarity> {
MIN, MAX, SD, MEAN, ABS_MAX_COUNTS_DIFFERENCE, MAX_COUNTS_DIFFERENCE, MAX_DIFFERENCE, SPECIES_COUNT, DOMAIN_ID,
}
MIN, MAX, SD, MEAN, ABS_MAX_COUNTS_DIFFERENCE, MAX_COUNTS_DIFFERENCE, MAX_DIFFERENCE, SPECIES_COUNT, DOMAIN_ID,
}
- public SortedSet<DomainId> getCombinableDomainIds( final Species species_of_combinable_domain );;
+ public SortedSet<String> getCombinableDomainIds( final Species species_of_combinable_domain );
- public DomainId getDomainId();
+ public String getDomainId();
/**
* For pairwise similarities, this should return the "difference"; for example the difference in counts
/**
* For pairwise similarities, this should return the "difference"; for example the difference in counts
@@
-98,7
+97,7
@@
public interface DomainSimilarity extends Comparable<DomainSimilarity> {
*
* @return SortedMap<String, SpeciesSpecificDomainSimilariyData>
*/
*
* @return SortedMap<String, SpeciesSpecificDomainSimilariyData>
*/
- public SortedMap<Species, SpeciesSpecificDomainSimilariyData> getSpeciesData();
+ public SortedMap<Species, SpeciesSpecificDcData> getSpeciesData();
public double getStandardDeviationOfSimilarityScore();
public double getStandardDeviationOfSimilarityScore();