read_method.py

# -*- coding: utf-8 -*-
"""
Created on Wed Mar  7 10:40:47 2018

@author: Sara Zullino
"""

"""
Read Bruker visu_pars file.

Returns a dictionary of paramaters.

Adapted from Matteo Caffini
"""    
import re
import numpy as np
from datetime import datetime

def read_method_parameters(filename):

#filename = 'F:/Sara Zullino/CIM/MRI_CEST_OLEA/7T_gluco_iopa/red20180221_122112_aa_gluco_PET_b16_15_1_1/11/method'

    file_ID = open(filename, 'r')
    C = file_ID.read()
    file_ID.close()
        
    C = re.sub('\$\$([^\n]*)\n','',C)
    C = re.split('\s*##',C)
    C.remove('')
    
    parameters = {'_extra':[]}
    orig = {'_extra':[]}
        
    for ii in range(len(C)):
        parameter_line = C[ii]
        splitter = re.search('=',parameter_line)
        
        # process parameter name
        name = parameter_line[:splitter.start()]
        if '$' in name:
            name = name.replace('$','')
        else:
            pass
        
        # process parameter value
        value = parameter_line[splitter.end():]
        orig[name] = value
        
        if '\n' not in value:
            try:
                value = float(value)
                if round(value) == value:
                    value = int(value)
                else:
                    pass
            except:
                try:
                    value = int(value)
                except:
                    pass
        else:
            splitter = re.search('\n',value)
            first_part = value[:splitter.start()]
            second_part = value[splitter.end():]
            
            if '(' and ')' in first_part:
                first_part = ""
            else:                    
                first_part = first_part.replace(' ','')
                first_part = first_part.replace('(','')
                first_part = first_part.replace(')','') 
            
            try:
                value_size = [int(i) for i in first_part.split(',')]
                value_size = tuple(value_size)
            except:
                pass
            
            second_part = second_part.split()
    
            if len(second_part) == 0:
                second_part = ''
            elif len(second_part) == 1:
                second_part = second_part[0]
                try:
                    second_part = float(second_part)
                    if round(second_part) == second_part:
                        value = int(second_part)
                except:
                    try:
                        value = int(second_part)
                    except:
                        pass
            else:
                second_part = [second_part[i].replace('<','') for i in range(len(second_part))]
                second_part = [second_part[i].replace('>','') for i in range(len(second_part))]
                if ':' in second_part[0]:
                    datestring = ' '.join(second_part)
                    #second_part = datetime.strptime(datestring,'%H:%M:%S %d %b %Y') #avoid interpret the line Auto Adj
                else:
                    pass
                try:
                    second_part = np.array(second_part,dtype=float)
                    second_part = np.reshape(second_part,value_size)
                except:
                    pass
            try:        
                second_part = second_part.replace('<','')
                second_part = second_part.replace('>','')
            except:
                pass

            value = str(first_part) + str(second_part)      #manipulate strings to read them correctly
            value = value.replace('[','')     
            value = value.replace('(','')
            value = value.replace(')','')
            value = value.replace(']','')
            value = value.replace("'",'')
            value = value.replace(',,',',')
            value = value.replace('\n','')
            value = value.split(',')
            #parameters.get("PVM_MagTransPulse1").split(',')
        
        parameters[name] = value
    
    del parameters['_extra']
        
    return parameters