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ebi-uniprot · Dec 6, 2024 · 47003db · 47003db
1 parent 606d6ef
commit 47003db
Showing 1 changed file with 15 additions and 0 deletions.
diff --git a/...arser/src/main/java/org/uniprot/core/parser/fasta/uniparc/UniParcProteomeFastaParser.java b/...arser/src/main/java/org/uniprot/core/parser/fasta/uniparc/UniParcProteomeFastaParser.java
@@ -29,6 +29,9 @@ public static String toFasta(UniParcEntry entry) {
         for(UniParcCrossReference xref: entry.getUniParcCrossReferences()){
             if(uniProtDatabases.contains(xref.getDatabase())){
                 uniProtXrefs.add(xref);
+                if(proteomeId == null && xref.hasProperties()){
+                    proteomeId = getProteomeId(xref.getProperties().get(0));
+                }
                 if(xref.isActive()){
                     hasActive = true;
                 }
@@ -51,6 +54,18 @@ public static String toFasta(UniParcEntry entry) {
         return sb.toString();
     }
 
+    private static String getProteomeId(Property property) {
+        String result = null;
+        String[] sourcePropertyValues = property.getValue().split(",");
+        if(sourcePropertyValues.length == 1){
+            String[] propertyValue = sourcePropertyValues[0].split(":");
+            if(propertyValue.length > 1){
+                result = propertyValue[1];
+            }
+        }
+        return result;
+    }
+
     private static StringBuilder getFastaHeader(List<UniParcCrossReference> xrefs, boolean hasActive, String id, String proteomeId, boolean isSource) {
         Set<String> proteinName = new LinkedHashSet<>();
         Set<String> geneNames = new LinkedHashSet<>();