/** {@inheritDoc} */
@Override
public Evidence[] mapFromTable(CyEdge edge, CyTable table) {
if (edge == null) throw new NullPointerException("edge cannot be null");
if (table == null) throw new NullPointerException("table cannot be null");
Set<String> nonAnnotationColumns =
new HashSet<String>(
asList(
CyNetwork.SUID,
NETWORK_SUID,
NETWORK_NAME,
EDGE_SUID,
BEL_STATEMENT,
SUMMARY_TEXT,
CITATION_ID,
CITATION_NAME,
CITATION_TYPE,
SPECIES));
Collection<CyRow> evidenceRows = table.getMatchingRows(EDGE_SUID, edge.getSUID());
List<Evidence> evidences = new ArrayList<Evidence>(evidenceRows.size());
if (!evidenceRows.isEmpty()) {
for (CyRow evRow : evidenceRows) {
Evidence e = new Evidence();
e.belStatement = evRow.get(BEL_STATEMENT, String.class);
e.summaryText = evRow.get(SUMMARY_TEXT, String.class);
e.citation = new Citation();
e.citation.id = evRow.get(CITATION_ID, String.class);
e.citation.name = evRow.get(CITATION_NAME, String.class);
e.citation.type = evRow.get(CITATION_TYPE, String.class);
e.biologicalContext = new BiologicalContext();
e.biologicalContext.speciesCommonName = evRow.get(SPECIES, String.class);
e.biologicalContext.variedAnnotations = new HashMap<String, Object>();
for (Entry<String, Object> columnValue : evRow.getAllValues().entrySet()) {
if (nonAnnotationColumns.contains(columnValue.getKey())) continue;
e.biologicalContext.variedAnnotations.put(columnValue.getKey(), columnValue.getValue());
}
evidences.add(e);
}
}
return evidences.toArray(new Evidence[evidences.size()]);
}
