# -*- coding: iso-8859-15 -*-
# Python reader of ISD files
## e.g. # read_ISD.py -c '#' -f 722317-13970-2005 -d description.dat -g true -t 19491201000000,seconds -s 'Baton Rouge METRO R,30.537,-91.147,23.2'
import numpy as np
from optparse import OptionParser
import os
from netCDF4 import Dataset as NetCDFFile

main = 'read_ISD.py'
errormsg = 'ERROR -- error -- ERROR -- error'
warnmsg = 'WARNING -- warning -- WARNING -- warning'

# version
version=1.1

# Filling values for floats, integer and string
fillValueF = 1.e20
fillValueI = -99999
fillValueS = '---'

# Length of the string variables
StringLength = 200

####### Different fixed tabuled values

quality_vals = ['Passed gross limits check', 'Passed all quality control checks',    \
  'Suspect', 'Erroneous',                                                            \
  'Passed gross limits check , data originate from an NCDC data source',             \
  'Passed all quality control checks, data originate from an NCDC data source',      \
  'Suspect, data originate from an NCDC data source',                                \
  'Erroneous, data originate from an NCDC data source',                              \
  'Passed gross limits check if element is present' ]

def searchInlist(listname, nameFind):
    """ Function to search a value within a list
    listname = list
    nameFind = value to find
    >>> searInlist(['1', '2', '3', '5'], '5')
    True
    """
    for x in listname:
      if x == nameFind:
        return True
    return False

def set_attribute(ncvar, attrname, attrvalue):
    """ Sets a value of an attribute of a netCDF variable. Removes previous attribute value if exists
    ncvar = object netcdf variable
    attrname = name of the attribute
    attrvalue = value of the attribute
    """
    import numpy as np
    from netCDF4 import Dataset as NetCDFFile

    attvar = ncvar.ncattrs()
    if searchInlist(attvar, attrname):
        attr = ncvar.delncattr(attrname)

    attr = ncvar.setncattr(attrname, attrvalue)

    return ncvar

def basicvardef(varobj, vstname, vlname, vunits):
    """ Function to give the basic attributes to a variable
    varobj= netCDF variable object
    vstname= standard name of the variable
    vlname= long name of the variable
    vunits= units of the variable
    """
    attr = varobj.setncattr('standard_name', vstname)
    attr = varobj.setncattr('long_name', vlname)
    attr = varobj.setncattr('units', vunits)

    return

def remove_NONascii(string):
    """ Function to remove that characters which are not in the standard 127 ASCII
      string= string to transform
    >>> remove_NONascii('Lluís')
    Lluis
    """
    fname = 'remove_NONascii'

    newstring = string

    RTFchar= ['á', 'é', 'í', 'ó', 'ú', 'à', 'è', 'ì', 'ò', 'ù', 'â', 'ê', 'î', 'ô',  \
      'û', 'ä', 'ë', 'ï', 'ö', 'ü', 'ç', 'ñ','æ', 'œ', 'Á', 'É', 'Í', 'Ó', 'Ú', 'À', \
      'È', 'Ì', 'Ò', 'Ù', 'Â', 'Ê', 'Î', 'Ô', 'Û', 'Ä', 'Ë', 'Ï', 'Ö', 'Ü', 'Ç', 'Ñ',\
      'Æ', 'Œ', '\n', '\t']
    ASCchar= ['a', 'e', 'i', 'o', 'u', 'a', 'e', 'i', 'o', 'u', 'a', 'e', 'i', 'o',  \
      'u', 'a', 'e', 'i', 'o', 'u', 'c', 'n','ae', 'oe', 'A', 'E', 'I', 'O', 'U', 'A', \
      'E', 'I', 'O', 'U', 'A', 'E', 'I', 'O', 'U', 'A', 'E', 'I', 'O', 'U', 'C', 'N',\
      'AE', 'OE', '', ' ']

    Nchars = len(RTFchar)
    for ichar in range(Nchars):
        foundchar = string.find(RTFchar[ichar])
        if foundchar != -1:
            newstring = newstring.replace(RTFchar[ichar], ASCchar[ichar])

    return newstring

def read_description(fdobs, dbg):
    """ reads the description file of the observational data-set 
    fdobs= descriptive observational data-set
    dbg= boolean argument for debugging
    * Each station should have a 'description.dat' file with:
      institution=Institution who creates the data
      department=Department within the institution
      scientists=names of the data producers
      contact=contact of the data producers
      description=description of the observations
      acknowledgement=sentence of acknowlegement
      comment=comment for the measurements

      MissingValue='|' list of ASCII values for missing values within the data 
        (as they appear!)
      comment=comments

      varN='|' list of variable names
      varLN='|' list of long variable names
      varU='|' list units of the variables
      varBUFR='|' list BUFR code of the variables
      varTYPE='|' list of variable types ('D', 'F', 'I', 'I64', 'S')
      varOPER='|' list of operations to do to the variables to meet their units ([oper],[val])
        [oper]=-,sumc,subc,mulc,divc (nothing, add, rest, multiply and divide)
      varL='|' list of length of the sections for each variable within a given line (Fortran-like)

      NAMElon=name of the variable with the longitude (x position)
      NAMElat=name of the variable with the latitude (y position)
      NAMEheight=ind_alt
      NAMEtime=name of the varibale with the time
      FMTtime=format of the time (as in 'C', 'CFtime' for already CF-like time)

    """
    fname = 'read_description'

    descobj = open(fdobs, 'r')
    desc = {}

    namevalues = []

    for line in descobj:
        if line[0:1] != '#' and len(line) > 1 :
            descn = remove_NONascii(line.split('=')[0])
            descv = remove_NONascii(line.split('=')[1])
            namevalues.append(descn)
            if descn[0:3] != 'var':
                if descn != 'MissingValue':
                    desc[descn] = descv
                else:
                    desc[descn] = []
                    for dn in descv.split('|'): desc[descn].append(dn)
                    print '  ' + fname + ': missing values found:',desc[descn]
            elif descn[0:3] == 'var':
                desc[descn] = descv.split('|')
            elif descn[0:4] == 'NAME':
                desc[descn] = descv
            elif descn[0:3] == 'FMT':
                desc[descn] = descv

    if dbg:
        Nvars = len(desc['varN'])
        print '  ' + fname + ": description content of '" + fdobs + "'______________"
        for varn in namevalues:
            if varn[0:3] != 'var':
                print '    ' + varn + ':',desc[varn]
            elif varn == 'varN':
                print '    * Variables:'
                for ivar in range(Nvars):
                    varname = desc['varN'][ivar]
                    varLname = desc['varLN'][ivar]
                    varunits = desc['varU'][ivar]
                    varsec = int(desc['varL'][ivar])
                    if desc.has_key('varBUFR'): 
                        varbufr = desc['varBUFR'][ivar]
                    else:
                        varbufr = None
                    if desc['varOPER'] is not None:
                        opv = desc['varOPER'][ivar]
                    else:
                        opv = None
                    print '      ', ivar, varname+':',varLname,'[',varunits, \
                       ']','bufr code:',varbufr,'oper:',opv

    descobj.close()

    return desc

def value_fmt(val, miss, op, fmt):
    """ Function to transform an ASCII value to a given format
      val= value to transform
      miss= list of possible missing values
      op= operation to perform to the value
      fmt= format to take:
        'D': float double precission
        'F': float
        'I': integer
        'I64': 64-bits integer
        'S': string
    >>> value_fmt('9876.12', '-999', 'F')
    9876.12
    """

    fname = 'value_fmt'

    aopers = ['sumc','subc','mulc','divc']

    fmts = ['D', 'F', 'I', 'I64', 'S']
    Nfmts = len(fmts)

    if not searchInlist(miss,val):
        if searchInlist(miss,'empty') and len(val) == 0: 
            newval = None
        else:
            if op != '-':
                opern = op.split(',')[0]
                operv = np.float(op.split(',')[1])

                if not searchInlist(aopers,opern):
                    print errormsg
                    print '  ' + fname + ": operation '" + opern + "' not ready!!"
                    print '    availables:',aopers
                    quit(-1)
            else:
                opern = 'sumc'
                operv = 0.

            if not searchInlist(fmts, fmt):
                print errormsg
                print '  ' + fname + ": format '" + fmt + "' not ready !!"
                quit(-1)
            else:
                if fmt == 'D':
                    opv = np.float32(operv)
                    if opern == 'sumc': newval = np.float32(val) + opv
                    elif opern == 'subc': newval = np.float32(val) - opv
                    elif opern == 'mulc': newval = np.float32(val) * opv
                    elif opern == 'divc': newval = np.float32(val) / opv
                elif fmt == 'F':
                    opv = np.float(operv)
                    if opern == 'sumc': newval = np.float(val) + opv
                    elif opern == 'subc': newval = np.float(val) - opv
                    elif opern == 'mulc': newval = np.float(val) * opv
                    elif opern == 'divc': newval = np.float(val) / opv
                elif fmt == 'I':
                    opv = int(operv)
                    if opern == 'sumc': newval = int(val) + opv
                    elif opern == 'subc': newval = int(val) - opv
                    elif opern == 'mulc': newval = int(val) * opv
                    elif opern == 'divc': newval = int(val) / opv
                elif fmt == 'I64':
                    opv = np.int64(operv)
                    if opern == 'sumc': newval = np.int64(val) + opv
                    elif opern == 'subc': newval = np.int64(val) - opv
                    elif opern == 'mulc': newval = np.int64(val) * opv
                    elif opern == 'divc': newval = np.int64(val) / opv
                elif fmt == 'S':
                    newval = val
    else:
        newval = None

    return newval

def writing_str_nc(varo, values, Lchar):
    """ Function to write string values in a netCDF variable as a chain of 1char values
    varo= netCDF variable object
    values = list of values to introduce
    Lchar = length of the string in the netCDF file
    """

    Nvals = len(values)
    for iv in range(Nvals):    
        if values[iv] is None:
            stringv = 'None'
        else:
            stringv = values[iv]  
        charvals = np.chararray(Lchar)
        Lstr = len(stringv)
        charvals[Lstr:Lchar] = ''

        for ich in range(Lstr):
            charvals[ich] = stringv[ich:ich+1]

        varo[iv,:] = charvals

    return

def Stringtimes_CF(tvals, fmt, Srefdate, tunits, dbg):
    """ Function to transform a given data in String formats to a CF date
      tvals= string temporal values
      fmt= format of the the time values
      Srefdate= reference date in [YYYY][MM][DD][HH][MI][SS] format
      tunits= units to use ('weeks', 'days', 'hours', 'minutes', 'seconds') 
      dbg= debug
    >>> Stringtimes_CF(['19760217082712','20150213101837'], '%Y%m%d%H%M%S', 
      '19491201000000', 'hours', False)
    [229784.45333333  571570.31027778]
    """
    import datetime as dt

    fname = 'Stringtimes'

    dimt = len(tvals)

    yrref = int(Srefdate[0:4])
    monref = int(Srefdate[4:6])
    dayref = int(Srefdate[6:8])
    horref = int(Srefdate[8:10])
    minref = int(Srefdate[10:12])
    secref = int(Srefdate[12:14])
    refdate = dt.datetime( yrref, monref, dayref, horref, minref, secref)

    cftimes = np.zeros((dimt), dtype=np.float)

    Nfmt=len(fmt.split('%'))

    if dbg: print '  ' + fname + ': fmt=',fmt,'refdate:',Srefdate,'uits:',tunits,    \
      'date dt_days dt_time deltaseconds CFtime _______'
    for it in range(dimt):

# Removing excess of mili-seconds (up to 6 decimals)
        if fmt.split('%')[Nfmt-1] == 'f':
            tpoints = tvals[it].split('.')
            if len(tpoints[len(tpoints)-1]) > 6:
                milisec = '{0:.6f}'.format(np.float('0.'+tpoints[len(tpoints)-1]))[0:7]
                newtval = ''
                for ipt in range(len(tpoints)-1):
                    newtval = newtval + tpoints[ipt] + '.'
                newtval = newtval + str(milisec)[2:len(milisec)+1]
            else:
                newtval = tvals[it]
            tval = dt.datetime.strptime(newtval, fmt)
        else:
            tval = dt.datetime.strptime(tvals[it], fmt)

        deltatime = tval - refdate
        deltaseconds = deltatime.days*24.*3600. + deltatime.seconds +                \
          deltatime.microseconds/100000.
        if tunits == 'weeks':
            deltat = 7.*24.*3600.
        elif tunits == 'days':
            deltat = 24.*3600.
        elif tunits == 'hours':
            deltat = 3600.
        elif tunits == 'minutes':
            deltat = 60.
        elif tunits == 'seconds':
            deltat = 1.
        else:
            print errormsg
            print '  ' + fname + ": time units '" + tunits + "' not ready !!"
            quit(-1)

        cftimes[it] = deltaseconds / deltat
        if dbg:
            print '  ' + tvals[it], deltatime, deltaseconds, cftimes[it]

    return cftimes

def additional_vars(string):
    """ Function for the additional variables
      string: sectino of the file line which has to be evaluated
    """
    fname = 'additional_vars'

    Lstring=len(string)

# Generic list of additional variables '-' for range of values
    addvars0 = ['AA1-4', 'AB1', 'AC1', 'AD1', 'AE1', 'AG1', 'AH1-6', 'AI1-6', 'AJ1', \
      'AK1', 'AL1-4', 'AM1', 'AN1', 'AO1-4', 'AP1-4', 'HPD', 'AU1-9', 'AW1-4',       \
      'AX1-6', 'AY1-2', 'AZ1-2', 'CB1-2', 'CF1-3', 'CG1-3', 'CH1-2', 'CI1', 'CN1-4', \
      'CO1-9', 'CR1', 'CT1-3', 'CU1-3', 'CV1-3', 'CW1-3', 'CX1-3', 'ED1', 'GA1-6',   \
      'GE1', 'GF1', 'GG1-6', 'GH1', 'GJ1', 'GK1', 'GM1', 'GN1', 'GO1', 'GP1', 'GQ1', \
      'GR1', 'HL1', 'IA1-2', 'IB1-2', 'IC1', 'KA1-4', 'KB1-3', 'KC1-2', 'KD1-2',     \
      'KE1', 'KF1', 'KG1-2', 'MA1', 'MD1', 'ME1', 'MF1', 'MG1', 'MH1', 'MK1',        \
      'MV1-7', 'MW1-7', 'OA1-3', 'OB1-2', 'OC1', 'OD1-3', 'OE1-3', 'RH1-3', 'SA1',   \
      'ST1', 'UA1', 'UG1-2', 'WA1', 'WD1', 'WG1', 'WJ1', 'REM', 'EQD', 'N01-99',     \
      'QNN']

    addvars = []
    for avar in addvars0:
        if avar.find('-') == -1:
            addvars.append(avar)
        else:
            totrange=avar.split('-')
            erange = totrange[1]

            if len(erange) > 1:
                irange = totrange[0][1:3]
            else:
                irange = totrange[0][2:3]
          
            for ir in range(int(irange), int(erange)+1):
                if len(erange) > 1:
                    addvars.append(avar[0:1] + str(ir).zfill(2))
                else:
                    addvars.append(avar[0:2] + str(ir))

#    print addvars
# Looking for the variables
    ichar=0

    additionals = []
    while ichar <= Lstring:
        sec3 = string[ichar:ichar+3]
        if searchInlist(addvars, sec3):
            additionals.append(sec3)
#            print '  ' , sec3, 'Additional!!'
            ichar = ichar + 2

        ichar = ichar + 1

    return additionals

def read_datavalues_conline(dataf, comchar, fmt, oper, Lv, miss, varns, dbg):
    """ Function to read from an ASCII file values in ISH format (continuos line)
      dataf= data file
      comchar= list of the characters indicating comment in the file
      dbg= debug mode or not
      fmt= list of kind of values to be found
      oper= list of operations to perform
      Lv= length of the value section
      miss= missing value
      varns= list of name of the variables to find
    """
    fname = 'read_datavalues_conline'

    ofile = open(dataf, 'r')
    Nvals = len(fmt)

    if oper is None:
        opers = []
        for ioper in range(Nvals):
            opers.append('-')
    else:
        opers = oper

    finalvalues = {}

    iline = 0
    for line in ofile:
        line = line.replace('\n','').replace(chr(13),'')
        Lline = len(line)
        if not searchInlist(comchar,line[0:1]) and len(line) > 1:
# Removing no-value columns
            values = []

            for ivar in range(Nvals):
                if ivar == 0:
                    isec = 0
                else:
                    isec = int(Lv[ivar-1])

                esec = int(Lv[ivar])
                val = line[isec:esec]

                values.append(val)
                if dbg: 
                    print iline, varns[ivar],'value:',values[ivar],miss,opers[ivar], \
                      fmt[ivar]

                if iline == 0:
                    listvals = []
                    listvals.append(value_fmt(values[ivar], miss, opers[ivar],       \
                      fmt[ivar]))
                    finalvalues[varns[ivar]] = listvals
                else:
                    listvals = finalvalues[varns[ivar]]
                    listvals.append(value_fmt(values[ivar], miss, opers[ivar],       \
                      fmt[ivar]))
                    finalvalues[varns[ivar]] = listvals
# Additional variables
            if Lline > esec and line[esec:esec+3] == 'ADD':
                if iline == 0: print '  ' + fname + ': Additional variables!!'
                ichar=esec+3
                print '    ', additional_vars(line[esec+4:Lline+1])

        else:
# First line without values
            if iline == 0: iline = -1
    
        iline = iline + 1

    ofile.close()

    return finalvalues

def adding_station_desc(onc,stdesc):
    """ Function to add a station description in a netCDF file
      onc= netCDF object
      stdesc= station description lon, lat, height
    """
    fname = 'adding_station_desc'

    newvar = onc.createVariable( 'station', 'c', ('StrLength'))
    newvar[0:len(stdesc[0])] = stdesc[0].replace('!', ' ')

    newdim = onc.createDimension('nst',1)

    newvar = objfile.createVariable( 'lonstGDM', 'c', ('nst','StrLength'))
    Gv = int(stdesc[1])
    Dv = int((stdesc[1] - Gv)*60.)
    Mv = int((stdesc[1] - Gv - Dv/60.)*3600.)
    writing_str_nc(newvar, [str(Gv)+"d" + str(Dv)+"m" + str(Mv)+'s'], StringLength)

    if onc.variables.has_key('lon'):
        print warnmsg
        print '  ' + fname + ": variable 'lon' already exist !!"
        print "    renaming it as 'lonst'"
        lonname = 'lonst'
    else:
        lonname = 'lon'

    newvar = onc.createVariable( lonname, 'f4', ('nst'))
    basicvardef(newvar, lonname, 'longitude', 'degrees_West' )
    newvar[:] = stdesc[1]

    newvar = objfile.createVariable( 'latstGDM', 'c', ('nst','StrLength'))
    Gv = int(stdesc[2])
    Dv = int((stdesc[2] - Gv)*60.)
    Mv = int((stdesc[2] - Gv - Dv/60.)*3600.)
    writing_str_nc(newvar, [str(Gv)+"d" + str(Dv)+"m" + str(Mv)+'s'], StringLength)

    if onc.variables.has_key('lat'):
        print warnmsg
        print '  ' + fname + ": variable 'lat' already exist !!"
        print "    renaming it as 'latst'"
        latname = 'latst'
    else:
        latname = 'lat'

    newvar = onc.createVariable( latname, 'f4', ('nst'))
    basicvardef(newvar, lonname, 'latitude', 'degrees_North' )
    newvar[:] = stdesc[2]

    if onc.variables.has_key('height'):
        print warnmsg
        print '  ' + fname + ": variable 'height' already exist !!"
        print "    renaming it as 'heightst'"
        heightname = 'heightst'
    else:
        heightname = 'height'

    newvar = onc.createVariable( heightname, 'f4', ('nst'))
    basicvardef(newvar, heightname, 'height above sea level', 'm' )
    newvar[:] = stdesc[3]

    return

####### ###### ##### #### ### ## #

strCFt="Refdate,tunits (CF reference date [YYYY][MM][DD][HH][MI][SS] format and " +  \
  " and time units: 'weeks', 'days', 'hours', 'miuntes', 'seconds')"

parser = OptionParser()
parser.add_option("-c", "--comments", dest="charcom",
  help="':', list of characters used for comments", metavar="VALUES")
parser.add_option("-d", "--descriptionfile", dest="fdesc",
  help="description file to use", metavar="FILE")
parser.add_option("-f", "--file", dest="obsfile",
  help="observational file to use", metavar="FILE")
parser.add_option("-g", "--debug", dest="debug",
  help="whther debug is required ('false', 'true')", metavar="VALUE")
parser.add_option("-s", "--stationLocation", dest="stloc",  
  help="',' list with Name, longitude, latitude and height of the station", metavar="VALUES")
parser.add_option("-t", "--CFtime", dest="CFtime", help=strCFt, metavar="VALUE")
(opts, args) = parser.parse_args()

#######    #######
## MAIN
    #######

ofile='ISD.nc'

if opts.charcom is None:
    print warnmsg
    print '  ' + main + ': No list of comment characters provided!!'
    print '    assuming no need!'
    charcomments = []
else:
    charcomments = opts.charcom.split(':')    

if opts.fdesc is None:
    print errormsg
    print '  ' + main + ': No description file for the observtional data provided!!'
    quit(-1)

if opts.obsfile is None:
    print errormsg
    print '  ' + main + ': ISD file not provided !!'
    quit(-1)

if opts.debug is None:
    print warnmsg
    print '  ' + main + ': No debug provided!!'
    print "    assuming 'False'"
    debug = False
else:
    if opts.debug == 'true':
        debug = True
    else:
        debug = False

if not os.path.isfile(opts.fdesc):
    print errormsg
    print '   ' + main + ": description file '" + opts.fdesc + "' does not exist !!"
    quit(-1)

if not os.path.isfile(opts.obsfile):
    print errormsg
    print '   ' + main + ": observational file '" + opts.obsfile + "' does not exist !!"
    quit(-1)

if opts.CFtime is None:
    print warnmsg
    print '  ' + main + ': No CFtime criteria are provided !!'
    print "    either time is already in CF-format ('timeFMT=CFtime') in '" +        \
      opts.fdesc + "'"
    print "    or assuming refdate: '19491201000000' and time units: 'hours'"
    referencedate = '19491201000000'
    timeunits = 'hours'
else:
    referencedate = opts.CFtime.split(',')[0]
    timeunits = opts.CFtime.split(',')[1]

if opts.stloc is None:
    print errornmsg
    print '  ' + main + ': No station location provided !!'
    quit(-1)
else:
    print opts.stloc.split(',')
    stationdesc = [opts.stloc.split(',')[0], np.float(opts.stloc.split(',')[1]),     \
      np.float(opts.stloc.split(',')[2]), np.float(opts.stloc.split(',')[3])]

# Reading description file
##
description = read_description(opts.fdesc, debug)

Nvariables=len(description['varN'])
formats = description['varTYPE']

if len(formats) != Nvariables: 
    print errormsg
    print '  ' + main + ': number of formats:',len(formats),' and number of ' +     \
      'variables', Nvariables,' does not coincide!!'
    print '    * what is found is _______'
    if Nvariables > len(formats):
        Nshow = len(formats)
        for ivar in range(Nshow):
            print '      ',description['varN'][ivar],':', description['varLN'][ivar],\
               '[', description['varU'][ivar], '] fmt:', formats[ivar]
        print '      missing values for:', description['varN'][Nshow:Nvariables+1]
    else:
        Nshow = Nvariables
        for ivar in range(Nshow):
            print '      ',description['varN'][ivar],':', description['varLN'][ivar],\
               '[', description['varU'][ivar], '] fmt:', formats[ivar]
        print '      excess of formats for:', formats[Nshow:len(formats)+1]

    quit(-1)

# Reading values
##
datavalues = read_datavalues_conline(opts.obsfile, charcomments, formats,            \
  description['varOPER'], description['varL'], description['MissingValue'],          \
  description['varN'], debug)

# Total number of values
Ntvalues = len(datavalues[description['varN'][0]])
print main + ': total temporal values found:',Ntvalues

objfile = NetCDFFile(ofile, 'w')

# Creation of dimensions
##
objfile.createDimension('time',None)
objfile.createDimension('StrLength',StringLength)

# Creation of variables
##
for ivar in range(Nvariables):
    varn = description['varN'][ivar]
    print "  including: '" + varn + "' ... .. ."

    if formats[ivar] == 'D':
        newvar = objfile.createVariable(varn, 'f32', ('time'), fill_value=fillValueF)
        basicvardef(newvar, varn, description['varLN'][ivar],                        \
          description['varU'][ivar])
        vals = np.array(datavalues[varn])
        for iv in range(Ntvalues):
            if vals[iv] is None: vals[iv] = fillValueF
        newvar[:] = vals
#        newvar[:] = np.where(datavalues[varn] is None, fillValueF, datavalues[varn])
    elif formats[ivar] == 'F':
        newvar = objfile.createVariable(varn, 'f', ('time'), fill_value=fillValueF)
        basicvardef(newvar, varn, description['varLN'][ivar],                        \
          description['varU'][ivar])
        vals = np.array(datavalues[varn])
        for iv in range(Ntvalues):
            if vals[iv] is None: vals[iv] = fillValueF
        newvar[:] = vals
#        newvar[:] = np.where(datavalues[varn] is None, fillValueF, datavalues[varn])
    elif formats[ivar] == 'I':
        newvar = objfile.createVariable(varn, 'i', ('time'), fill_value=fillValueI)
        basicvardef(newvar, varn, description['varLN'][ivar],                        \
          description['varU'][ivar])
# Why is not wotking with integers?
        vals = np.array(datavalues[varn])
        for iv in range(Ntvalues):
            if vals[iv] is None: vals[iv] = fillValueI
        newvar[:] = vals
    elif formats[ivar] == 'S':
        newvar = objfile.createVariable(varn, 'c', ('time','StrLength'))
        basicvardef(newvar, varn, description['varLN'][ivar],                        \
          description['varU'][ivar])
        writing_str_nc(newvar, datavalues[varn], StringLength)

# Time variable in CF format
##
if description['FMTtime'] == 'CFtime':
    timevals = datavalues[description['NAMEtime']]
    iv = 0
    for ivn in description['varN']:
        if ivn == description['NAMEtime']:
            tunits = description['varU'][iv]
            break
        iv = iv + 1
else:
    # Time as a composition of different columns
    tcomposite = description['NAMEtime'].find('@')
    if tcomposite != -1:
        timevars = description['NAMEtime'].split('@')

        print warnmsg
        print '  ' + main + ': time values as combination of different columns!'
        print '    combining:',timevars,' with a final format: ',description['FMTtime']

        timeSvals = []
        if debug: print '  ' + main + ': creating times _______'
        for it in range(Ntvalues):
            tSvals = ''
            for tvar in timevars:
                tSvals = tSvals + datavalues[tvar][it] + ' '

            timeSvals.append(tSvals[0:len(tSvals)-1])
            if debug: print it, '*' + timeSvals[it] + '*'

        timevals = Stringtimes_CF(timeSvals, description['FMTtime'], referencedate,      \
          timeunits, debug)
    else:
        timevals = Stringtimes_CF(datavalues[description['NAMEtime']],                   \
          description['FMTtime'], referencedate, timeunits, debug)

    CFtimeRef = referencedate[0:4] +'-'+ referencedate[4:6] +'-'+ referencedate[6:8] +   \
      ' ' + referencedate[8:10] +':'+ referencedate[10:12] +':'+ referencedate[12:14]
    tunits = timeunits + ' since ' + CFtimeRef

if objfile.variables.has_key('time'):
    print warnmsg
    print '  ' + main + ": variable 'time' already exist !!"
    print "    renaming it as 'CFtime'"
    timeCFname = 'CFtime'
    newdim = objfile.renameDimension('time','CFtime')
    newvar = objfile.createVariable( timeCFname, 'f8', ('CFtime'))
    basicvardef(newvar, timeCFname, 'time', tunits )
else:
    timeCFname = 'time'
    newvar = objfile.createVariable( timeCFname, 'f8', ('time'))
    basicvardef(newvar, timeCFname, 'time', tunits )

set_attribute(newvar, 'calendar', 'standard')
newvar[:] = timevals

# Global attributes
##
for descn in description.keys():
    if descn[0:3] != 'var' and descn[0:4] != 'NAME' and descn[0:3] != 'FMT':
        string=''
        for sval in description[descn]:
            string = string + str(sval) + ', '
        set_attribute(objfile, descn, string)

set_attribute(objfile,'author_nc','Lluis Fita')
set_attribute(objfile,'institution_nc','Laboratoire de Meteorology Dynamique, ' +    \
  'LMD-Jussieu, UPMC, Paris')
set_attribute(objfile,'country_nc','France')
set_attribute(objfile,'script_nc',main)
set_attribute(objfile,'version_script',version)

# Adding three variables with the station name, location, longitude, latitude and height
adding_station_desc(objfile,stationdesc)

objfile.sync()
objfile.close()

print main + ": Successfull generation of netcdf observational file '" + ofile + "' !!"