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[jalview.git]
/
forester
/
java
/
src
/
org
/
forester
/
protein
/
Protein.java
diff --git
a/forester/java/src/org/forester/protein/Protein.java
b/forester/java/src/org/forester/protein/Protein.java
index
a4512df
..
4b81f46
100644
(file)
--- a/
forester/java/src/org/forester/protein/Protein.java
+++ b/
forester/java/src/org/forester/protein/Protein.java
@@
-22,7
+22,7
@@
// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: phylosoft @ gmail . com
// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
package org.forester.protein;
package org.forester.protein;
@@
-46,7
+46,7
@@
public interface Protein {
* @param in_nc_order to consider order
* @return
*/
* @param in_nc_order to consider order
* @return
*/
- public boolean contains( final List<DomainId> domains, final boolean in_nc_order );
+ public boolean contains( final List<String> domains, final boolean in_nc_order );
public String getAccession();
public String getAccession();
@@
-58,15
+58,17
@@
public interface Protein {
public Domain getProteinDomain( final int index );
public Domain getProteinDomain( final int index );
- public int getProteinDomainCount( final DomainId domain_id );
+ public int getProteinDomainCount( final String domain_id );
public List<Domain> getProteinDomains();
public List<Domain> getProteinDomains();
- public List<Domain> getProteinDomains( final DomainId domain_id );
+ public List<Domain> getProteinDomains( final String domain_id );
public ProteinId getProteinId();
public int getLength();
public Species getSpecies();
public ProteinId getProteinId();
public int getLength();
public Species getSpecies();
+
+ public List<Domain> getDomainsSortedByPosition();
}
\ No newline at end of file
}
\ No newline at end of file