# To reproduce the data needed for clamping experiments in associated original paper,

def clampExp(simFign,simfile,V_clamp,paraKeys,paras,outKeys):

   import opencor as oc
   import numpy as np
   # The prefix of the saved output file name: simFign
   # V_clamp=[Vholding,t_ss, t_act,Vtest0, Vtestn, Vstep,]
   # Load the simulation file   
   simulation = oc.open_simulation(simfile)
   # The data object houses all the relevant information
   # and pointers to the OpenCOR internal data representations
   data = simulation.data()
   # Set the experiments
   Vtest = range (V_clamp[3], V_clamp[4], V_clamp[5])
   # Define the interval of interest for this simulation experiment
   pointInterval=0.01
   data.set_starting_point(0)
   data.set_ending_point(V_clamp[1]+V_clamp[2]+100)
   data.set_point_interval(pointInterval)
   # Data to save
   varName = np.array(['V']+outKeys)
   vars = np.reshape(varName, (1, len(varName)))
   row_start=int(V_clamp[1]/pointInterval-50) # to get the peak
   row_end=int((V_clamp[1]+V_clamp[2])/pointInterval) # to get the peak
   r = np.zeros((len(Vtest),len(varName)))
   
   for i, V in enumerate(Vtest): 
      # Reset states and parameters
      simulation.reset(True)
      # Set constant parameter values
      data.constants()['Clamp_parameters/V_actHolding'] = V_clamp[0]
      data.constants()['Clamp_parameters/t_ss'] = V_clamp[1]
      data.constants()['Clamp_parameters/t_act'] = V_clamp[2]
      data.constants()['Clamp_parameters/V_actTest'] = V
      for j, para in enumerate(paras):
         data.constants()[paraKeys[j]] = para
   
      simulation.run()
      # Access simulation results
      results = simulation.results()
      # Grab a specific algebraic variable results
      r[i,0] = V
      for j, outKey in enumerate(outKeys): 
         temp = results.algebraic()[outKey].values()[row_start:row_end]
         index_max = np.argmax(abs(temp))         
         r[i,j+1] = temp[index_max]
         
      # clear the results except the last run
      simulation.clear_results()
   
    # Save the simulation result of the last run
   filename='../simulatedData/sim%s.csv' % (simFign)
   np.savetxt(filename, vars, fmt='%s',delimiter=",")
   with open(filename, "ab") as f:
       np.savetxt(f, r, delimiter=",")
   f.close