How to use

setFileId

method

in

org.opencb.biodata.models.variant.StudyEntry

public StudyEntry(String fileId, String studyId) {
  this(studyId, new ArrayList<>(), null);
  if (fileId != null) {
    setFileId(fileId);
  }
}

/**
 * @deprecated Use {@link #StudyEntry(String, List, List)}
 */
@Deprecated
public StudyEntry(String fileId, String studyId, List<String> secondaryAlternates, List<String> format) {
  this.impl = new org.opencb.biodata.models.variant.avro.StudyEntry(studyId,
      new ArrayList<>(), null, format, new ArrayList<>(), new LinkedHashMap<>(), new ArrayList<>());
  setSecondaryAlternatesAlleles(secondaryAlternates);
  if (fileId != null) {
    setFileId(fileId);
  }
}

StudyEntry entry = new StudyEntry(metadata.getId(), secondaryAlternatesMap, Arrays.asList(format.split(":")));
VariantFileMetadata fileMetadata = new VariantFileMetadata(metadata.getFiles().get(0));
entry.setFileId(fileMetadata.getId());
variant.addStudyEntry(entry);

/**
 * @param n
 * @return studyEntryList
 */
public List<StudyEntry> getStudies(int n) {
  int studyID = 2;
  int fieldID = 3;
  List<StudyEntry> studyEntryList = new ArrayList<>();
  StudyEntry studyEntry = new StudyEntry();
  studyEntry.setStudyId(Integer.toString(studyID));
  studyEntry.setFileId(Integer.toString(fieldID));
  Map<String, String> attributes = genAttributes();
  studyEntry.setAttributes(attributes);
  studyEntry.setFormat(getFormat());
  List<List<String>> sampleList = new ArrayList<>(getFormat().size());
  for (int i = 0; i < n; i++) {
    sampleList.add(getRandomample());
  }
  studyEntry.setSamplesData(sampleList);
  studyEntryList.add(studyEntry);
  return studyEntryList;
}