[wpimath] Clean up Eigen usage

* Replace Matrix<> with Vector<> where vectors are explicitly intended.
  I found these via `rg "Eigen::Matrix<double, \w+, 1>"`.
* Pass all Eigen matrices by const reference. I found these via `rg
  "\(Eigen"` on main (the initializer list constructors make more false
  positives).
* Replace MakeMatrix() and operator<< usage with initializer list
  constructors. I found these via `rg MakeMatrix` and `rg "<<"`
  respectively.
* Deprecate MakeMatrix()

wpilibc/src/main/native/cpp/simulation/FlywheelSim.cpp

@@ -38,5 +38,5 @@ units::ampere_t FlywheelSim::GetCurrentDraw() const {
 }
 
 void FlywheelSim::SetInputVoltage(units::volt_t voltage) {
-  SetInput(frc::MakeMatrix<1, 1>(voltage.to<double>()));
+  SetInput(Eigen::Vector<double, 1>{voltage.to<double>()});
 }