Update README.md
Merge conflicts
Updating example1.xml to use the <Simulation> (a.o.t. the <SimulationSet>) element, since this is the preferred form
for the NML2 examples and the older form seemed to be broken in the latest pylems
Adding example to parse the data tree of loaded LEMS
Update readwrite.py
ignoring some files
Merge from rewrite
Fixed git command
Moved readwrite.py back into examples