Diff for selected atoms

selected atoms.diff

diff --git a/avogadro/qtgui/interfacescript.cpp b/avogadro/qtgui/interfacescript.cpp
index f0ad088..c0c2141 100644
--- a/avogadro/qtgui/interfacescript.cpp
+++ b/avogadro/qtgui/interfacescript.cpp
@@ -458,6 +458,14 @@ bool InterfaceScript::insertMolecule(QJsonObject& json,
   if (m_moleculeExtension == QLatin1String("None"))
     return true;
 
+  // insert the selected atoms
+  QJsonArray selectedList;
+  for (Index i = 0; i < mol.atomCount(); ++i) {
+    if (molecule.atomSelected(i))
+      selectedlist.append(i);
+  }
+  json.insert("selectedatoms", selectedList;
+
   Io::FileFormatManager& formats = Io::FileFormatManager::instance();
   QScopedPointer<Io::FileFormat> format(
     formats.newFormatFromFileExtension(m_moleculeExtension.toStdString()));