Thanks for your suggestion AK. I simplified my sim down to one beam but the second simulation does not behave as expected. I have outlined my test scenario below, all analysis settings are the same etc. 

In my first sim I applied a displacement inwards towards centre at each end

Here are the results 

In the second simulation I applied the same displacements but towards the outside. 

But I get ridiculous results, here are the results on non-deformed geometry and deformed geometry

Please could advise on how to run this scenario with a restart analysis. Where I can change my boundary conditions.