menu-func.py

import os
import sys
import subprocess
import time
print("Welcome to the PDB World")
fileN = raw_input("Enter PDB file path: ")
print "Processing data for " + fileN + "\nPlease Wait..."
time.sleep(1)
loop = 1
while loop ==1:        
	print("What do you want to do:")
	print("1)Center of mass")
	print("2)RMSD")
	print("3)PDB to fasta conveter")
	print("4)B-factor")
	print("5)Free R- value")
	print("6)Know the type of ATOMS")
  print("7 PDB params") 
	print("8)Secondary structure details")
	print("9)Sequence resolution")
	print("10)if you want to exit")

	choice = input("Choice your options")
	choice = int(choice)
	os.system("cls")

	if choice == 1:
	       print("1)Center of mass")
	       cmd2 = "~/PymolDSA/pdb_centermass.py" + " " + fileN
	       subprocess.Popen(cmd2, shell=True)
	       os.system(cmd2)
	       time.sleep(3)
	       

	if choice == 2:
	       print("Root mean Square Difference: ")
	       file2 = input("Enter File2 to get the Difference")	
	       cmd3 = "~/PymolDSA/rmsd.py" + " " + fileN + " " + file2
	       subprocess.Popen(cmd3, shell=True)
	       sys.stdin.read(1)
	       
	if choice == 3:
	       print("3)PDB to fasta conveter")
	       cmd1 = "~/PymolDSA/pdftofasta.py" + " " + fileN
	       subprocess.Popen(cmd1, shell=True) 
	       os.system(cmd1)
	       sys.stdin.read(1)

	if choice == 4:
	       print("4)B-factor")
         cmd5 = "~/PymolDSA/pdb_bfactor.py"+" "+ fileN
         subprocess.Popen(cmd5, shell= True)
	# if choice == 5:
	#        print("5)chiral center")
	# if choice == 6:
	#        print("6)Free R- value")
	#        cmd2 = "~/PymolDSA/com.py" + " " + fileN
  if choice == 7:
          print("7)PDB params")
          cmd5 = "~/PymolDSA/pdb_param.py" + " "+fileN
	if choice == 6:
          print("6)Know the type of ATOMS")
	       cmd4 = "~/PymolDSA/name.py"
         subprocess.Popen(cmd4, shell=True) 
	if choice == 8:
	       print("8)Secondary structure details")
         cmd5 = "~PymolDSA/pdb_torsion.py"
         subprocess.Popen(cmd5, shell=True) 
	if choice == 9:
	       print("9)Sequence resolution")
         cmd5 = "~/PymolDSA/pdb_seq.py"
         subprocess.Popen(cmd5, shell=True)
	if choice == 10:
	       loop ==0
	       exit
	      

	else:
		 print("please enter a valid option")

	os.system("cls")