improve fasta details

ebi-uniprot · Dec 9, 2024 · 6e1c554 · 6e1c554
1 parent 47003db
commit 6e1c554
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Showing 2 changed files with 2 additions and 18 deletions.
diff --git a/core-parser/src/main/java/org/uniprot/core/parser/fasta/uniparc/UniParcFastaParser.java b/core-parser/src/main/java/org/uniprot/core/parser/fasta/uniparc/UniParcFastaParser.java
@@ -5,6 +5,7 @@
 import org.uniprot.core.uniparc.UniParcEntry;
 import org.uniprot.core.uniparc.UniParcEntryLight;
 
+import static org.uniprot.core.parser.fasta.FastaUtils.*;
 import static org.uniprot.core.uniparc.impl.UniParcEntryLightBuilder.HAS_ACTIVE_CROSS_REF;
 
 /**
@@ -40,14 +41,7 @@ private static String getFastaString(String entry, String status, Sequence seque
         sb.append(">").append(entry).append(" ");
         sb.append("status=").append(status);
         sb.append("\n");
-        int columnCounter = 0;
-        for (char c : sequence.getValue().toCharArray()) {
-            if (columnCounter % 60 == 0 && columnCounter > 0) {
-                sb.append("\n");
-            }
-            sb.append(c);
-            columnCounter++;
-        }
+        sb.append(parseSequence(sequence.getValue()));
         return sb.toString();
     }
 }
diff --git a/xml-parser/src/main/java/org/uniprot/core/xml/uniparc/UniParcDBCrossReferenceConverter.java b/xml-parser/src/main/java/org/uniprot/core/xml/uniparc/UniParcDBCrossReferenceConverter.java
@@ -23,16 +23,6 @@
  */
 public class UniParcDBCrossReferenceConverter
         implements Converter<DbReferenceType, UniParcCrossReference> {
-
-    public static final String PROPERTY_GENE_NAME = "gene_name";
-    public static final String PROPERTY_PROTEIN_NAME = "protein_name";
-    public static final String PROPERTY_CHAIN = "chain";
-    public static final String PROPERTY_NCBI_GI = "NCBI_GI";
-    public static final String PROPERTY_PROTEOME_ID = "proteome_id";
-    public static final String PROPERTY_COMPONENT = "component";
-    public static final String PROPERTY_NCBI_TAXONOMY_ID = "NCBI_taxonomy_id";
-    public static final String PROPERTY_UNIPROTKB_ACCESSION = "UniProtKB_accession";
-
     private final ObjectFactory xmlFactory;
     private final TaxonomyRepo taxonomyRepo;