update

drseb · Nov 30, 2017 · d4db81a · d4db81a
1 parent 5d5106f
commit d4db81a
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Showing 2 changed files with 9 additions and 4 deletions.
diff --git a/obo2xls.jar b/obo2xls.jar
diff --git a/src/de/phenomics/Obo2Xls.java b/src/de/phenomics/Obo2Xls.java
@@ -3,6 +3,7 @@
 import java.io.File;
 import java.io.FileOutputStream;
 import java.io.IOException;
+import java.util.ArrayList;
 import java.util.Arrays;
 import java.util.stream.Collectors;
 
@@ -122,17 +123,21 @@ private static void createXlsFromObo(Ontology ontology, Term selectedRootTerm, S
  XSSFCellStyle style = wb.createCellStyle();
  style.setFont(bold);
 
- /*
- * New terms report
- */
  Sheet sheet0 = wb.createSheet("Excel version of " + fileNameParsedOboFrom + " version: " + date);
  int rowIndex = 0;
  String[] headersTermAdd = new String[] { "Class Label", "Class ID", "Alternative IDs", "Synonyms (separated by semicolon)", "Definition",
  "Subclass-of (label+id)" };
 
  rowIndex = createHeaderRow(createHelper, style, rowIndex, sheet0, headersTermAdd);
 
- for (Term term : ontology) {
+ ArrayList<Term> termsToReport = new ArrayList<>();
+ if (selectedRootTerm != null) {
+ termsToReport.addAll(ontologySlim.getDescendants(selectedRootTerm));
+ } else {
+ termsToReport.addAll(ontology.getAllTerms());
+ }
+
+ for (Term term : termsToReport) {
 
  Row row = sheet0.createRow((short) rowIndex++);