import jalview.datamodel.AlignmentI;
import jalview.datamodel.SequenceFeature;
+import jalview.datamodel.SequenceI;
+import jalview.util.Platform;
+
+import java.util.ArrayList;
+import java.util.List;
import com.stevesoft.pat.Regex;
* or ENSMUSP or similar for other species
* or CCDSnnnnn.nn with at least 3 digits
*/
- private static final Regex ACCESSION_REGEX = new Regex(
+ private static final Regex ACCESSION_REGEX = Platform.newRegex(
"(ENS([A-Z]{3}|)P[0-9]{11}$)" + "|" + "(CCDS[0-9.]{3,}$)");
/**
}
@Override
- protected boolean identifiesSequence(SequenceFeature sf, String accId)
+ protected List<SequenceFeature> getIdentifyingFeatures(SequenceI seq,
+ String accId)
{
- // not applicable - protein sequence is not a 'subset' of genomic sequence
- return false;
+ return new ArrayList<>();
}
@Override