LyrArc Article Gist
David Kirkpatrick, former Cairo bureau chief of the New York Times, gives an account of how the Obama  administration was split in its support of Egypt's beginnings in democracy. Chuck Hagel at Defense, and John Kerry at State Department, sent signals to the military that were different from that of some other members of the Obama administration. General Mattis at Central Command blamed president Morsi's failure on his " imperious leadership." General Flynn headed the Defense Intelligence Agency at the time of president Morsi's ouster by the military. Both Mattis and Flynn later joined the Trump administration with Mattis at Defense. 

This report says president Obama accepted the military takeover. President Obama aroused hopes for democracy at Cairo University soon after he became president but he was not able to develop a coherent policy and support within his administration for what would be a difficult transition to democracy in countries that for decades have been ruled by the military. President Trump merely continued the policy followed during the last 2 years of the Obama administration.