Changeset 5f697c for molecuilder/src/atom_bondedparticle.cpp

Timestamp:

Oct 30, 2009, 9:05:30 AM (16 years ago)

Author:

Frederik Heber <heber@…>

Children:

b84ab4

Parents:

bc8155

git-author:

Frederik Heber <heber@…> (10/30/09 08:30:57)

git-committer:

Frederik Heber <heber@…> (10/30/09 09:05:30)

Message:

New class BondGraph.

• BondGraph parses a file containing bond lengths and basically has a member function which gives lower and upper bounds on when two atoms are bonded and when not.
  • BondGraph::LoadBondLengthTable() - basically uses MatrixContainer::ParseMatrix()
  • BondGraph::ConstructBondGraph() - uses molecule::CreateAdjacency() but with different bounds-function.
  • BondGraph::GetBondLength() - returns entry from parsed bond length matrix
  • BondGraph::CovalentMinMaxDistance() - bounds function using covalent radii of involved elements
  • BondGraph::BondLengthMatrixMinMaxDistance() - bounds function which uses the parsed bond length matrix
• Unit test written for BondGraph.
• molecule::CreateAdjacencyList() - rewritten, takes now a bounds BondGraph member function, if NULL is given, creates its own BondGraph and uses standard covalent bounds function (which does not need any scanning).
• new function BondedParticle::IsBondedTo() which checks whether given BondedPasrticle is contained in ListOfBonds.
• builder.cpp: calls to molecule::CreateAdjacencyList() adapted to new syntax.

File:

• molecuilder/src/atom_bondedparticle.cpp (modified) (1 diff)

molecuilder/src/atom_bondedparticle.cpp

@@ -151 +151 @@
 };
 
+/** Checks whether there is a bond between \a this atom and the given \a *BondPartner.
+ * \param *BondPartner atom to check for
+ * \return true - bond exists, false - bond does not exist
+ */
+bool BondedParticle::IsBondedTo(BondedParticle * const BondPartner)
+{
+  bool status = false;
+
+  for (BondList::iterator runner = ListOfBonds.begin(); runner != ListOfBonds.end(); runner++) {
+    status = status || ((*runner)->Contains(BondPartner));
+  }
+  return status;
+};
+